Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 16 of 33
Found at i:2277551 original size:166 final size:166
Alignment explanation
Indices: 2277372--2278048 Score: 869
Period size: 166 Copynumber: 4.1 Consensus size: 166
2277362 GGGCAAATTG
* * **
2277372 GTAAATATTAAAAAAAATTGTTCATAGGCCAAATGTGGTTGGCTGAATCTTTCTTGTAATTTTTG
1 GTAAATATTAAAAAAATTTGTTCATAGGCCAAAAGTACTTGGCTGAATCTTTCTTGTAATTTTTG
2277437 GATCTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAATTTTATGTTTTAATTATATAAGGA
66 GATCTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAATTTTATGTTTTAATTATATAAGGA
*
2277502 CCAATTTGTAATTTTAGAAAGTTTAAAGATTTAAGT
131 CCAATTTGTAATTTTAAAAAGTTTAAAGATTTAAGT
** * *
2277538 GTAAATATTAAAAACTTTTGTTCCA-AGGCCAAAAGTACTTGACTGAATCTTTCTTATAATTTTT
1 GTAAATATTAAAAAAATTTGTT-CATAGGCCAAAAGTACTTGGCTGAATCTTTCTTGTAATTTTT
* * * ** * *
2277602 GGATTTGATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTGTGTTTTAATTATATAGGG
65 GGATCTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAATTTTATGTTTTAATTATATAAGG
*** *
2277667 ACCAATTTGTAATTTTAAAAAGTTTAAAG-GCAAATTT
130 ACCAATTTGTAATTTTAAAAAGTTTAAAGATTTAA-GT
* ** * * *
2277704 GTAAATATTAAAAAAATTTGTTCATAGGCCAAAGGTGGTTAGTTGAATCTTTCTTGTAATTTTTA
1 GTAAATATTAAAAAAATTTGTTCATAGGCCAAAAGTACTTGGCTGAATCTTTCTTGTAATTTTTG
* * * * * *
2277769 GATCTGATTTTTATGTTAATTTTGATATGTTCGATATTTAATTTTGTGTTTTATTTATATAAAGA
66 GATCTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAATTTTATGTTTTAATTATATAAGGA
* * *
2277834 CCAATTTGTAATTTTAGAAAGTTTAGAGATATAAGT
131 CCAATTTGTAATTTTAAAAAGTTTAAAGATTTAAGT
* * **
2277870 GTAAATATT-GAAAATTTTGTTC-TAAGGCCAAAAGTACTTGGCTGAATCTTTCTACTAATTTTT
1 GTAAATATTAAAAAAATTTGTTCAT-AGGCCAAAAGTACTTGGCTGAATCTTTCTTGTAATTTTT
* *
2277933 GGATCTAATTTTTGT-TTGGATTTTGATATGTTTGATATTTAATTTTATGTTTTAATTATATAGG
65 GGATCTAATTTTTGTGTT-GATTTTGATATGTTCGATATTTAATTTTATGTTTTAATTATATAAG
* * **
2277997 GATCAATTTTTAATTTTAAAAAAGTTTAGGGATTTAAGT
129 GACCAATTTGTAATTTT-AAAAAGTTTAAAGATTTAAGT
2278036 GTAAATATTAAAA
1 GTAAATATTAAAA
2278049 GTTTTGCTCC
Statistics
Matches: 434, Mismatches: 69, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
164 3 0.01
165 114 0.26
166 311 0.72
167 6 0.01
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (166 bp):
GTAAATATTAAAAAAATTTGTTCATAGGCCAAAAGTACTTGGCTGAATCTTTCTTGTAATTTTTG
GATCTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAATTTTATGTTTTAATTATATAAGGA
CCAATTTGTAATTTTAAAAAGTTTAAAGATTTAAGT
Found at i:2278021 original size:332 final size:332
Alignment explanation
Indices: 2277340--2278024 Score: 1077
Period size: 332 Copynumber: 2.1 Consensus size: 332
2277330 TTTGGGGCTT
* * **
2277340 TTTGTCATTTTACAAAGTTTAGGGGCAAATTGGTAAATATTAAAAAAAATTGTTCATAGGCCAAA
1 TTTGTAATTTTAAAAAGTTTAAAGGCAAATTGGTAAATATTAAAAAAAATTGTTCATAGGCCAAA
* * * * *
2277405 TGTGGTTGGCTGAATCTTTCTTGTAATTTTTGGATCTAATTTTTGTGTTGATTTTGATATGTTCG
66 GGTGGTTAGCTGAATCTTTCTTGTAATTTTTAGATCTAATTTTTATGTTAATTTTGATATGTTCG
* *
2277470 ATATTTAATTTTATGTTTTAATTATATAAGGACCAATTTGTAATTTTAGAAAGTTTAAAGATTTA
131 ATATTTAATTTTATGTTTTAATTATATAAAGACCAATTTGTAATTTTAGAAAGTTTAAAGATATA
2277535 AGTGTAAATATTAAAAACTTTTGTTCCAAGGCCAAAAGTACTTGACTGAATCTTTCTTATAATTT
196 AGTGTAAATATTAAAAACTTTTGTTCCAAGGCCAAAAGTACTTGACTGAATCTTTCTTATAATTT
* * *
2277600 TTGGATTTGATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTGTGTTTTAATTATATAG
261 TTGGATCTAATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTATGTTTTAATTATATAG
2277665 GGACCAA
326 GGACCAA
* *
2277672 TTTGTAATTTTAAAAAGTTTAAAGGCAAATTTGTAAATATTAAAAAAATTTGTTCATAGGCCAAA
1 TTTGTAATTTTAAAAAGTTTAAAGGCAAATTGGTAAATATTAAAAAAAATTGTTCATAGGCCAAA
* *
2277737 GGTGGTTAGTTGAATCTTTCTTGTAATTTTTAGATCTGATTTTTATGTTAATTTTGATATGTTCG
66 GGTGGTTAGCTGAATCTTTCTTGTAATTTTTAGATCTAATTTTTATGTTAATTTTGATATGTTCG
* * *
2277802 ATATTTAATTTTGTGTTTTATTTATATAAAGACCAATTTGTAATTTTAGAAAGTTTAGAGATATA
131 ATATTTAATTTTATGTTTTAATTATATAAAGACCAATTTGTAATTTTAGAAAGTTTAAAGATATA
* * *
2277867 AGTGTAAATATTGAAAA-TTTTGTTCTAAGGCCAAAAGTACTTGGCTGAATCTTTC-TACTAATT
196 AGTGTAAATATTAAAAACTTTTGTTCCAAGGCCAAAAGTACTTGACTGAATCTTTCTTA-TAATT
* * *
2277930 TTTGGATCTAATTTTTGTTTGGATTTTGATATGTTTGATATTTAATTTTATGTTTTAATTATATA
260 TTTGGATCTAATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTATGTTTTAATTATATA
*
2277995 GGGATCAA
325 GGGACCAA
*
2278003 TTTTTAATTTTAAAAAAGTTTA
1 TTTGTAATTTT-AAAAAGTTTA
2278025 GGGATTTAAG
Statistics
Matches: 322, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
330 2 0.01
331 117 0.36
332 203 0.63
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (332 bp):
TTTGTAATTTTAAAAAGTTTAAAGGCAAATTGGTAAATATTAAAAAAAATTGTTCATAGGCCAAA
GGTGGTTAGCTGAATCTTTCTTGTAATTTTTAGATCTAATTTTTATGTTAATTTTGATATGTTCG
ATATTTAATTTTATGTTTTAATTATATAAAGACCAATTTGTAATTTTAGAAAGTTTAAAGATATA
AGTGTAAATATTAAAAACTTTTGTTCCAAGGCCAAAAGTACTTGACTGAATCTTTCTTATAATTT
TTGGATCTAATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTATGTTTTAATTATATAG
GGACCAA
Found at i:2278144 original size:332 final size:328
Alignment explanation
Indices: 2277340--2278230 Score: 1042
Period size: 332 Copynumber: 2.7 Consensus size: 328
2277330 TTTGGGGCTT
* * * * *
2277340 TTTGTCATTTTACAAAGTTTAGGGGCAAAT-TGGTAAATATTAAAAAAAATTGTTCATAGGCCAA
1 TTTGTAATTTTAAAAAGTTTA-AGGCAAATGT-GTAAATATTAAAAAAATTTGTCCATAGGCCAA
* *
2277404 ATG-TGGTTGGCTGAATCTTTCTTGTAATTTTTGGATCTAATTTTTGTGTTGATTTTGATATGTT
64 A-GCTAGTTGGCTGAATCTTTCTTGTAATTTTT-GATCTGATTTTTGTGTTGATTTTGATATGTT
* *
2277468 CGATATTTAATTTTATGTTTTAATTATATAAGGACCAATTTGTAATTTTAGAAAGTTTAAAGATT
127 CGATATTTAATTTTGTGTTTTAATTATATAAGGACCAATTTGTAATTTTAGAAAGTTTAGAGA-T
* *
2277533 TAAGTGTAAATATTAAAAACTTTTGTTCCAAGGCCAAAAGTACTTGACTGAATCTTTCTTATAAT
191 TAAGTGTAAATATTGAAAA-TTTTGTTCTAAGGCCAAAAGTACTTGACTGAATCTTTCTTATAAT
* * *
2277598 TTTTGGATTTGATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTGTGTTTTAATTATAT
255 TTTTGGATCTAATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTATGTTTTAATTATAT
2277663 AGGGACCAA
320 AGGGACCAA
* *
2277672 TTTGTAATTTTAAAAAGTTTAAAGGCAAATTTGTAAATATTAAAAAAATTTGTTCATAGGCCAAA
1 TTTGTAATTTTAAAAAGTTT-AAGGCAAATGTGTAAATATTAAAAAAATTTGTCCATAGGCCAAA
* * * * * *
2277737 GGTGGTTAGTTGAATCTTTCTTGTAATTTTTAGATCTGATTTTTATGTTAATTTTGATATGTTCG
65 GCTAGTTGGCTGAATCTTTCTTGTAATTTTT-GATCTGATTTTTGTGTTGATTTTGATATGTTCG
* *
2277802 ATATTTAATTTTGTGTTTTATTTATATAAAGACCAATTTGTAATTTTAGAAAGTTTAGAGATATA
129 ATATTTAATTTTGTGTTTTAATTATATAAGGACCAATTTGTAATTTTAGAAAGTTTAGAGAT-TA
*
2277867 AGTGTAAATATTGAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCTGAATCTTTC-TACTAATTT
193 AGTGTAAATATTGAAAATTTTGTTCTAAGGCCAAAAGTACTTGACTGAATCTTTCTTA-TAATTT
* * *
2277931 TTGGATCTAATTTTTGTTTGGATTTTGATATGTTTGATATTTAATTTTATGTTTTAATTATATAG
257 TTGGATCTAATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTATGTTTTAATTATATAG
*
2277996 GGATCAA
322 GGACCAA
* * **
2278003 TTTTTAATTTTAAAAAAGTTT-AGGGATTTAA-GTGTAAATATT-AAAAGTTTTGCTCCA-AGGC
1 TTTGTAATTTT-AAAAAGTTTAAGGCA---AATGTGTAAATATTAAAAAAATTTG-TCCATAGGC
** * * * * * * * *
2278064 TGAAGCTATTTGGCTAAATCTTTCTTATGACTTTTGTATGTGATTTTTGGTATTGATTTTAATAT
61 CAAAGCTAGTTGGCTGAATCTTTCTTGTAATTTTTG-ATCTGATTTTT-GTGTTGATTTTGATAT
* * ** * ** * * * *
2278129 ATTTGATGCTTAATTTTGTATTTTAATTACGTAAGGACTAATTTGCAAATTTAGAAAGCTT-GAG
124 GTTCGATATTTAATTTTGTGTTTTAATTATATAAGGACCAATTTGTAATTTTAGAAAGTTTAGAG
* *
2278193 AGTTAATTCGTAAATAATTGAAGATTTTGTTCTAAGGC
189 A-TTAAGT-GTAAAT-ATTGAAAATTTTGTTCTAAGGC
2278231 TGAAGAAAGG
Statistics
Matches: 483, Mismatches: 61, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
330 7 0.01
331 173 0.36
332 278 0.58
333 25 0.05
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (328 bp):
TTTGTAATTTTAAAAAGTTTAAGGCAAATGTGTAAATATTAAAAAAATTTGTCCATAGGCCAAAG
CTAGTTGGCTGAATCTTTCTTGTAATTTTTGATCTGATTTTTGTGTTGATTTTGATATGTTCGAT
ATTTAATTTTGTGTTTTAATTATATAAGGACCAATTTGTAATTTTAGAAAGTTTAGAGATTAAGT
GTAAATATTGAAAATTTTGTTCTAAGGCCAAAAGTACTTGACTGAATCTTTCTTATAATTTTTGG
ATCTAATTTTTGTGTCGATTTTGATATGTTTAATATTTAATTTTATGTTTTAATTATATAGGGAC
CAA
Found at i:2278941 original size:154 final size:155
Alignment explanation
Indices: 2278683--2278973 Score: 383
Period size: 154 Copynumber: 1.9 Consensus size: 155
2278673 CCTAGAATTG
* * * *
2278683 AGTCCTAGGTTGTCACCGAAATTCTTTTTTGCAAAAGTTGTGCATTTAGGATATATTTATCTCAT
1 AGTCCTAGGTTGTCACAGAAATGCTTTTATGCAAAAGGTGTGCATTTAGGATATATTTATCTCAT
** * *
2278748 TTATGATAATTTTTAAATCCATTAGGGTTATCGGGATACTTTCATGTCAAAGGTATACTTTAGGG
66 TTATGATAATTTTTAAATCCATTAGGGTTATCAAGATACTTTCATGTCAAAGATATACCTTAGGG
*
2278813 GTATTTTTATCATTTTTTAAAATAA
131 ATATTTTTATCATTTTTTAAAATAA
* * *
2278838 AGTCCTAGGTTGTCACTAG-GATGCTTTTATGCCAAAGGTGTGCATTTA-GAT-TGGTTTATCTC
1 AGTCCTAGGTTGTCAC-AGAAATGCTTTTATGCAAAAGGTGTGCATTTAGGATAT-ATTTATCTC
* * * *
2278900 ATTTATGATCATTTTTAAGTACC-TTAGGGTTATCAATATACTTTCATGTCGAAGATATACCTTA
64 ATTTATGATAATTTTTAAAT-CCATTAGGGTTATCAAGATACTTTCATGTCAAAGATATACCTTA
2278964 GGGATATTTT
128 GGGATATTTT
2278974 GGTAATGTTG
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
153 1 0.01
154 73 0.62
155 42 0.36
156 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (155 bp):
AGTCCTAGGTTGTCACAGAAATGCTTTTATGCAAAAGGTGTGCATTTAGGATATATTTATCTCAT
TTATGATAATTTTTAAATCCATTAGGGTTATCAAGATACTTTCATGTCAAAGATATACCTTAGGG
ATATTTTTATCATTTTTTAAAATAA
Found at i:2280950 original size:13 final size:13
Alignment explanation
Indices: 2280932--2280956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2280922 CAATTCATCA
2280932 TGTATCGATACAT
1 TGTATCGATACAT
2280945 TGTATCGATACA
1 TGTATCGATACA
2280957 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2283089 original size:20 final size:22
Alignment explanation
Indices: 2283050--2283094 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2283040 GTAGTGGGTG
*
2283050 TGGGAGCTGCCCGGTCGCGACC
1 TGGGAGCTGCCCGATCGCGACC
2283072 TGGGAG-TG-CCGATCGCGACC
1 TGGGAGCTGCCCGATCGCGACC
2283092 TGG
1 TGG
2283095 AGGTGGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.11, C:0.31, G:0.42, T:0.16
Consensus pattern (22 bp):
TGGGAGCTGCCCGATCGCGACC
Found at i:2283412 original size:22 final size:22
Alignment explanation
Indices: 2283367--2283416 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
2283357 TTTGTTGATG
*
2283367 ATTTTG-A-TGAAAAATGAAAT
1 ATTTTGAAGTGAAAAATGAAAA
2283387 ATTTTGAAGTGAAAAAT-AAGAA
1 ATTTTGAAGTGAAAAATGAA-AA
2283409 A-TTTGAAG
1 ATTTTGAAG
2283417 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 10 0.38
22 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (22 bp):
ATTTTGAAGTGAAAAATGAAAA
Found at i:2283543 original size:13 final size:13
Alignment explanation
Indices: 2283525--2283549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2283515 TAGTAACTCT
2283525 TGTATCGATACAA
1 TGTATCGATACAA
2283538 TGTATCGATACA
1 TGTATCGATACA
2283550 TTCTGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2289682 original size:13 final size:13
Alignment explanation
Indices: 2289666--2289690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2289656 CAATTCATCA
2289666 TGTATCGATACAT
1 TGTATCGATACAT
2289679 TGTATCGATACA
1 TGTATCGATACA
2289691 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2289777 original size:12 final size:12
Alignment explanation
Indices: 2289760--2289786 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2289750 TACAATTGTC
2289760 CATGTATCGATA
1 CATGTATCGATA
2289772 CATGTATCGATA
1 CATGTATCGATA
2289784 CAT
1 CAT
2289787 TGAACATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:2289803 original size:31 final size:32
Alignment explanation
Indices: 2289741--2289804 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
2289731 TACCAGTTTA
** *
2289741 ATGTATCGATACAATTGTCCATGTATCGATAC
1 ATGTATCGATACAATTGAACATGCATCGATAC
2289773 ATGTATCGATAC-ATTGAACATGCATCGATAC
1 ATGTATCGATACAATTGAACATGCATCGATAC
2289804 A
1 A
2289805 AAGCATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAATTGAACATGCATCGATAC
Found at i:2292564 original size:20 final size:20
Alignment explanation
Indices: 2292539--2292594 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
2292529 ATTTAACTGG
2292539 ATGTATCGATACATTTAAGA
1 ATGTATCGATACATTTAAGA
2292559 ATGTATCGATACATTTAAGA
1 ATGTATCGATACATTTAAGA
2292579 ATGTATCGATACATTT
1 ATGTATCGATACATTT
2292595 GGGTCAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTAAGA
Found at i:2292645 original size:52 final size:52
Alignment explanation
Indices: 2292558--2292698 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 52
2292548 TACATTTAAG
* * * * *
2292558 AATGTATCGATACATTTAAGAATGTATCGATACATTTGGGTCAAAAAC-CTAA
1 AATGTATCAATACAATAAAAAATGTATCGATACATTTGGATCAAAAACTC-AA
* * *
2292610 AATTTATCAATACAATAAAAAATGTATTGATACATTTGGATCAAAAACTCAG
1 AATGTATCAATACAATAAAAAATGTATCGATACATTTGGATCAAAAACTCAA
* *
2292662 AATGTATCGATACAATAAAAAATGTATCAATACATTT
1 AATGTATCAATACAATAAAAAATGTATCGATACATTT
2292699 TCTTTCCAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
52 75 0.99
53 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.31
Consensus pattern (52 bp):
AATGTATCAATACAATAAAAAATGTATCGATACATTTGGATCAAAAACTCAA
Found at i:2300347 original size:52 final size:52
Alignment explanation
Indices: 2300255--2300379 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
2300245 ATATGAAAAG
* * * *
2300255 TTGCTTGCTTGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
* *
2300307 TTGCCTGCATGTATTGATACATTTTATAATGTATCAATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
2300359 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2300380 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
Found at i:2300392 original size:52 final size:52
Alignment explanation
Indices: 2300255--2300399 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
2300245 ATATGAAAAG
* * *
2300255 TTGCTTGCTTGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
* *** * *
2300307 TTGCCTGCATGTATTGATACATTTTATAATGTATCAATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
2300359 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
2300400 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 4 0.05
52 75 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:2300406 original size:13 final size:13
Alignment explanation
Indices: 2300388--2300412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2300378 CAAAGATCAG
2300388 TGTATCGATACAA
1 TGTATCGATACAA
2300401 TGTATCGATACA
1 TGTATCGATACA
2300413 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2300493 original size:13 final size:13
Alignment explanation
Indices: 2300475--2300499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2300465 GAAAAAAATA
2300475 TGTATCGATACAT
1 TGTATCGATACAT
2300488 TGTATCGATACA
1 TGTATCGATACA
2300500 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2301503 original size:49 final size:49
Alignment explanation
Indices: 2301288--2302055 Score: 875
Period size: 49 Copynumber: 15.8 Consensus size: 49
2301278 GTGATAACGA
* * * *
2301288 TGCCAATATGTTGATTCATGGCCA-ATGATATTGGGCTTAAAGATGGAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGAT-G--AAGG
*
2301340 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
2301392 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2301435 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* **
2301484 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAGGTGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-A----AGATGAAGG
* * * *
2301538 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* *
2301591 TGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
2301643 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
2301686 TGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2301735 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2301784 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2301833 TGTCAATATGCTGATTCAAGGCCAGCTATATTAGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
2301876 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2301925 TGCCAATATGCTGAATCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
2301968 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2302017 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2302056 GAAGGGTTGC
Statistics
Matches: 625, Mismatches: 57, Indels: 71
0.83 0.08 0.09
Matches are distributed among these distances:
43 154 0.25
45 2 0.00
47 4 0.01
49 250 0.40
50 4 0.01
52 164 0.26
53 5 0.01
54 8 0.01
55 34 0.05
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:2301742 original size:251 final size:245
Alignment explanation
Indices: 2301286--2302049 Score: 1046
Period size: 251 Copynumber: 3.1 Consensus size: 245
2301276 AAGTGATAAC
* * * **
2301286 GATGCCAATATGTTGATTCATGGCCA-ATGATATTGGGCTTAAAGATGGAAAAGGTGCCAATATG
1 GATGCCAATATGCTGATTCAAGGCCAGCT-ATATTGAACTTAAAGATGGAAAAGGTGCCAATATG
2301350 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCC
65 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCC
2301415 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
130 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
2301480 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAGGTGAGAAAAAG
195 AA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-A----AGAAAAAG
* * *
2301537 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGC
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAATATGC
*
2301602 TAATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCA
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCA
*
2301667 GCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGA
131 GCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-
*
2301732 AAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAG
195 AAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAAAAG
* *
2301783 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---AAAGGTGTCAATATGC
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAATATGC
* *
2301844 TGATTCAAGGCCAGCTATATTAGAC-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCA
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCA
* * * * *
2301900 GCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAATCAAGGCCAGCTATATTGGACTT-A
131 GCGATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * *
2301964 A-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAA-
190 AGATGAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAAAAG
2302015 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
2302050 GGCTTAGAAG
Statistics
Matches: 474, Mismatches: 30, Indels: 36
0.88 0.06 0.07
Matches are distributed among these distances:
232 1 0.00
233 117 0.25
236 2 0.00
237 1 0.00
238 3 0.01
239 38 0.08
241 1 0.00
242 38 0.08
245 40 0.08
246 8 0.02
250 1 0.00
251 221 0.47
252 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (245 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
AGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAAAAG
Found at i:2301770 original size:92 final size:92
Alignment explanation
Indices: 2301586--2302060 Score: 693
Period size: 92 Copynumber: 5.1 Consensus size: 92
2301576 TAAAGATGGA
* * * *
2301586 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAA-GTGCCAATA
*
2301651 TGCTGATTCAAGGCCAGCGATATTGGACTT
63 TGCTGATTCAAGGCCAGCTATATTGGACTT
*
2301681 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGC
2301746 TGATTCAAGGCCAGCTATATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* * *
2301779 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-AAAGGTGTCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAA-GTGCCAATATG
*
2301843 CTGATTCAAGGCCAGCTATATTAGACTT
65 CTGATTCAAGGCCAGCTATATTGGACTT
* *
2301871 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGC
*
2301936 TGAATCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
2301963 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG-AAGATGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAG-TGCCAATATG
*
2302027 CTGATTCAAGGCCAGCTATATTGGGCTT
65 CTGATTCAAGGCCAGCTATATTGGACTT
2302055 AGAAGG
1 A-AAGG
2302061 GTTGCCACCG
Statistics
Matches: 349, Mismatches: 21, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
91 2 0.01
92 206 0.59
93 10 0.03
94 1 0.00
95 44 0.13
97 4 0.01
98 82 0.23
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:2301821 original size:141 final size:140
Alignment explanation
Indices: 2301533--2302055 Score: 718
Period size: 141 Copynumber: 3.7 Consensus size: 140
2301523 GAGGTGAGAA
*
2301533 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGAAAAGGTGCCAA
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTAG-ACTTAAAGAT-G--AA-GTGCCAA
* *
2301597 TATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAA
60 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAA
*
2301662 GGCCAGCGATATTGGACTT
122 GGCCAGCTATATTGGACTT
2301681 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATG-AAGTGCCAATATGC
2301746 TGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
65 TGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
2301811 ATATTGGACTTAAAGAT
130 ATATTGGAC-T-----T
* * * *
2301828 AAAGGTGTCAATATGCTGATTCAAGGCCAGCTATATTAGACTT-AA-A-G--GTGCCAATGTGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGTGCCAATATGCT
* *
2301888 GATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATGCTGAATCAAGGCCAGCT
66 GATTCAAGGCCAGCTATATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATTCAAGGCCAGCT
2301952 ATATTGGACTT
130 ATATTGGACTT
* *
2301963 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAG-TGCCAATATGC
*
2302028 TGATTCAAGGCCAGCTATATTGGGCTTA
65 TGATTCAAGGCCAGCTATATTGGACTTA
2302056 GAAGGGTTGC
Statistics
Matches: 344, Mismatches: 17, Indels: 35
0.87 0.04 0.09
Matches are distributed among these distances:
135 40 0.12
136 2 0.01
137 1 0.00
138 1 0.00
140 3 0.01
141 157 0.46
142 1 0.00
144 44 0.13
145 4 0.01
146 3 0.01
147 82 0.24
148 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (140 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGTGCCAATATGCT
GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
TATTGGACTT
Found at i:2302137 original size:32 final size:32
Alignment explanation
Indices: 2302048--2302319 Score: 401
Period size: 32 Copynumber: 8.5 Consensus size: 32
2302038 CCAGCTATAT
2302048 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
2302078 TGGGCTTTAGAGAGGG-TGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
2302109 TGGGCTTTAGAGAGGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
2302141 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
*
2302173 TGGGCTTT-GAAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
* *
2302205 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
2302237 TGGGCTTTAGAGGGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* * *
2302269 TGGGCTTTGGAAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
2302302 TGGGCTTTAGAGAAGGGT
1 TGGGCTTTAGAG-AGGGT
2302320 GAAAGATGCC
Statistics
Matches: 218, Mismatches: 16, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
30 5 0.02
31 39 0.18
32 140 0.64
33 34 0.16
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:2302435 original size:31 final size:31
Alignment explanation
Indices: 2302386--2303195 Score: 331
Period size: 31 Copynumber: 25.2 Consensus size: 31
2302376 CTTTAAAAGG
* * *
2302386 GAAAAAAAG-TGCCTACGGAGTTCTGGGCTTT
1 GAAAAGAAGATGCC-ACGGAGTTGTGGACTTT
2302417 GAAAAGAAGATGCCACGGAGTTGTGGACTTT
1 GAAAAGAAGATGCCACGGAGTTGTGGACTTT
* * * *
2302448 GAAAGGAACAAGGTGCCACGGGGTCGTGGAC-TT
1 G-AA--AAGAAGATGCCACGGAGTTGTGGACTTT
* * * * *
2302481 AAAAAGAAAAGGTGCCACAGAGTGGTGGGCTTT
1 GAAAAG--AAGATGCCACGGAGTTGTGGACTTT
* *
2302514 GAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAAAG---AAGATGCCACGGAGTTGTGGACTTT
* * * *
2302548 AAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
1 GAAAAG---AAGATGCCACGGAGTTGTGGACTTT
* * * *
2302582 AAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
1 GAAAAG---AAGATGCCACGGAGTTGTGGACTTT
* * * *
2302616 AAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTA
1 GAAAAG---AAGATGCCACGGAGTTGTGGACTTT
* * * *
2302650 AAAGGAACAAGATGCCACGGGGTCGTGGAC-TT
1 GAA--AAGAAGATGCCACGGAGTTGTGGACTTT
* *
2302682 -AAAAG--GGTGCCACGGAGTTGTGGGCTTT
1 GAAAAGAAGATGCCACGGAGTTGTGGACTTT
* * * *
2302710 AAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTT
1 GAA---AAGAAGA-TGCCACGGAGTTGTGGACTTT
* * *
2302745 -AAAAG--GGTGCCACGAAGTTGTGGACTTA
1 GAAAAGAAGATGCCACGGAGTTGTGGACTTT
* * *
2302773 GAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 GAA---AAGAAGA-TGCCACGGAGTTGTGGACTTT
* * * *
2302808 GAAAAGAAGGTGCCATGGAGTCGTGGACTTA
1 GAAAAGAAGATGCCACGGAGTTGTGGACTTT
* * * * *
2302839 AAAGGAACAAGGTGCCACGGGGTTGTGGACTTA
1 GAA--AAGAAGATGCCACGGAGTTGTGGACTTT
* * * *
2302872 GAAGGAAAAACGAGTGCCACGGAGTTATGGGCTTA
1 GAA--AAGAA-GA-TGCCACGGAGTTGTGGACTTT
*
2302907 GAAGGAAAAAGAATGCCACGGAGTTGTGGACTTT
1 GAA--AAGAAG-ATGCCACGGAGTTGTGGACTTT
* *
2302941 GAAGAA-AAGGATGCCACTGAGTCGTGGACTTT
1 GAA-AAGAA-GATGCCACGGAGTTGTGGACTTT
* * *
2302973 GAGAAGAA-ATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
* * *
2303004 GAGAAGAA-ATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
* * *
2303035 GAGAAGAA-ATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
* ** *
2303066 GAGAAGAA-ATTGCCATTGAGTCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
* * * *
2303097 GAGAAGAA-ATTACCACTGAGTCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
* ** *
2303128 GAGAAGAA-ATTGCCATTGAGTCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
* * **
2303159 GAGAAGAA-ATTGCCACTGAGCCGTGGACTTT
1 GAAAAGAAGA-TGCCACGGAGTTGTGGACTTT
*
2303190 AAAAAG
1 GAAAAG
2303196 GTATTTGAAG
Statistics
Matches: 665, Mismatches: 81, Indels: 66
0.82 0.10 0.08
Matches are distributed among these distances:
27 16 0.02
28 19 0.03
29 7 0.01
30 3 0.00
31 252 0.38
32 62 0.09
33 63 0.09
34 172 0.26
35 69 0.10
36 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (31 bp):
GAAAAGAAGATGCCACGGAGTTGTGGACTTT
Found at i:2302477 original size:34 final size:34
Alignment explanation
Indices: 2302321--2302974 Score: 468
Period size: 34 Copynumber: 19.8 Consensus size: 34
2302311 GAGAAGGGTG
* * *
2302321 AAAGATGCCACGAAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * *
2302354 CAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAA-GG-AA
* * *
2302390 AAAAGTGCCTACGGAGTTCTGGGCTTTG-AA--AA
1 AAAGGTGCC-ACGGAGTTGTGGACTTTGAAAGGAA
* *
2302422 GAAGATGCCACGGAGTTGTGGACTTTGAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * * *
2302456 CAAGGTGCCACGGGGTCGTGGAC-TTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * *
2302488 AAAGGTGCCACAGAGTGGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * *
2302522 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * *
2302556 AAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * *
2302590 AAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* *
2302624 AAAGGTGCCACGAAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * *
2302657 CAAGATGCCACGGGGTCGTGGAC-TT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* *
2302684 AAGGGTGCCACGGAGTTGTGGGCTTT-AAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAA-GGAA
* *
2302718 AAAGAGTGCCATGGAGTTGTGGGCTTT------AA
1 AAAG-GTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * *
2302747 AAGGGTGCCACGAAGTTGTGGACTTAGAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* *
2302781 AAAGAGTGCCACAGAGTTGTGGGCTTTG-AA--AA
1 AAAG-GTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * * *
2302813 GAAGGTGCCATGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * *
2302846 CAAGGTGCCACGGGGTTGTGGACTTAG-AAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
* * *
2302879 AAACGAGTGCCACGGAGTTATGGGCTTAG-AAGGAA
1 AAA-G-GTGCCACGGAGTTGTGGACTTTGAAAGGAA
*
2302914 AAAGAATGCCACGGAGTTGTGGACTTTG-AA-G-A
1 AAAG-GTGCCACGGAGTTGTGGACTTTGAAAGGAA
* *
2302946 AAAGGATGCCACTGAGTCGTGGACTTTGA
1 AAAGG-TGCCACGGAGTTGTGGACTTTGA
2302975 GAAGAAATTG
Statistics
Matches: 509, Mismatches: 80, Indels: 64
0.78 0.12 0.10
Matches are distributed among these distances:
27 19 0.04
28 20 0.04
29 5 0.01
30 2 0.00
31 33 0.06
32 59 0.12
33 93 0.18
34 182 0.36
35 71 0.14
36 11 0.02
37 14 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
Found at i:2302704 original size:27 final size:27
Alignment explanation
Indices: 2302622--2302778 Score: 89
Period size: 27 Copynumber: 5.3 Consensus size: 27
2302612 CTTTAAAAAG
* *
2302622 AAAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
2302649 AAAAGGAACAAGATGCCACGGGGTCGTGGACTT
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTT
*
2302682 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
2302710 AAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTT
1 -------AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
2302745 AAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
2302772 AGAAGGG
1 AAAAGGG
2302779 AAAAAGAGTG
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
27 28 0.27
28 24 0.24
32 1 0.01
33 23 0.23
35 26 0.25
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:2302755 original size:63 final size:62
Alignment explanation
Indices: 2302622--2302940 Score: 284
Period size: 63 Copynumber: 5.0 Consensus size: 62
2302612 CTTTAAAAAG
* * * * *
2302622 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGA-TGCCACGGGGTCGTGGAC-TT
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * *
2302682 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
2302745 AAAAGGGTGCCACGAAGTTGTGGACTTAGAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGAAGTTGTGGACTTA-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * * * *
2302808 GAAAAGAAGGTGCCATGGAGTCGTGGACTTAAAAGGAACAAG-GTGCCACGGGGTTGTGGACTTA
1 -AAAAG--GGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-
*
2302872 GAAGGA
62 -----T
* * * * * * *
2302878 AAAACGAGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAATGCCACGGAGTTGTGGACTTT
1 AAAA-GGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
2302941 GAAGAAAAGG
Statistics
Matches: 212, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
60 22 0.10
61 13 0.06
62 17 0.08
63 57 0.27
64 23 0.11
65 9 0.04
66 20 0.09
68 27 0.13
69 23 0.11
70 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (62 bp):
AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:2302967 original size:134 final size:131
Alignment explanation
Indices: 2302267--2302972 Score: 612
Period size: 134 Copynumber: 5.3 Consensus size: 131
2302257 CACCGACTTG
* * * * ** *
2302267 TGTGGGCTTTGGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTGAAAGATGCCAC
1 TGTGGGCTTTGAAAAAAGG-TGCCACGGA-GT-TGTGGACTTTA-A-AA-GGAAAAAGGTGCCAC
* * * *
2302332 GAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGAAAAA-AAGT
60 GGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGAC-TTAGAA-GGAAAAAGAA-T
2302396 GCCTACGGAGT
122 GCC-ACGGAGT
* * * * *
2302407 TCTGGGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAA-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGT
* * * * * *
2302472 CGTGGACTTAAAAAG-AAAAGGTGCCAC-AGAGTGGTGGGCTTTGAAAAGAAAAAG-GTGCCACG
65 TGTGGACTTAAAAAGAAAAAGGTGCCACGA-AGTTGTGGACTTAG-AAGGAAAAAGAATGCCACG
2302534 GAGT
128 GAGT
* * * * *
2302538 TGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAG
1 TGTGGGCTTT---GA-AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGGTGCCACGG
* * *
2302603 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAACAAG-ATGCCA
62 AGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAATGCCA
*
2302667 CGGGGT
126 CGGAGT
* * * * * *
2302673 CGTGGAC-TT--AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTTGAAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAG-GTGCCACGGAGT
* * * *
2302735 TGTGGGCTTTAAAAG-----GGTGCCACGAAGTTGTGGACTTAGAAGGGAAAAAGAGTGCCACAG
65 TGTGGACTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAGAA-GGAAAAAGAATGCCACGG
2302795 AGT
129 AGT
* * * *
2302798 TGTGGGCTTTGAAAAGAAGGTGCCATGGAGTCGTGGAC-TTAAAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAA-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGT
* * * * *
2302862 TGTGGACTTAGAAGGAAAAACGAGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAATGCCACG
65 TGTGGACTTAAAAAGAAAAA-G-GTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAATGCCACG
2302927 GAGT
128 GAGT
* * *
2302931 TGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTT
1 TGTGGGCTTTGAA-AAAAGG-TGCCACGGAGTTGTGGACTTT
2302973 GAGAAGAAAT
Statistics
Matches: 460, Mismatches: 78, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
123 25 0.05
124 7 0.02
125 14 0.03
126 2 0.00
127 21 0.05
128 58 0.13
129 35 0.08
131 16 0.03
132 4 0.01
133 45 0.10
134 110 0.24
135 63 0.14
136 24 0.05
137 2 0.00
138 9 0.02
139 1 0.00
140 21 0.05
141 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (131 bp):
TGTGGGCTTTGAAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGTT
GTGGACTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGGAG
T
Found at i:2303030 original size:62 final size:62
Alignment explanation
Indices: 2302920--2303189 Score: 445
Period size: 62 Copynumber: 4.3 Consensus size: 62
2302910 GGAAAAAGAA
* *
2302920 TGCCACGGAGTTGTGGACTTTGAAGAA-AAGGA-TGCCACTGAGTCGTGGACTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAA--ATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
2302983 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
*
2303045 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCATTGAGTCGTGGACTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
* *
2303107 TACCACTGAGTCGTGGACTTTGAGAAGAAATTGCCATTGAGTCGTGGACTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
*
2303169 TGCCACTGAGCCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
2303190 AAAAAGGTAT
Statistics
Matches: 199, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
61 1 0.01
62 176 0.88
63 22 0.11
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
Found at i:2303061 original size:93 final size:93
Alignment explanation
Indices: 2302920--2303189 Score: 445
Period size: 93 Copynumber: 2.9 Consensus size: 93
2302910 GGAAAAAGAA
* *
2302920 TGCCACGGAGTTGTGGACTTTGAAGAA-AAGGA-TGCCACTGAGTCGTGGACTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAA--ATTGCCACTGAGTCGTGGACTTTGAGAAGAAAT
2302983 TGCCACTGAGTCGTGGACTTTGAGAAGAAAT
63 TGCCACTGAGTCGTGGACTTTGAGAAGAAAT
2303014 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAATTGC
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAATTGC
*
2303079 CATTGAGTCGTGGACTTTGAGAAGAAAT
66 CACTGAGTCGTGGACTTTGAGAAGAAAT
* *
2303107 TACCACTGAGTCGTGGACTTTGAGAAGAAATTGCCATTGAGTCGTGGACTTTGAGAAGAAATTGC
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAATTGC
*
2303172 CACTGAGCCGTGGACTTT
66 CACTGAGTCGTGGACTTT
2303190 AAAAAGGTAT
Statistics
Matches: 167, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 144 0.86
94 22 0.13
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (93 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTGAGAAGAAATTGC
CACTGAGTCGTGGACTTTGAGAAGAAAT
Found at i:2303325 original size:16 final size:17
Alignment explanation
Indices: 2303294--2303331 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2303284 GATGCAAATA
* *
2303294 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
2303311 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
2303327 ATGAT
1 ATGAT
2303332 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:2311308 original size:52 final size:52
Alignment explanation
Indices: 2311223--2311347 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
2311213 ATATGAAAAG
* * *
2311223 TTGCTTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2311275 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2311327 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2311348 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2311360 original size:52 final size:52
Alignment explanation
Indices: 2311223--2311368 Score: 197
Period size: 52 Copynumber: 2.8 Consensus size: 52
2311213 ATATGAAAAG
* * *
2311223 TTGCTTGCATGTATCAATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
*** *
2311275 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
2311327 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACAT
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACAT
2311369 TTGAGTAATG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 80 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:2311448 original size:13 final size:13
Alignment explanation
Indices: 2311430--2311454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2311420 CAAAAAAATA
2311430 TGTATCGATACAT
1 TGTATCGATACAT
2311443 TGTATCGATACA
1 TGTATCGATACA
2311455 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2311465 original size:33 final size:33
Alignment explanation
Indices: 2311408--2311474 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2311398 AGTAGCTTAA
*
2311408 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTACCGATAC
* ***
2311441 ATTGTATCGATACAACACTTTATGTACCGATAC
1 ATTGTATCGATACAAAAAAATATGTACCGATAC
2311474 A
1 A
2311475 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTACCGATAC
Found at i:2311856 original size:20 final size:20
Alignment explanation
Indices: 2311831--2311870 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2311821 CAAGTGATAG
2311831 AAAAAGTATTGTTGAAAGAC
1 AAAAAGTATTGTTGAAAGAC
2311851 AAAAAGTATTGTTGAAAGAC
1 AAAAAGTATTGTTGAAAGAC
2311871 TGATCTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (20 bp):
AAAAAGTATTGTTGAAAGAC
Found at i:2312984 original size:18 final size:17
Alignment explanation
Indices: 2312954--2312993 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
2312944 TTTTTATGAA
*
2312954 AAAAATAATAAAAAAAC
1 AAAAATAAAAAAAAAAC
*
2312971 AAAAATGAAAAAAAAAAG
1 AAAAAT-AAAAAAAAAAC
2312989 AAAAA
1 AAAAA
2312994 ATCAAGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAATAAAAAAAAAAC
Found at i:2317454 original size:20 final size:20
Alignment explanation
Indices: 2317401--2317455 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2317391 AAATTCCTAG
** *
2317401 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGAACA
2317421 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAACA
2317441 ATGTATCGATACATT
1 ATGTATCGATACATT
2317456 TCCTTGGCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAACA
Found at i:2317526 original size:21 final size:19
Alignment explanation
Indices: 2317479--2317533 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2317469 GCAGGGTAGC
2317479 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
2317498 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ACACT
2317518 GTTTGTATCGATACAA
1 -TTTGTATCGATACAA
2317534 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:2318225 original size:52 final size:52
Alignment explanation
Indices: 2318078--2318362 Score: 197
Period size: 52 Copynumber: 5.7 Consensus size: 52
2318068 GTGATAAAAG
* * * * **
2318078 TGCCAATATGCTGATT-TAGGACCAGTGATATTGGGCTTAAAGATGTCAAGAA
1 TGCCAATGTGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATGAGAAGAA
* * * * *
2318130 TGTCAATGTGCTGATTCACGAG-CAGCGACATTAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAG-GCCAGCGATATTGGACTTAAAGATGAGAAGAA
* * ** *
2318182 TGCCAACGTGCTGATTCAAGGCCAACGATATTGGGTTTAAAGATGATGAAGGCA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GAA-GAA
* * *
2318236 --CCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT--GAAG-G
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAA
* ** * *
2318283 TGCCGATGTGCTGATTCAAGGTAAGCAACATTGGACTT--A-A--AG--G--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAA
*
2318326 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACT
2318363 CAGAAGAAGA
Statistics
Matches: 184, Mismatches: 41, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
43 31 0.17
44 1 0.01
46 2 0.01
47 1 0.01
48 1 0.01
49 32 0.17
51 1 0.01
52 108 0.59
53 4 0.02
54 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAA
Found at i:2318359 original size:43 final size:45
Alignment explanation
Indices: 2318236--2318362 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 45
2318226 GATGAAGGCA
*
2318236 CCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-GAAGGTG
* * ** * *
2318285 CCGATGTGCTGATTCAAGGTAAGCAACATTGGACTT-A-AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAGGTG
2318328 CCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACT
2318363 CAGAAGAAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
43 35 0.54
45 1 0.02
49 29 0.45
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (45 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAGGTG
Found at i:2318471 original size:28 final size:28
Alignment explanation
Indices: 2318373--2318645 Score: 329
Period size: 28 Copynumber: 9.8 Consensus size: 28
2318363 CAGAAGAAGA
* * *
2318373 TGCCATTGCCTTGTGGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGT
* * *
2318400 TGCCATTGCCTTGTGGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGT
*
2318427 TGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGT
* *
2318455 TGCCACTGACTTATGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGC-TTTGAAAAGT
*
2318483 TGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGT
* * *
2318511 TGCCACTGACTTATGGGCTTTTGAATAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGT
*
2318540 TGCCACTGACTTGTGGGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAA-GT
*
2318569 TGCCACTGACTTGTGGGCTTCT-AAAGGT
1 TGCCACTGACTTGTGGGCTT-TGAAAAGT
*
2318597 TGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGT
*
2318625 TGCCACTAACTTGTGGGCTTT
1 TGCCACTGACTTGTGGGCTTT
2318646 TGAAGGTGAG
Statistics
Matches: 218, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
27 52 0.24
28 112 0.51
29 53 0.24
30 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGT
Found at i:2318488 original size:56 final size:56
Alignment explanation
Indices: 2318373--2318652 Score: 404
Period size: 56 Copynumber: 5.0 Consensus size: 56
2318363 CAGAAGAAGA
* * * *
2318373 TGCCATTGCCTTGTGGGCTTTG--AAGGTTGCCATTGCCTTGTGGGC-TTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTTGAAGGT
* *
2318427 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGT
* * *
2318483 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTTGAATAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAA-GGT
* *
2318540 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTCTAAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTTGAAGGT
*
2318597 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGT
2318653 GAGGAATGTC
Statistics
Matches: 204, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
54 20 0.10
55 15 0.07
56 91 0.45
57 54 0.26
58 24 0.12
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGT
Found at i:2318599 original size:114 final size:112
Alignment explanation
Indices: 2318373--2318649 Score: 398
Period size: 114 Copynumber: 2.5 Consensus size: 112
2318363 CAGAAGAAGA
* * * * * *
2318373 TGCCATTGCCTTGTGGGCTTTG--AAGGTTGCCATTGCCTTGTGGGC-TTTGAAGGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTG
* *
2318435 ACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTTGAAGGT
65 ACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTCTAAAGGT
*
2318483 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTTGAATAGATGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAA-AGATGCCACTG
* *
2318548 ACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTCTAAAGGT
65 ACTTGTGGGCTTTGAAAA-GATGCCACTGACTTATGGGCTTCTAAAGGT
*
2318597 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAA
2318650 GGTGAGGAAT
Statistics
Matches: 149, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
110 20 0.13
111 15 0.10
112 10 0.07
113 27 0.18
114 77 0.52
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.32
Consensus pattern (112 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGA
CTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTCTAAAGGT
Found at i:2319024 original size:37 final size:37
Alignment explanation
Indices: 2318964--2319048 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
2318954 AAGGATGAAG
* *
2318964 CACAAATACGTCATGCAAAATGAAATGTTAGGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTAGGAATGT
* *
2319001 CAGAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTAGGAATGT
2319038 CACAAATGCAT
1 CACAAATGCAT
2319049 GATTATGGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTAGGAATGT
Found at i:2325906 original size:26 final size:26
Alignment explanation
Indices: 2325870--2325922 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
2325860 ATGCTTTGTG
*
2325870 CCTGTTGACGATGTCGGTAAATCGAT
1 CCTGTTGACGATGTCGGTAAACCGAT
2325896 CCTGTTGACGATGTCGGTAAACCGAT
1 CCTGTTGACGATGTCGGTAAACCGAT
2325922 C
1 C
2325923 GACAGCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (26 bp):
CCTGTTGACGATGTCGGTAAACCGAT
Found at i:2327290 original size:13 final size:13
Alignment explanation
Indices: 2327272--2327296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2327262 AAATTCCTCA
2327272 TGTATCGATACAT
1 TGTATCGATACAT
2327285 TGTATCGATACA
1 TGTATCGATACA
2327297 ACGTACCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2327294 original size:33 final size:33
Alignment explanation
Indices: 2327252--2327316 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2327242 TTACAAGTAA
* *
2327252 TGTATCGATA-AAATTCCTCATGTATCGATACAT
1 TGTATCGATACAAAGTAC-CATGTATCGATACAT
*
2327285 TGTATCGATACAACGTACCATGTATCGATACA
1 TGTATCGATACAAAGTACCATGTATCGATACA
2327317 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAGTACCATGTATCGATACAT
Found at i:2327389 original size:13 final size:13
Alignment explanation
Indices: 2327371--2327397 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2327361 TACAATGAAT
2327371 ATGTATCGATACA
1 ATGTATCGATACA
2327384 ATGTATCGATACA
1 ATGTATCGATACA
2327397 A
1 A
2327398 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2327411 original size:33 final size:32
Alignment explanation
Indices: 2327354--2327416 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
2327344 TTCATGTATC
* *
2327354 GTATGGATACAATGAATATGTATCGATACAAT
1 GTATCGATACAAAGAATATGTATCGATACAAT
*
2327386 GTATCGATACAAAGCATAATGTATCGATACA
1 GTATCGATACAAAGAAT-ATGTATCGATACA
2327417 TTTGGGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (32 bp):
GTATCGATACAAAGAATATGTATCGATACAAT
Found at i:2329206 original size:20 final size:21
Alignment explanation
Indices: 2329167--2329207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2329157 ATAGCCCATG
*
2329167 TTCATTCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
2329188 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
2329208 CCAACATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:2334095 original size:20 final size:20
Alignment explanation
Indices: 2334070--2334121 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2334060 AAATTTCCCA
2334070 AATGTATCGATACAAAGA-T
1 AATGTATCGATACAAAGAGT
**
2334089 CAATGTATCGATACATCGAGT
1 -AATGTATCGATACAAAGAGT
2334110 AATGTATCGATA
1 AATGTATCGATA
2334122 AATGTATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAAAGAGT
Found at i:2334126 original size:32 final size:32
Alignment explanation
Indices: 2334090--2334153 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2334080 TACAAAGATC
2334090 AATGTATCGATACATCGAGTAATGTATCGATA
1 AATGTATCGATACATCGAGTAATGTATCGATA
*
2334122 AATGTATCGATACATTGAGTAATGTATCGATA
1 AATGTATCGATACATCGAGTAATGTATCGATA
2334154 CATTTCCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATCGAGTAATGTATCGATA
Found at i:2335072 original size:33 final size:32
Alignment explanation
Indices: 2335019--2335192 Score: 151
Period size: 33 Copynumber: 5.5 Consensus size: 32
2335009 CCAGCAACAT
* * * *
2335019 TGGGC-TTAGAAGGAGATGCCACTAGCTTGTG
1 TGGGCTTTTGAAGGGGATGCCACCAACTTGTG
2335050 TGGGCTTTTGAGAGGGGATGCCACCAACTTGTG
1 TGGGCTTTTGA-AGGGGATGCCACCAACTTGTG
* * * * *
2335083 TGGGC-TTTGAAAGGGTTGCCA-CGACTTCTA
1 TGGGCTTTTGAAGGGGATGCCACCAACTTGTG
* **
2335113 CGGGCTTTTGAAAAAGGATGCCACCAACTTGTG
1 TGGGCTTTTG-AAGGGGATGCCACCAACTTGTG
* *
2335146 AGGGC-TTT-AAGGGGTTGCCACCAACTTGTG
1 TGGGCTTTTGAAGGGGATGCCACCAACTTGTG
*
2335176 TAGGCTTTTGAAAGGGG
1 TGGGCTTTTG-AAGGGG
2335193 TTAGCATCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
30 32 0.28
31 21 0.18
32 22 0.19
33 39 0.34
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (32 bp):
TGGGCTTTTGAAGGGGATGCCACCAACTTGTG
Found at i:2335167 original size:30 final size:31
Alignment explanation
Indices: 2335020--2335191 Score: 129
Period size: 30 Copynumber: 5.5 Consensus size: 31
2335010 CAGCAACATT
* * * *
2335020 GGGCTTAG-AAGGAGATGCCACTAGCTTGTGT
1 GGGCTTTGAAAGG-GATGCCACCAACTTGTGA
* *
2335051 GGGCTTTTGAGAGGGGATGCCACCAACTTGTGT
1 GGGC-TTTGA-AAGGGATGCCACCAACTTGTGA
* * *
2335084 GGGCTTTGAAAGGGTTGCCA-CGACTTCT-A
1 GGGCTTTGAAAGGGATGCCACCAACTTGTGA
*
2335113 CGGGCTTTTGAAAAAGGATGCCACCAACTTGTGA
1 -GGGC-TTTG-AAAGGGATGCCACCAACTTGTGA
* *
2335147 GGGCTTT-AAGGGGTTGCCACCAACTTGTGTA
1 GGGCTTTGAAAGGGATGCCACCAACTTGTG-A
2335178 -GGCTTTTGAAAGGG
1 GGGC-TTTGAAAGGG
2335192 GTTAGCATCG
Statistics
Matches: 113, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
30 32 0.28
31 21 0.19
32 26 0.23
33 30 0.27
34 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (31 bp):
GGGCTTTGAAAGGGATGCCACCAACTTGTGA
Found at i:2335182 original size:63 final size:64
Alignment explanation
Indices: 2335035--2335188 Score: 186
Period size: 63 Copynumber: 2.4 Consensus size: 64
2335025 TAGAAGGAGA
* * * ** *
2335035 TGCCACTAGCTTGTGTGGGCTTTTGAGAGGGGATGCCACCAACTTGTGTGGGCTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGATGCCACCAACTTGTGAGGGCTTTGAAAGGGT
* * ** *
2335099 TGCCA-CGACTTCTACGGGCTTTTGAAAAAGGATGCCACCAACTTGTGAGGGCTTT-AAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGATGCCACCAACTTGTGAGGGCTTTGAAAGGGT
*
2335161 TGCCACCAACTTGTGTAGGCTTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTTGAAA
2335189 GGGGTTAGCA
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
62 11 0.15
63 57 0.78
64 5 0.07
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGATGCCACCAACTTGTGAGGGCTTTGAAAGGGT
Found at i:2335570 original size:52 final size:53
Alignment explanation
Indices: 2335503--2335724 Score: 247
Period size: 52 Copynumber: 4.3 Consensus size: 53
2335493 GAGCTGGGAT
* * * * * *
2335503 TTAAAGATGATAAAGGTACCAATGTGCTGATTC-ACGGCTAGCAACATTGGAC
1 TTAAAGATGACAAAGGTGCCAACGTGCTGATTCAAAGGCTAGCGACATTAGAC
* *
2335555 TTAAAGATGACAAAGGTGCCAACGTGCTGA-TCTAAGGCTAGTGACATTAGAC
1 TTAAAGATGACAAAGGTGCCAACGTGCTGATTCAAAGGCTAGCGACATTAGAC
* * * *
2335607 TTAAAGATAACAAAGATGCCAACATGCT-AATCAAAGGCTAGCGACATTAGAC
1 TTAAAGATGACAAAGGTGCCAACGTGCTGATTCAAAGGCTAGCGACATTAGAC
* * * * *
2335659 TTAAAGATGAGAAAGGTGCCAATGTG-TCGA-TCCAAGGCTAGTGACATTGGAC
1 TTAAAGATGACAAAGGTGCCAACGTGCT-GATTCAAAGGCTAGCGACATTAGAC
2335711 TTAAAGATGACAAA
1 TTAAAGATGACAAA
2335725 TTTTGACAAG
Statistics
Matches: 145, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
51 4 0.03
52 140 0.97
53 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (53 bp):
TTAAAGATGACAAAGGTGCCAACGTGCTGATTCAAAGGCTAGCGACATTAGAC
Found at i:2341547 original size:165 final size:162
Alignment explanation
Indices: 2341332--2341861 Score: 595
Period size: 165 Copynumber: 3.2 Consensus size: 162
2341322 AAAAATCTTT
* * * * *
2341332 AAATATTATCATTTAGTT-ACCATCAAATTAGTTTTGAAAAATTCCTTTTATTTCATGGTTATTG
1 AAATATTATCATTTAATTCA-CATTAAATCAGTTTTGAAAAATTTCTTTTATTTCATGGTT-TTT
* * * *
2341396 ATTTTCTTTTGGAATTCCCCTTGTTTTCGAAATACGGAGTTTTCTACTTCGTAAATGTTTTCGGG
64 ATTTTTTTTTGAAATT-CCCTTATTTTCGAAATAC-GAGTTTTCTACTTCATAAATGTTTTCGGG
*
2341461 GGGATTTTTCTTGGTTTATAATTTTTACAATTCATC
127 GGGATTTTTCTTGGTTTATAATTTTTAAAATTCATC
* * * * *
2341497 AAATATTATTATTTAATTTACATTAAATCAATTTTTAAAAATTTCTTTTATTTCATGAATTTTTT
1 AAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTTCTTTTATTTCATG--GTTTTT
* * * * *
2341562 ATTTTTTTCTTGAAATTCTCTTATTTTCGAAATACAAAGTTTTCTACTCCATATATGTTTTTGGG
64 ATTTTTTT-TTGAAATTCCCTTATTTTCGAAATAC-GAGTTTTCTACTTCATAAATGTTTTCGGG
2341627 GGGA-TTTTCTTGGTTTATAATTTTTAAAATTCATC
127 GGGATTTTTCTTGGTTTATAATTTTTAAAATTCATC
* * * * *
2341662 AAATATCATCATTTAATTCATAGTAAATCAGTTTTGAAAAA-TTCATTTATTTTCATAAGTTTTT
1 AAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTTCTTTTA-TTTCAT-GGTTTTT
* * * * *
2341726 CTTTTTTCTTTGAAAATCCTTTATTTTCGAAAAATCGAGTTTTCTA-TTCTATAAATGTTTTCGA
64 ATTTTTT-TTTGAAATTCCCTTATTTTCGAAATA-CGAGTTTTCTACTTC-ATAAATGTTTTCGG
*
2341790 GGGGATTTTTCTCGGTTTA-AATTTTTAAAATTCATC
126 GGGGATTTTTCTTGGTTTATAATTTTTAAAATTCATC
* *
2341826 TAAA-ATTGTCATTAAATTCACATTAAATCAGTTTTG
1 -AAATATTATCATTTAATTCACATTAAATCAGTTTTG
2341862 TAACATTTAA
Statistics
Matches: 308, Mismatches: 46, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
163 2 0.01
164 108 0.35
165 135 0.44
166 54 0.18
167 9 0.03
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (162 bp):
AAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTTCTTTTATTTCATGGTTTTTAT
TTTTTTTTGAAATTCCCTTATTTTCGAAATACGAGTTTTCTACTTCATAAATGTTTTCGGGGGGA
TTTTTCTTGGTTTATAATTTTTAAAATTCATC
Found at i:2343440 original size:11 final size:10
Alignment explanation
Indices: 2343415--2343455 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
2343405 TGAATTTTTC
2343415 AAAAAATTAA
1 AAAAAATTAA
*
2343425 AAAAATTTAA
1 AAAAAATTAA
2343435 AGAAAAATTAA
1 A-AAAAATTAA
2343446 ATAAAAATTA
1 A-AAAAATTA
2343456 TTATCTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:2343883 original size:156 final size:156
Alignment explanation
Indices: 2343578--2343934 Score: 412
Period size: 156 Copynumber: 2.3 Consensus size: 156
2343568 AGTGCTGGGT
* * * * * ** *
2343578 ACTTCTAGGTCAAAGGTATCCCTT-AGAGGCATTTTTATAATTTTCTAGAATCGAGTCTTAGGTT
1 ACTTCTAAGTCAAAGGTATCCCTTAAG-GGCATTTTTTTAATTTTTTAGAACCCAAACCTAGGTT
* * * * *
2343642 GTCACCAGGTCCTCTTTTATGCCGAATAAGGGTATTTACGATAGGTTCATCCAATCTATAATCCC
65 GTCACCAGGTCCACTTTTATGCCGAAGAAGGGCATTTACGACAGGTTCATCCAATCTATAATCCA
* * * *
2343707 TTTTTAAGTCGTTTATGGGTATTAGGC
130 TTTTAAAATCCTTTAGGGGTATTAGGC
* * * *
2343734 ACTTTTACGTCAAAGATATCCCTTAAGGGCATTTTTTTAATTTTTTAGAACCCAAACCTAGTTTG
1 ACTTCTAAGTCAAAGGTATCCCTTAAGGGCATTTTTTTAATTTTTTAGAACCCAAACCTAGGTTG
** * *
2343799 TCACCAGGTCCACTTTTATGCCGAAGGTGGGCATTTAGGACAGGTTCATCCCATCTATAATCCAT
66 TCACCAGGTCCACTTTTATGCCGAAGAAGGGCATTTACGACAGGTTCATCCAATCTATAATCCAT
*
2343864 TTTAAAATCCTTTAGGGGTATTGGGC
131 TTTAAAATCCTTTAGGGGTATTAGGC
* * * *
2343890 ACTTCTAAGTCGAAGGTATCCCCTATGGAC-TTTTTTATAATTTTT
1 ACTTCTAAGTCAAAGGTATCCCTTAAGGGCATTTTTT-TAATTTTT
2343935 AAAATCGAGT
Statistics
Matches: 167, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
155 6 0.04
156 159 0.95
157 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (156 bp):
ACTTCTAAGTCAAAGGTATCCCTTAAGGGCATTTTTTTAATTTTTTAGAACCCAAACCTAGGTTG
TCACCAGGTCCACTTTTATGCCGAAGAAGGGCATTTACGACAGGTTCATCCAATCTATAATCCAT
TTTAAAATCCTTTAGGGGTATTAGGC
Found at i:2347842 original size:165 final size:166
Alignment explanation
Indices: 2347671--2347969 Score: 449
Period size: 166 Copynumber: 1.8 Consensus size: 166
2347661 ACTCTGTGAT
* * * * * *
2347671 TTTTTTCGAGAGGATTTTTCTTAGCTTTTAATTTTT-AAAATTATCAAATATTATTATTTATTTC
1 TTTTTTCGAGAGGATTTTTCTCAGATTTCAATTTTTAAAAATCATAAAATACTATTATTTATTTC
* * * *
2347735 ATGTTAATTCAGTTTTAAAAAATAAATTCATTTTCGTGAGTTTTGGATTTTT-TCCTTGAAATAT
66 ATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTGGATTTTTCTCCCTGAAAT-T
2347799 CCCTTTTTCCTAAATACAGTATTTTCTACTTAGCAAA
130 CCCTTTTTCCTAAATACAGTATTTTCTACTTAGCAAA
* * *
2347836 TTTTTTCGAGGGGATTTTTCTCGGATTTCAATTTTTAAAAATCATAAAATGCTATTATTTATTTC
1 TTTTTTCGAGAGGATTTTTCTCAGATTTCAATTTTTAAAAATCATAAAATACTATTATTTATTTC
*
2347901 ATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTTGATTTTTCTCCCTGAAATTC
66 ATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTGGATTTTTCTCCCTGAAATTC
2347966 CCTT
131 CCTT
2347970 CTTTTTGAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
165 31 0.26
166 78 0.66
167 9 0.08
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (166 bp):
TTTTTTCGAGAGGATTTTTCTCAGATTTCAATTTTTAAAAATCATAAAATACTATTATTTATTTC
ATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTGGATTTTTCTCCCTGAAATTC
CCTTTTTCCTAAATACAGTATTTTCTACTTAGCAAA
Found at i:2349722 original size:148 final size:149
Alignment explanation
Indices: 2349459--2349727 Score: 375
Period size: 148 Copynumber: 1.8 Consensus size: 149
2349449 TTCCAAATAT
* *
2349459 AAATAAATATCAATTATTTTCAAGCCTTTTATATTCCTATGGGTATCCATAAGGGTATAAAATAT
1 AAATAAATATCAATCATTTTCAAGCCTTTTATATTCCTATGGGTATCCATAAGGGTATAAAAGAT
** * *
2349524 TTCGAAAAACTTTTTGTATCTTTTTGGGTATCCATTAAGGTACGAAATGATTTTTTAGAAATAAT
66 TTC-AAAAACTTTTTGTATCTTTGCGGGTATCCATCAAGGTACAAAATGATTTTTTAGAAATAAT
2349589 TAAATTAACCCTCCTTACTA
130 TAAATTAACCCTCCTTACTA
* * *
2349609 AAATAAATATTAATCATTTTCAA-TCTTTTATATTCCTATGGGTATCCGT-AGGTGTATTAAAAG
1 AAATAAATATCAATCATTTTCAAGCCTTTTATATTCCTATGGGTATCCATAAGG-GTA-TAAAAG
* *
2349672 ATTTC-AAAATTTTTTGTAT-TTTGGCGGGTTTCCATCAAGGTACAAAATGATTTTTT
64 ATTTCAAAAACTTTTTGTATCTTT-GCGGGTATCCATCAAGGTACAAAATGATTTTTT
2349728 TTAAAAGAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
147 3 0.03
148 44 0.42
149 27 0.26
150 31 0.30
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (149 bp):
AAATAAATATCAATCATTTTCAAGCCTTTTATATTCCTATGGGTATCCATAAGGGTATAAAAGAT
TTCAAAAACTTTTTGTATCTTTGCGGGTATCCATCAAGGTACAAAATGATTTTTTAGAAATAATT
AAATTAACCCTCCTTACTA
Found at i:2353444 original size:49 final size:51
Alignment explanation
Indices: 2353331--2353444 Score: 160
Period size: 49 Copynumber: 2.3 Consensus size: 51
2353321 AATTAACTAG
* *
2353331 ATGTATCGATATATTGAATAATGTGCCGATACATCTGGGTAAAAAAACAAA
1 ATGTATCGATACATTGAATAATGTACCGATACATCTGGGTAAAAAAACAAA
* * * *
2353382 ATGTATTGATACATTGAA-AATGTATCGATACATCTTGGT-AAAAAACATA
1 ATGTATCGATACATTGAATAATGTACCGATACATCTGGGTAAAAAAACAAA
2353431 ATGTATCGATACAT
1 ATGTATCGATACAT
2353445 GTACTATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 22 0.39
50 18 0.32
51 16 0.29
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACATTGAATAATGTACCGATACATCTGGGTAAAAAAACAAA
Found at i:2354392 original size:28 final size:28
Alignment explanation
Indices: 2354306--2354787 Score: 478
Period size: 28 Copynumber: 17.2 Consensus size: 28
2354296 CACCAACTTG
* *
2354306 TGTGGGCTTTAGAGAAAGTTACCACTGACTT
1 TGTGGGCTTT-GA-AAAGATGCCACTGAC-T
* *
2354337 GTGTGGGCTTT-AAAAGGATGCTATTGACT
1 -TGTGGGCTTTGAAAA-GATGCCACTGACT
* *
2354366 TGTGGGTTTTGAGAAAG-TGCCTCTGACT
1 TGTGGGCTTTGA-AAAGATGCCACTGACT
* *
2354394 TATGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
2354422 TGTGGGCTTTGAAAGGATGCCACTGA--
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
2354448 -GTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * * *
2354475 CGTGGGCTTTGGAAGGATGCCAATAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
2354503 TGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
** * *
2354531 CATGGGTTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
2354559 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
2354587 TGTGTGCTATGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
2354615 TGTAGGCTATGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
2354643 TGTGGGCTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
2354671 TGTGGG-TTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTT-GAAAAGATGCCACTGACT
*
2354699 TATGGGCTTT-AAAAGGATGCCACTGA-T
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
*
2354726 TCGTGGGCTTTGAAAAGGATGCCATTGACT
1 T-GTGGGCTTTGAAAA-GATGCCACTGACT
* * * *
2354756 TGTGGAC-TTGAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
2354783 TGTGG
1 TGTGG
2354788 ACGTAAAAGG
Statistics
Matches: 382, Mismatches: 55, Indels: 31
0.82 0.12 0.07
Matches are distributed among these distances:
25 24 0.06
27 26 0.07
28 279 0.73
29 29 0.08
30 14 0.04
32 10 0.03
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:2355019 original size:28 final size:28
Alignment explanation
Indices: 2354682--2355423 Score: 737
Period size: 27 Copynumber: 27.0 Consensus size: 28
2354672 GTGGGTTTGG
* * * *
2354682 AAAA-GATGCCACTGACTTATGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354709 AAAAGGATGCCACTGA-TTCGTGGGCTTT
1 AAAAGGATGCCACGGAGTT-GTGGACTTT
** *
2354737 GAAAAGGATGCCATTGACTTGTGGAC-TT
1 -AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354765 GAAAGGATGCCACGGAGTTGTGGAC-GT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
2354792 AAAAGGATGCCACGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354819 AAAAGGGTGCCACGGAGTTATGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354846 AAAAGGGTGCCACGAAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
2354873 AAAAGGTTGCCACAGAGCTATGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354900 AAAAGGTTGCCACAGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* ** * * *
2354927 AAAAGGTTGCCACAAAGCTATGGACTTC
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354955 AAAAGG-TGCCACAGAGTTATGGA-TTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2354981 AAAAGGGTGCTACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * *
2355009 AAACGGATGCTATGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355037 AAAAGGATGCCACGAAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * *
2355065 AAAAGGGTGCCATGGAGTTGTTGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355093 AAAAGGATGCCACGGAGTTATGG-CTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * *
2355120 AAAAGGGTGCCATGGAGTTATGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *** *
2355148 AAAAGGATGTCATGAAGTTACAGACTTC
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355176 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355204 AAAAGGATGCCACGAAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355231 AAAAGGTTGCCACGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * * *
2355258 AAAAGGTTGCCACGAAGCTATGGA-GTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355285 AAAAGTG-TGCCATGGAGTTGTGGAC-TT
1 AAAAG-GATGCCACGGAGTTGTGGACTTT
*
2355312 AAAAGTG-TGCTACGGAGTTGTGGACTTT
1 AAAAG-GATGCCACGGAGTTGTGGACTTT
* **
2355340 AAAAGGGTGCCACAAAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
2355368 AAAAGGATGCTACGAAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
2355396 AAAAGGATGCCACAGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
2355424 GAAGAGGTTA
Statistics
Matches: 618, Mismatches: 84, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.01
27 320 0.52
28 268 0.43
29 20 0.03
30 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (28 bp):
AAAAGGATGCCACGGAGTTGTGGACTTT
Found at i:2359191 original size:19 final size:18
Alignment explanation
Indices: 2359166--2359230 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
2359156 ATTTCAACGA
2359166 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2359184 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
2359200 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2359216 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2359231 ATGTAAGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2359209 original size:32 final size:32
Alignment explanation
Indices: 2359168--2359235 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
2359158 TTCAACGATT
2359168 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
2359200 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
2359232 TGTA
1 TGTA
2359236 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:2359291 original size:13 final size:13
Alignment explanation
Indices: 2359273--2359297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2359263 ATTACTCAAA
2359273 TGTATCGATACAT
1 TGTATCGATACAT
2359286 TGTATCGATACA
1 TGTATCGATACA
2359298 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2359350 original size:52 final size:52
Alignment explanation
Indices: 2359306--2359434 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2359296 CACTGATCTT
2359306 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
2359358 TGTATCGATACATACAGGCAAATTTGCTCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2359410 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2359435 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2374040 original size:16 final size:16
Alignment explanation
Indices: 2374016--2374055 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2374006 GGAAGTGTTT
*
2374016 GGAGGTGTTTCTTTTG
1 GGAGCTGTTTCTTTTG
2374032 GGAGCTGTTTCTTTTG
1 GGAGCTGTTTCTTTTG
2374048 GGAGCTGT
1 GGAGCTGT
2374056 AGGGAGCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.10, G:0.38, T:0.45
Consensus pattern (16 bp):
GGAGCTGTTTCTTTTG
Found at i:2374637 original size:64 final size:64
Alignment explanation
Indices: 2374540--2374666 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 64
2374530 AATTAACTAG
2374540 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATAGATACAC
1 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGT-AAAAAACAGAATGTATAGATACAC
* * *
2374605 ATGTATCGATACATTGAA-AATGTATCGATACATCTTGGTAAAAAACAGAATGTATCGATACA
1 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAAAAACAGAATGTATAGATACA
2374667 TGTACTATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 22 0.37
64 20 0.34
65 17 0.29
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (64 bp):
ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAAAAACAGAATGTATAGATACAC
Found at i:2375122 original size:10 final size:9
Alignment explanation
Indices: 2375107--2375141 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2375097 ATTGCACCTC
2375107 TTTTTTTCT
1 TTTTTTTCT
2375116 TTTTTTTCT
1 TTTTTTTCT
*
2375125 TTTTTTTGT
1 TTTTTTTCT
*
2375134 ATTTTTTC
1 TTTTTTTC
2375142 AAATAAGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:2379806 original size:14 final size:15
Alignment explanation
Indices: 2379772--2379806 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2379762 TTTCACATAT
2379772 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
2379787 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
2379801 TTTTCA
1 TTTTCA
2379807 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:2379841 original size:5 final size:5
Alignment explanation
Indices: 2379831--2379962 Score: 147
Period size: 5 Copynumber: 26.4 Consensus size: 5
2379821 CATGCATAAT
* * * * * *
2379831 TTTCA TTTCA TTGCA TTGCA TTTCA TTGCA TTGCA TTTCA TTACA TTGCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * * *
2379881 TTTCA TTTCA TTTCA TTTCA TTTCA TTGCA TTTCA TTGCA TTGCA TTGCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * *
2379931 TTTCA TTACA TTGCA TTTCA TTTCA TTGCA TT
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TT
2379963 GGTTTCATGC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 112 1.00
ACGTcount: A:0.21, C:0.20, G:0.08, T:0.51
Consensus pattern (5 bp):
TTTCA
Found at i:2379854 original size:15 final size:15
Alignment explanation
Indices: 2379834--2379963 Score: 162
Period size: 15 Copynumber: 9.0 Consensus size: 15
2379824 GCATAATTTT
2379834 CATTTCATTGCATTG
1 CATTTCATTGCATTG
2379849 CATTTCATTGCATTG
1 CATTTCATTGCATTG
*
2379864 CATTTCATTACATTG
1 CATTTCATTGCATTG
* *
2379879 CATTTCATTTCATTT
1 CATTTCATTGCATTG
*
2379894 CATTTCATTTCATTG
1 CATTTCATTGCATTG
2379909 CATTTCATTGCATTG
1 CATTTCATTGCATTG
*
2379924 -----CATTGCATTT
1 CATTTCATTGCATTG
* *
2379934 CATTACATTGCATTT
1 CATTTCATTGCATTG
2379949 CATTTCATTGCATTG
1 CATTTCATTGCATTG
2379964 GTTTCATGCA
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
10 9 0.09
15 93 0.91
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.49
Consensus pattern (15 bp):
CATTTCATTGCATTG
Found at i:2379856 original size:20 final size:20
Alignment explanation
Indices: 2379831--2379963 Score: 185
Period size: 20 Copynumber: 6.7 Consensus size: 20
2379821 CATGCATAAT
*
2379831 TTTCATTTCATTGCATTGCA
1 TTTCATTGCATTGCATTGCA
*
2379851 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTGCA
* * *
2379871 TTACATTGCATTTCATTTCA
1 TTTCATTGCATTGCATTGCA
* *
2379891 TTTCATTTCATTTCATTGCA
1 TTTCATTGCATTGCATTGCA
2379911 TTTCATTGCATTGCATTGCA
1 TTTCATTGCATTGCATTGCA
* *
2379931 TTTCATTACATTGCATTTCA
1 TTTCATTGCATTGCATTGCA
2379951 TTTCATTGCATTG
1 TTTCATTGCATTG
2379964 GTTTCATGCA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 101 1.00
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.50
Consensus pattern (20 bp):
TTTCATTGCATTGCATTGCA
Found at i:2381242 original size:16 final size:16
Alignment explanation
Indices: 2381221--2381252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2381211 TTTTTCCATA
*
2381221 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
2381237 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
2381253 TCTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:2393821 original size:42 final size:42
Alignment explanation
Indices: 2393761--2394471 Score: 740
Period size: 42 Copynumber: 16.6 Consensus size: 42
2393751 CTTTTTTGTT
*
2393761 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * * *
2393803 AACCCTCAATCTGCCTGTCGACTTTGACCCTGGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
* *
2393850 TTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * **
2393892 TTCCCTTAGTCTACCTGTCGGCTTCATCCCTAAAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** *
2393934 AACCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
2393976 TTCCCTTAGTCTACCTGTCGGCTTTGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * *
2394018 AACCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
* *
2394065 TTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
2394107 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * * *
2394149 AACCCTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
*
2394196 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
2394238 TTCCCTTTGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * *
2394280 AACCCTCAATCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * *
2394322 TTCCCTTAGTCTACCTGTCGGCTTTGTCCCTAGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * *
2394364 AACCTTTAGTATGCCTGTCGGCTTCATCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * * **
2394406 ATCCCTTAGTCTGCCTGTCGGCTTTGAT-CCTAGAGACTTTGA
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCCTGGAGACTTTTC
* * *
2394448 TTTCCTCATTCTGCCTGTCGGCTT
1 TTCCCTTAGTCTGCCTGTCGGCTT
2394472 TGACCTTAGA
Statistics
Matches: 551, Mismatches: 102, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
42 437 0.79
43 7 0.01
44 3 0.01
45 3 0.01
46 9 0.02
47 92 0.17
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.36
Consensus pattern (42 bp):
TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
Found at i:2394113 original size:131 final size:129
Alignment explanation
Indices: 2393844--2394445 Score: 795
Period size: 131 Copynumber: 4.7 Consensus size: 129
2393834 GGAGACTTTT
* * * ** * *
2393844 CTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTCCTTCCCTTAGTCTACCTG
1 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTG
* * **
2393909 TCGGC-TTCATCCCTAAAGAC---TTTTCAACCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGA
66 TCGGCTTTGA-CCCTAGAGACTTTTTTTCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGA
* *
2393970 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTTGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTA
1 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTG
* *
2394035 TCGGCTTTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAG
66 TCGGCTTTGACCCTAGAGACTTTT-TTT-CTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAG
2394100 A
129 A
* *
2394101 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTCAGTCTGCCTA
1 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTG
2394166 TCGGCTTTGACCCTAGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAG
66 TCGGCTTTGACCCTAGAGACTTTT-TTT-CTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAG
2394231 A
129 A
* *
2394232 CTTTCCTTCCCTTTGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAATCTGCCTG
1 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTG
* * * * * *
2394297 TCGGCTTCGTCCCTGGAGAC---TTTTCTTCCCTTAGTCTACCTGTCGGCTTTGTCCCTAGAGA
66 TCGGCTTTGACCCTAGAGACTTTTTTTCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGA
* ** * * * * * *
2394358 CTTTTCAACCTTTAGTATGCCTGTCGGCTTCATCCCTGGAGACTTTTCATCCCTTAGTCTGCCTG
1 CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTG
*
2394423 TCGGCTTTGATCCTAGAGACTTT
66 TCGGCTTTGACCCTAGAGACTTT
2394446 GATTTCCTCA
Statistics
Matches: 423, Mismatches: 44, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
126 173 0.41
127 6 0.01
128 1 0.00
129 1 0.00
130 3 0.01
131 239 0.57
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.36
Consensus pattern (129 bp):
CTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTG
TCGGCTTTGACCCTAGAGACTTTTTTTCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGA
Found at i:2394146 original size:215 final size:214
Alignment explanation
Indices: 2393761--2394493 Score: 965
Period size: 215 Copynumber: 3.4 Consensus size: 214
2393751 CTTTTTTGTT
* *
2393761 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAATCTGCCTGTCGACT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
2393826 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTC
66 TTGACCCTGGAGACTTTT-TTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTC
* *
2393891 CTTCCCTTAGTCTACCTGTCGGCTTCATCCCTAAAGACTTTTCAACCCTTAGTCTGCCTGTCGGC
130 CTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTTAGTCTGCCTGTCGGC
2393956 TTCGTCCCTGGAGACTTTCC
195 TTCGTCCCTGGAGACTTTCC
* *
2393976 TTCCCTTAGTCTACCTGTCGGCTTTGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTATCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
2394041 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTC
66 TTGACCCTGGAGACTTTT-TTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTC
* *
2394106 CTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTCAGTCTGCCTATCGGC
130 CTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTTAGTCTGCCTGTCGGC
* * *
2394171 TTTGACCCTAGAGACTTTTCTTTCC
195 TTCGTCCCTGGAGA-----CTTTCC
* * ** ** *
2394196 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCCTTCCCTTTGTCTACCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* * ** * * * *
2394261 TCGTCCCTGGAGAC---TTTT-CAACCCTCAATCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
66 TTGACCCTGGAGACTTTTTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTCC
* * *
2394322 TTCCCTTAGTCTACCTGTCGGCTTTGTCCCTAGAGACTTTTCAACCTTTAGTATGCCTGTCGGCT
131 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTTAGTCTGCCTGTCGGCT
* *
2394387 TCATCCCTGGAGACTTTTC
196 TCGTCCCTGGAGACTTTCC
* * * * * ** *
2394406 ATCCCTTAGTCTGCCTGTCGGCTTTGAT-CCTAGAGAC-TTTGATTTCCTCATTCTGCCTGTCGG
1 TTCCCTTAGTCTACCTGTCGGCTTCG-TCCCTGGAGACTTTTCA-ACCCTCAGTCTGCCTGTCGG
* * *
2394469 CTTTGACCTTAGAGGCTTTTTTTCC
64 CTTTGACCCTGGAGACTTTTTTTCC
2394494 CTAAGTTTGC
Statistics
Matches: 453, Mismatches: 54, Indels: 23
0.85 0.10 0.04
Matches are distributed among these distances:
209 2 0.00
210 63 0.14
211 1 0.00
213 4 0.01
214 1 0.00
215 304 0.67
216 3 0.01
217 1 0.00
220 74 0.16
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (214 bp):
TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
TTGACCCTGGAGACTTTTTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTCC
TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTTAGTCTGCCTGTCGGCT
TCGTCCCTGGAGACTTTCC
Found at i:2398863 original size:14 final size:15
Alignment explanation
Indices: 2398829--2398863 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2398819 TTTCACATAT
2398829 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
2398844 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
2398858 TTTTCA
1 TTTTCA
2398864 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:2398904 original size:5 final size:5
Alignment explanation
Indices: 2398888--2399024 Score: 148
Period size: 5 Copynumber: 27.4 Consensus size: 5
2398878 CATGCATAAT
* * * * *
2398888 TTTCA TTGCA TTTCA TTTCA TTTCA TTGCA TTGCA TTTCA TTGCA TTGCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * * *
2398938 TTTCA TTACA TTGCA TTTCA TTTCA TTTCA TTTCA TTGCA TTTCA TTGCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * * * *
2398988 TTGCA TTTCA TTACA TTGCA TTTCA TATCA TTGCA TT
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TT
2399025 GGTTTCATGC
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 113 1.00
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (5 bp):
TTTCA
Found at i:2398908 original size:15 final size:15
Alignment explanation
Indices: 2398888--2399024 Score: 184
Period size: 15 Copynumber: 9.1 Consensus size: 15
2398878 CATGCATAAT
* *
2398888 TTTCATTGCATTTCA
1 TTTCATTTCATTGCA
2398903 TTTCATTTCATTGCA
1 TTTCATTTCATTGCA
*
2398918 TTGCATTTCATTGCA
1 TTTCATTTCATTGCA
* *
2398933 TTGCATTTCATTACA
1 TTTCATTTCATTGCA
* *
2398948 TTGCATTTCATTTCA
1 TTTCATTTCATTGCA
2398963 TTTCATTTCATTGCA
1 TTTCATTTCATTGCA
*
2398978 TTTCATTGCATTGCA
1 TTTCATTTCATTGCA
*
2398993 TTTCATTACATTGCA
1 TTTCATTTCATTGCA
*
2399008 TTTCATATCATTGCA
1 TTTCATTTCATTGCA
2399023 TT
1 TT
2399025 GGTTTCATGC
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 111 1.00
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (15 bp):
TTTCATTTCATTGCA
Found at i:2399124 original size:16 final size:16
Alignment explanation
Indices: 2399097--2399136 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
2399087 CAACAATAAA
2399097 AAAAATATTAAAAAAAT
1 AAAAA-ATTAAAAAAAT
* *
2399114 TAAAAATTAAAGAAAT
1 AAAAAATTAAAAAAAT
2399130 AAAAAAT
1 AAAAAAT
2399137 ATTCAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAAATTAAAAAAAT
Found at i:2400305 original size:16 final size:16
Alignment explanation
Indices: 2400284--2400315 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2400274 TTTTTCCATA
*
2400284 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
2400300 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
2400316 TCTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:2408342 original size:52 final size:51
Alignment explanation
Indices: 2408278--2408449 Score: 186
Period size: 52 Copynumber: 3.2 Consensus size: 51
2408268 TATTTGTAAA
*
2408278 AAAAAAATATAGAATGACAATATTTGGATGAAAATCCGAAAGGGCATTTAGGT
1 AAAAAAA-ATAGAATGACAATACTTGGATGAAAA-CCGAAAGGGCATTTAGGT
*
2408331 AAAAAAAATAGAATGACAATACTTGGATGAAAACCTGAAAGGGCATTCAGGT
1 AAAAAAAATAGAATGACAATACTTGGATGAAAACC-GAAAGGGCATTTAGGT
* *
2408383 AAAAAATAAAAAAATAAAATTACAATACTTGGATGAAAACCCGAAA-GG-ATGTTCAGGT
1 -----A-AAAAAAATAGAATGACAATACTTGGATGAAAA-CCGAAAGGGCAT-TT-AGGT
2408441 AAAAAAAAT
1 AAAAAAAAT
2408450 CGATTGAACG
Statistics
Matches: 104, Mismatches: 5, Indels: 21
0.80 0.04 0.16
Matches are distributed among these distances:
51 2 0.02
52 48 0.46
53 8 0.08
56 2 0.02
57 4 0.04
58 38 0.37
59 2 0.02
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (51 bp):
AAAAAAAATAGAATGACAATACTTGGATGAAAACCGAAAGGGCATTTAGGT
Found at i:2408395 original size:58 final size:56
Alignment explanation
Indices: 2408275--2408448 Score: 205
Period size: 58 Copynumber: 3.1 Consensus size: 56
2408265 TACTATTTGT
* * *
2408275 AAAAAAAAAATATAGAATGACAATATTTGGATGAAAATCCGAAAGGGCATTTAGGT-
1 AAAAAAAAAAAATAGAATGACAATACTTGGATGAAAA-CCGAAAGGGCATTCAGGTA
2408331 ----AAAAAAAATAGAATGACAATACTTGGATGAAAACCTGAAAGGGCATTCAGGTA
1 AAAAAAAAAAAATAGAATGACAATACTTGGATGAAAACC-GAAAGGGCATTCAGGTA
* * ***
2408384 AAAAATAAAAAAATAAAATTACAATACTTGGATGAAAACCCGAAAGGATGTTCAGGTA
1 AAAAA-AAAAAAATAGAATGACAATACTTGGATGAAAA-CCGAAAGGGCATTCAGGTA
2408442 AAAAAAA
1 AAAAAAA
2408449 TCGATTGAAC
Statistics
Matches: 102, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
51 2 0.02
52 46 0.45
57 3 0.03
58 49 0.48
59 2 0.02
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (56 bp):
AAAAAAAAAAAATAGAATGACAATACTTGGATGAAAACCGAAAGGGCATTCAGGTA
Found at i:2409245 original size:74 final size:76
Alignment explanation
Indices: 2409096--2409326 Score: 232
Period size: 78 Copynumber: 3.0 Consensus size: 76
2409086 GCTCGACCAT
* *
2409096 ACATTCCTAATCATATCCTTCCTTCCCAAATACCAAATGATACTGGTGCATCCCAAGGCCAAAAG
1 ACATTCCCAATCATATCCTTCCTTACCAAATACCAAATGATACTGGTGCAT--CAAGGCCAAAAG
2409161 GGGCACTTCCCAC
64 GGGCACTTCCCAC
* * * ** *
2409174 ACATTCCCAATCATATCCTTCCTTATCAAATACTAGATGATGTTGGTGCAT-TA-GCCAAAAGGG
1 ACATTCCCAATCATATCCTTCCTTACCAAATACCAAATGATACTGGTGCATCAAGGCCAAAAGGG
2409237 GCACTTCCCAC
66 GCACTTCCCAC
* * * * * * * * * * *
2409248 ACATTCTCAATCACATCCCTCCTTCCCAAACACTAAATGGTATTGATGCATCATGTGGCCATAAG
1 ACATTCCCAATCATATCCTTCCTTACCAAATACCAAATGATACTGGTGCATCA--AGGCCAAAAG
*
2409313 GGGCACATCCCAC
64 GGGCACTTCCCAC
2409326 A
1 A
2409327 AGCTCCTCGC
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
74 62 0.49
75 1 0.01
78 64 0.50
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (76 bp):
ACATTCCCAATCATATCCTTCCTTACCAAATACCAAATGATACTGGTGCATCAAGGCCAAAAGGG
GCACTTCCCAC
Found at i:2409871 original size:42 final size:42
Alignment explanation
Indices: 2409804--2410379 Score: 188
Period size: 42 Copynumber: 13.6 Consensus size: 42
2409794 TCATTCTCTT
* * *
2409804 CATCAATCGTCTGCCCGTCGGCTTAGACCTGAGAGACTTTTC
1 CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTTTTC
* * * *
2409846 CATCAATCGTCTGTCTATCGACTTAGACCCGGGAGACTTTTT
1 CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTTTTC
* * * *
2409888 CATCAATCATCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-
1 CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTT--TTC
** * * * * ** * * * *
2409931 TGTTAATGGTTTACCTGTTGACTTAGACCTGTGAGACTTTTT
1 CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTTTTC
* * *
2409973 CATCAA-CTGTCTGCCCATTGGCTTTA-ACTCGAGAGACTTTCTTC
1 CATCAATC-GTCTGCCCATCGAC-TTAGACCCGAGAGAC-TT-TTC
* ** * * * * * *
2410017 C-CCTTTCATCTGCCCGTTGGCTTTA-ACCTGGGAGACTTTCTTC
1 CATCAATCGTCTGCCCATCGAC-TTAGACCCGAGAGAC-TT-TTC
** * * * *
2410060 C-TCTTTCGTCTGCCCATTGGCTTTGACCCGGGAGACTTCTT-
1 CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTT-TTC
* ** * ** * *
2410101 CATCCATTTTTTGCCTGTC-AGTTCAGTCCCGAGAGATCTTTT-
1 CATCAATCGTCTGCCCATCGACTT-AGACCCGAGAGA-CTTTTC
* * * * *
2410143 CATCCACCGTCTGCCCATCGGCTTAGA-TCAAGGAGACTTTTC
1 CATCAATCGTCTGCCCATCGACTTAGACCCGA-GAGACTTTTC
* * * * * * *
2410185 CATCATTCGTCTACCCGTCGGCTCAGA-CCTAGGAGACTTCTTT
1 CATCAATCGTCTGCCCATCGACTTAGACCCGA-GAGACTT-TTC
** * *** *
2410228 TGTCAATCGTTTGCTTGTC-AGCTTAGACCCTAGAGACTTTTC
1 CATCAATCGTCTGCCCATCGA-CTTAGACCCGAGAGACTTTTC
* *
2410270 CATCAATCGTCTGCCCATCGGCTTAGACTC-AGGAGACTTTTC
1 CATCAATCGTCTGCCCATCGACTTAGACCCGA-GAGACTTTTC
* * ** * *
2410312 CATCATTCGTTTGCCTGTCGACTTAGACCCGGGAGACTTTTT
1 CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTTTTC
* * * *
2410354 CATCCATAGCCTGCCCATCGGCTTAG
1 CATCAATCGTCTGCCCATCGACTTAG
2410380 TCTTGGGAGA
Statistics
Matches: 396, Mismatches: 117, Indels: 42
0.71 0.21 0.08
Matches are distributed among these distances:
41 13 0.03
42 250 0.63
43 123 0.31
44 10 0.03
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.33
Consensus pattern (42 bp):
CATCAATCGTCTGCCCATCGACTTAGACCCGAGAGACTTTTC
Found at i:2410043 original size:43 final size:42
Alignment explanation
Indices: 2409982--2410101 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 42
2409972 TCATCAACTG
*
2409982 TCTGCCCATTGGCTTTAACTCGAGAGACTTTCTTCCCCTTTCA
1 TCTGCCCATTGGCTTTAAC-CGGGAGACTTTCTTCCCCTTTCA
* * *
2410025 TCTGCCCGTTGGCTTTAACCTGGGAGACTTTCTTCCTCTTTCG
1 TCTGCCCATTGGCTTTAACC-GGGAGACTTTCTTCCCCTTTCA
*
2410068 TCTGCCCATTGGCTTTGACCCGGGAGAC-TTCTTC
1 TCTGCCCATTGGCTTT-AACCGGGAGACTTTCTTC
2410102 ATCCATTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 7 0.10
43 59 0.86
44 3 0.04
ACGTcount: A:0.12, C:0.32, G:0.19, T:0.37
Consensus pattern (42 bp):
TCTGCCCATTGGCTTTAACCGGGAGACTTTCTTCCCCTTTCA
Found at i:2410264 original size:85 final size:84
Alignment explanation
Indices: 2410175--2410376 Score: 219
Period size: 84 Copynumber: 2.4 Consensus size: 84
2410165 TTAGATCAAG
* * ***
2410175 GAGACTTTTCCATCATTCGTCTACCCGTCGGCTCAGAC-CTAGGAGACTTCTTTTGTCAATCGTT
1 GAGACTTTTCCATCAATCGTCTACCCATCGGCTCAGACTC-AGGAGACTT-TTCCATCAATCGTT
* *
2410239 TGCTTGTC-AGCTTAGACCCTA
64 TGCCTGTCGA-CTTAGACCCGA
* * *
2410260 GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACTCAGGAGACTTTTCCATCATTCGTTTG
1 GAGACTTTTCCATCAATCGTCTACCCATCGGCTCAGACTCAGGAGACTTTTCCATCAATCGTTTG
*
2410325 CCTGTCGACTTAGACCCGG
66 CCTGTCGACTTAGACCCGA
* * * * *
2410344 GAGACTTTTTCATCCATAGCCTGCCCATCGGCT
1 GAGACTTTTCCATCAATCGTCTACCCATCGGCT
2410377 TAGTCTTGGG
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
84 55 0.55
85 44 0.44
86 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (84 bp):
GAGACTTTTCCATCAATCGTCTACCCATCGGCTCAGACTCAGGAGACTTTTCCATCAATCGTTTG
CCTGTCGACTTAGACCCGA
Found at i:2410340 original size:127 final size:127
Alignment explanation
Indices: 2410110--2410350 Score: 326
Period size: 127 Copynumber: 1.9 Consensus size: 127
2410100 TCATCCATTT
* *
2410110 TTTGCCTGTCAGTTCAGTCCCGAGAGATCTTTTCATCCACCGTCTGCCCATCGGCTTAGATCAAG
1 TTTGCCTGTCAGTTCAGACCCGAGAGATCTTTTCATCAACCGTCTGCCCATCGGCTTAGATCAAG
* *
2410175 GAGACTTTTCCATCATTCGTCTACCCGTCGGCTCAGACCTAGGAGACTTCTTTTGTCAATCG
66 GAGACTTTTCCATCATTCGTCTACCCGTCGACTCAGACCCAGGAGACTTCTTTTGTCAATCG
* * *
2410237 TTTGCTTGTCAGCTT-AGACCCTAGAGA-CTTTTCCATCAATCGTCTGCCCATCGGCTTAGACTC
1 TTTGCCTGTCAG-TTCAGACCCGAGAGATCTTTT-CATCAACCGTCTGCCCATCGGCTTAGA-TC
* * * * *
2410300 -AGGAGACTTTTCCATCATTCGTTTGCCTGTCGACTTAGACCCGGGAGACTT
63 AAGGAGACTTTTCCATCATTCGTCTACCCGTCGACTCAGACCCAGGAGACTT
2410351 TTTCATCCAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
126 5 0.05
127 90 0.91
128 4 0.04
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (127 bp):
TTTGCCTGTCAGTTCAGACCCGAGAGATCTTTTCATCAACCGTCTGCCCATCGGCTTAGATCAAG
GAGACTTTTCCATCATTCGTCTACCCGTCGACTCAGACCCAGGAGACTTCTTTTGTCAATCG
Found at i:2411990 original size:162 final size:164
Alignment explanation
Indices: 2411652--2412001 Score: 397
Period size: 162 Copynumber: 2.1 Consensus size: 164
2411642 CTTAGTTTTT
* * * *
2411652 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATGTTAATTTAGTTTTAAAAAATAAATTC
1 AATTTTTAAAATTCATAAAATACTATTATTTATTTCATATTAATTCAGTTTT-AAAAATAAATTC
* * * * *
2411717 ATTTTCGTGAGTTTTGGATTTTTCCTTGAAATACCTTTTTTTTCCTAAATACGGTGTTTTCTACT
65 ATTTTCATGAGTTTTGGATTTTTCCTCGAAATACCTTTATTTT-CGAAATACGGTGTTTTCCACT
* **
2411782 CTGTAAATTTGTTCGAGGGGATTTTTTTCGGTTTTC
129 CTGTAAATTTGTTCGAGGGGATTTTTTTCGGTCTAA
2411818 AATTTTTAAAATTCATAAAATACTATTATTTATTTCATATTAATTCAGTTTT-AAAA-AAA-TCA
1 AATTTTTAAAATTCATAAAATACTATTATTTATTTCATATTAATTCAGTTTTAAAAATAAATTCA
* * * * *
2411880 TTTTTATGAGTTTTTGATTTTTCTCCTCGAAATTCCCTTTATTTT-GAAATGCGGTGTTTTCCAT
66 TTTTCATGAGTTTTGGA-TTTT-TCCTCGAAA-TACCTTTATTTTCGAAATACGGTGTTTTCCAC
* * * *
2411944 TTTGT-AATTTTTTTGGGGGGATTTTGTTT-GGTCTAA
128 TCTGTAAATTTGTTCGAGGGGATTTT-TTTCGGTCTAA
* *
2411980 AATTTTTAAAATGCATATAATA
1 AATTTTTAAAATTCATAAAATA
2412002 TTGTCATTTA
Statistics
Matches: 157, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
162 58 0.37
163 29 0.18
164 12 0.08
165 10 0.06
166 48 0.31
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (164 bp):
AATTTTTAAAATTCATAAAATACTATTATTTATTTCATATTAATTCAGTTTTAAAAATAAATTCA
TTTTCATGAGTTTTGGATTTTTCCTCGAAATACCTTTATTTTCGAAATACGGTGTTTTCCACTCT
GTAAATTTGTTCGAGGGGATTTTTTTCGGTCTAA
Found at i:2418958 original size:20 final size:20
Alignment explanation
Indices: 2418933--2419007 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
2418923 TTTTACTTAG
2418933 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2418953 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2418973 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
2418993 ATGTGTCGATACATT
1 ATGTATCGATACATT
2419008 CTGTTTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2423471 original size:13 final size:13
Alignment explanation
Indices: 2423453--2423480 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2423443 CATTATTTAA
2423453 TGTATCGATACAT
1 TGTATCGATACAT
2423466 TGTATCGATACAT
1 TGTATCGATACAT
2423479 TG
1 TG
2423481 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2423475 original size:33 final size:33
Alignment explanation
Indices: 2423433--2423498 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
2423423 ACCAAGGAAA
2423433 TGTATCGATACATT-AT-TTAATGTATCGATACAT
1 TGTATCGATACATTGATCTT--TGTATCGATACAT
2423466 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCTTTGTATCGATACAT
2423499 CTGGGAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 27 0.87
34 2 0.06
35 2 0.06
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCTTTGTATCGATACAT
Found at i:2437418 original size:13 final size:13
Alignment explanation
Indices: 2437400--2437454 Score: 76
Period size: 13 Copynumber: 4.2 Consensus size: 13
2437390 AAGAAGAAAG
2437400 AAGAAAAAAAAAC
1 AAGAAAAAAAAAC
2437413 AAGAAAAAAAAAC
1 AAGAAAAAAAAAC
2437426 AAGAAAACAAAAA-
1 AAGAAAA-AAAAAC
*
2437439 AAAACAAAAAAAAC
1 AAGA-AAAAAAAAC
2437453 AA
1 AA
2437455 ACAAAACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
13 28 0.74
14 10 0.26
ACGTcount: A:0.85, C:0.09, G:0.05, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAC
Found at i:2437432 original size:9 final size:9
Alignment explanation
Indices: 2437404--2437478 Score: 87
Period size: 9 Copynumber: 7.9 Consensus size: 9
2437394 AGAAAGAAGA
2437404 AAAAAAAAC
1 AAAAAAAAC
*
2437413 AAGAAAAAAA
1 AA-AAAAAAC
2437423 AACAAGAAAAC
1 AA-AA-AAAAC
2437434 AAAAAAAAAC
1 -AAAAAAAAC
2437444 AAAAAAAAC
1 AAAAAAAAC
*
2437453 AAACAAAAC
1 AAAAAAAAC
2437462 AAAAAAAAC
1 AAAAAAAAC
*
2437471 AACAAAAA
1 AAAAAAAA
2437479 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
9 34 0.60
10 15 0.26
11 6 0.11
12 2 0.04
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2437447 original size:27 final size:26
Alignment explanation
Indices: 2437381--2437478 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
2437371 GCATCCTCCG
* * *
2437381 CAAAAAAAAAAGAAGAAAGAAGAAAA
1 CAAAAAAAAAAAAAAAAACAAGAAAA
*
2437407 -AAAAACAAGAAAAAAAAACAAGAAAA
1 CAAAAA-AAAAAAAAAAAACAAGAAAA
*
2437433 CAAAAAAAAACAAAAAAAACAAACAAAA
1 CAAAAAAAAA-AAAAAAAAC-AAGAAAA
* *
2437461 CAAAAAAAACAACAAAAA
1 CAAAAAAAAAAAAAAAAA
2437479 GGGTCCGGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.08
26 19 0.32
27 21 0.35
28 15 0.25
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (26 bp):
CAAAAAAAAAAAAAAAAACAAGAAAA
Found at i:2437456 original size:13 final size:13
Alignment explanation
Indices: 2437404--2437478 Score: 73
Period size: 13 Copynumber: 5.5 Consensus size: 13
2437394 AGAAAGAAGA
2437404 AAAAAAAACAAGA-
1 AAAAAAAACAA-AC
2437417 AAAAAAAACAAGA-
1 AAAAAAAACAA-AC
*
2437430 AAACAAAAAAAAAC
1 AAA-AAAAACAAAC
2437444 AAAAAAAACAAAC
1 AAAAAAAACAAAC
*
2437457 AAAACAAAAAAAAC
1 AAAA-AAAACAAAC
2437471 AACAAAAA
1 AA-AAAAA
2437479 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
13 30 0.55
14 23 0.42
15 2 0.04
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:2437478 original size:1 final size:1
Alignment explanation
Indices: 2437382--2437469 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
2437372 CATCCTCCGC
* * * * * * * * * *
2437382 AAAAAAAAAAGAAGAAAGAAGAAAAAAAAACAAGAAAAAAAAACAAGAAAACAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
2437447 AAAAACAAACAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
2437470 CAACAAAAAG
Statistics
Matches: 61, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:2439643 original size:29 final size:29
Alignment explanation
Indices: 2439598--2439912 Score: 386
Period size: 29 Copynumber: 11.0 Consensus size: 29
2439588 CATTCCTCAC
*
2439598 CTTTTCCAAAGCTCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
2439627 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
2439656 C-CTTCAAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
2439684 CTTTCCCAAAGCCCACAAGTCAATGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * * *
2439713 CCTTT-AAAAGCCCACAAGTCAATGGCTT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
2439741 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
2439770 C-CTTCAAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
2439798 ATTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * * *
2439827 C-CTTCAAAAGCCCACAAGTTAGTGGCACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA-T
*
2439856 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
2439885 CTTTTCAAAAGCCCACAAGTCAGTGGCA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA
2439913 ACCTTCAAAA
Statistics
Matches: 240, Mismatches: 41, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
28 95 0.40
29 123 0.51
30 22 0.09
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:2439693 original size:57 final size:57
Alignment explanation
Indices: 2439605--2439912 Score: 481
Period size: 57 Copynumber: 5.4 Consensus size: 57
2439595 CACCTTTTCC
*
2439605 AAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
2439662 AAAGCCCACAAGTCAGTGGCATCTTTCCCAAAGCCCACAAGTCAATGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
2439719 AAAGCCCACAAGTCAATGGCTTCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
2439776 AAAGCCCACAAGTTAGTGGCATATTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
2439833 AAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
2439892 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
2439913 ACCTTCAAAA
Statistics
Matches: 230, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
57 179 0.78
58 27 0.12
59 24 0.10
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:2439940 original size:27 final size:30
Alignment explanation
Indices: 2439743--2439968 Score: 97
Period size: 28 Copynumber: 7.8 Consensus size: 30
2439733 AATGGCTTCT
* **
2439743 TTTCCAAAGCC-CACAAGTCAGTGGCAA-CC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACCC
* *
2439772 -TTCAAAAGCC-CACAAGTTAGTGGCATA--T
1 TTTCAAAAGCCACACAAGTTGGT-GCA-ACCC
* **
2439800 TTTCCAAAGCC-CACAAGTCAGTGGCAA-CC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACCC
*
2439829 -TTCAAAAGCC-CACAAGTTAGTGGC-ACCC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACCC
* ** ** * *
2439857 TTTTCCAAAGCC-CACAAGTCAGTGGTATCT
1 -TTTCAAAAGCCACACAAGTTGGTGCAACCC
**
2439887 TTTCAAAAGCC-CACAAGTCAGTGGCAA-CC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACCC
*
2439916 -TTCAAAAG-CACACAGGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAACCC
2439944 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
2439969 GCATCTTCTT
Statistics
Matches: 163, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
27 6 0.04
28 66 0.40
29 55 0.34
30 23 0.14
31 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (30 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACCC
Found at i:2439956 original size:57 final size:57
Alignment explanation
Indices: 2439600--2439958 Score: 449
Period size: 57 Copynumber: 6.3 Consensus size: 57
2439590 TTCCTCACCT
* *
2439600 TTTCCAAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCATC-TTTCCAAAGCCCACAAGTCAGTGGCAACC
*
2439658 -TTCAAAAGCCCACAAGTCAGTGGCATCTTTCCCAAAGCCCACAAGTCAATGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTTT-CCAAAGCCCACAAGTCAGTGGCAACC
* *
2439715 TTT-AAAAGCCCACAAGTCAATGGCTTCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCATC-TTTCCAAAGCCCACAAGTCAGTGGCAACC
* *
2439772 -TTCAAAAGCCCACAAGTTAGTGGCATATTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAT-CTTTCCAAAGCCCACAAGTCAGTGGCAACC
* * * * *
2439829 -TTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCA-TC-TTTCCAAAGCCCACAAGTCAGTGGCAACC
* * * * * **
2439887 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAGGTTGGT-GCAACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTTTCCAAAGCCCACAAGTCAGTGGCAA-CC
2439944 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
2439959 CAAGTTGGTG
Statistics
Matches: 266, Mismatches: 26, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
56 7 0.03
57 203 0.76
58 32 0.12
59 24 0.09
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (57 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCTTTCCAAAGCCCACAAGTCAGTGGCAACC
Found at i:2440091 original size:49 final size:47
Alignment explanation
Indices: 2439967--2440346 Score: 311
Period size: 43 Copynumber: 8.2 Consensus size: 47
2439957 CACAAGTTGG
* * *
2439967 TGGCA-TCTTCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATTCATCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
2440014 TGGCA--C--CTTTAA-ACCAATGTCGTTGGCCTTGAATCAGCACAT
1 TGGCATTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
2440056 TGGCATTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCA--TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2440105 TGGCA--C--CTTTAAGTCCAATGTCTCCGTCCTTGAATCAGCATAT
1 TGGCATTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
2440148 TGGCA--C--CTTTAAGTCCAATGTCACCGGCCTTGAATCAGCACAT
1 TGGCATTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2440191 TGGTATCTACATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGTATAT
1 TGGCAT-T-CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * **
2440240 TGGCATCTTTAACATTCCTCAGCCCAATGTCGTTGGCCTTGTCTCAGCACAT
1 TGGCA--TTCATC-TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2440292 TGGCATTCTTCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACAT
1 TGGCATTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2440339 TGTCATTC
1 TGGCATTC
2440347 TTTGCATCTT
Statistics
Matches: 273, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
42 31 0.11
43 80 0.29
44 3 0.01
45 1 0.00
46 2 0.01
47 39 0.14
48 6 0.02
49 71 0.26
50 6 0.02
51 1 0.00
52 33 0.12
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (47 bp):
TGGCATTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:2440207 original size:92 final size:86
Alignment explanation
Indices: 2439980--2440251 Score: 287
Period size: 92 Copynumber: 3.0 Consensus size: 86
2439970 CATCTTCTTC
* * * * *
2439980 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA-ACCAATGTCGTTGGCCTT
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGTCGTCGGCCTT
*
2440044 GAATCAGCACATTGGCATTTTCATCTT
66 GAATCAGCATATTGGCA----C--CTT
* * * *
2440071 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTC-TCCGTCCT
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGTCGT-CGGCCT
2440135 TGAATCAGCATATTGGCACCTT
65 TGAATCAGCATATTGGCACCTT
* *
2440157 TAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTACATCTTTAAGTCCAATGTCGTT
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGG---C-AC--CTTTAAGTCCAATGTCGTC
* *
2440222 GGCCTTGAATCAGTATATTGGCATCTT
60 GGCCTTGAATCAGCATATTGGCACCTT
2440249 TAA
1 TAA
2440252 CATTCCTCAG
Statistics
Matches: 160, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
86 36 0.22
88 1 0.01
89 1 0.01
90 2 0.01
91 47 0.29
92 72 0.45
93 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (86 bp):
TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGTCGTCGGCCTT
GAATCAGCATATTGGCACCTT
Found at i:2440225 original size:135 final size:134
Alignment explanation
Indices: 2439980--2440251 Score: 400
Period size: 135 Copynumber: 2.0 Consensus size: 134
2439970 CATCTTCTTC
* ***
2439980 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCGTTGGCCTTG
1 TAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCACCGGCCTTG
* *
2440045 AATCAGCACATTGGCATTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
66 AATCAGCACATTGGCATCTACATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2440110 CCTT
131 CCTT
* * * *
2440114 TAAGTCCAATGTCTCCGTCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTT
1 TAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTAA-ACCAATGTCACCGGCCTT
* * * *
2440179 GAATCAGCACATTGGTATCTACATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGTATATTGGC
65 GAATCAGCACATTGGCATCTACATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
*
2440244 ATCTT
130 ACCTT
2440249 TAA
1 TAA
2440252 CATTCCTCAG
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
134 42 0.34
135 80 0.66
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (134 bp):
TAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCACCGGCCTTG
AATCAGCACATTGGCATCTACATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
CCTT
Found at i:2440363 original size:99 final size:101
Alignment explanation
Indices: 2440154--2440366 Score: 218
Period size: 99 Copynumber: 2.1 Consensus size: 101
2440144 ATATTGGCAC
* * *
2440154 CTTTAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTACATCTTTAAGTCCAATGTC
1 CTTTAAGCCCAATGTCACCGGCCTTGAATCAGCACATTGGCATCTACATCTTCAAGTCCAATGTC
* * * *
2440219 GTTGGCCTTGAATCAGTATATTGGCATCTTTAACAT
66 GCTGGCCATGAATCAGCACATTGGCATCTTTAACAT
* * *** ** * *
2440255 -TCCTCAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCAT-T-CTTCTTCAAGTCTAATGT
1 CT-TTAAGCCCAATGTCACCGGCCTTGAATCAGCACATTGGCATCTACATCTTCAAGTCCAATGT
* *
2440317 CGCTGGCCATGAATCAGCACATTGTCATTCTTT-GCAT
65 CGCTGGCCATGAATCAGCACATTGGCA-TCTTTAACAT
2440354 CTTTAAGCCCAAT
1 CTTTAAGCCCAAT
2440367 ATCGCTAGCC
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
99 49 0.55
100 8 0.09
101 32 0.36
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (101 bp):
CTTTAAGCCCAATGTCACCGGCCTTGAATCAGCACATTGGCATCTACATCTTCAAGTCCAATGTC
GCTGGCCATGAATCAGCACATTGGCATCTTTAACAT
Found at i:2441181 original size:13 final size:13
Alignment explanation
Indices: 2441163--2441190 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2441153 CATTATTCAA
2441163 TGTATCGATACAT
1 TGTATCGATACAT
2441176 TGTATCGATACAT
1 TGTATCGATACAT
2441189 TG
1 TG
2441191 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2448205 original size:27 final size:27
Alignment explanation
Indices: 2448133--2453591 Score: 3278
Period size: 27 Copynumber: 199.9 Consensus size: 27
2448123 CCCCTTCAAC
*
2448133 GTCCACAA-TTCAGTGGCATTTCTTTTCAAA
1 GTCCACAACTT-AGTGGCA-TCCTTTT--AA
2448163 GTCCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * *
2448190 GCCCACAAGTTAGTGGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* * * *
2448218 GCCCACAAGTTAGTAGCACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
*
2448246 G-CCTACAAGC-CAGTGGCATCCTTTTAA
1 GTCC-ACAA-CTTAGTGGCATCCTTTTAA
*
2448273 GTCCACAACCTCA-TGGCATCCTTTTAA
1 GTCCACAA-CTTAGTGGCATCCTTTTAA
* * * *
2448300 GTCCATAGCTCCA-TGCCATCCTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
* ** * *
2448328 GTCCATAACTCCGTGGCAACTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2448355 GTCCACAACACT-GTGGCAACGTTTTAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAA
* * * *
2448382 GCCCCCAAGTTAGTGGCACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* * *
2448410 GCCCACAAGTCAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2448437 GTCCACAACTCCGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2448464 -TCCACAACTCCA-AGGCATCTTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
* ** *
2448491 GTCCAAAACTCCGTGACATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
2448518 GTCCACAACTTA-TGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2448544 GTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* *
2448572 GTCCATAACTCT-GTGGCATCCTTTTCA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
*
2448599 GTCCACAACTCTA-TGGCTTCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * * * *
2448626 GCCCACAAGTCAGTGGTACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
** * * * * *
2448654 AACTATAAGTCAATGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* ***
2448681 CTCCACAACTCCTTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2448708 GTCCACAACTCCA-TGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2448735 GTCCACCACTCCA-TGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * *
2448762 GCCCACAAGTTAGTGGCA-CTCTTTCAAA
1 GTCCACAACTTAGTGGCATC-CTTT-TAA
** * * *
2448790 CCCCACAAGTTAGTGGCATCTTTTTAG
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2448817 GTCCACAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * ** *
2448844 GTCTACCACTCCGTGGCATCCATTTAAA
1 GTCCACAACTTAGTGGCATCC-TTTTAA
*
2448872 GTCCACAACTCCA-TGGCATCC--TTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
**
2448897 GTCCACAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *
2448924 G-CCAACAAGTCAGTGGCA-CCTTTTCAAA
1 GTCC-ACAACTTAGTGGCATCCTTTT--AA
* *
2448952 GCCCACAAGTTAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2448979 GTCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2449006 GTCCACAATTTCGTGGCATCAC-TTTAA
1 GTCCACAACTTAGTGGCATC-CTTTTAA
**
2449033 GTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
*
2449061 GTCCACAACTCCA-TGGCATCCTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
2449089 GTCCACAACTTCA-TGGCATCCTTTTAA
1 GTCCACAACTT-AGTGGCATCCTTTTAA
2449116 GT-CACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
*** *
2449142 GTCCACAACTCCTTGGCATCATTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
** *
2449170 GTCCACAACTCCGTGGCATCCTTTTGA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* **
2449197 GTCCATAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * *
2449224 GCCCACAAGTTAGTGGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* * * * *
2449252 GCCCACAAGTTAGTAGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* * * **
2449280 G-CTTACAAGTCAGTGGCATCCTCATAA
1 GTC-CACAACTTAGTGGCATCCTTTTAA
***
2449307 GTCCACAACCCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * *
2449334 GTCCATAGCTTCGTGCCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
** * *
2449362 GTCCACAACTCCGTGGCAACTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *
2449389 GTCCACAACACTA-TGGCAACCTTTTAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAA
* * * *
2449416 GCCCCCAAGTTAGTGGCACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* * *
2449444 GCCCACAAGTCAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
2449471 GTCCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2449498 GTCCACAATTTCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2449525 GTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
** *
2449553 GTCCACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2449580 GTCCACAACTCT-GTGGCATCCTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2449607 GTCCATAACTCT-GTGGCATCCGTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2449634 GTCCACAAGTCCT-GTGGCAACCTTTTAA
1 GTCCACAA--CTTAGTGGCATCCTTTTAA
* * *
2449662 GCCCACAAGTTAGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * * * *
2449689 TGCCCATAAGTCAATGGCATCCCTTTAA
1 -GTCCACAACTTAGTGGCATCCTTTTAA
*** * *
2449717 GTCTTTAACACT-GCGGCATCCTTTTAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAA
*
2449744 GTCCACAACTCT-GTGGCATCTTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
* *
2449772 ATCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* ** *
2449799 GTCTACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2449826 GTCCACAACTCCGT-GCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* *
2449853 GTCCATAACTCT-GTGGCATCCTTTTTA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** *
2449880 GTCTGCAACTCT-GTGGCATCTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * *
2449907 GTCGACAAGTCT-GTGGCACCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * *
2449934 GCCCACAAGTGT-GTGGCACCCTTGTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2449961 GTCCACAACTCCA-TGTCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** *
2449988 GTCCACAACTCCGTGGCATCCATTTAAA
1 GTCCACAACTTAGTGGCATCC-TTTTAA
***
2450016 GTCCACAACTCCTTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2450043 GTCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* ** * *
2450070 GCCCACAGGTTAGTGGCACCCTTTCAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** * * * *
2450097 AACCTACAAGTCAGTGGCACCCTTTCAAA
1 GTCC-ACAACTTAGTGGCATCCTTT-TAA
** * *
2450126 ACCCACAAGTCT-GTGGCATCCTTTGAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
*
2450153 GTCCACAA-TTCTGTGGCATCCTTTTAA
1 GTCCACAACTT-AGTGGCATCCTTTTAA
*
2450180 GTCCACCACTCT-GTGGCAT-CTATTTGAA
1 GTCCACAACT-TAGTGGCATCCT-TTT-AA
* *
2450208 GTCCACAACTCAATGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2450235 AACCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2450262 G-CGCACAA-TTCAGTGGCACCCTTTCCAA
1 GTC-CACAACTT-AGTGGCATCCTTT-TAA
* **
2450290 GCCCACATGTTAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
2450317 GTCCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * *
2450344 GTCCACAATTTCGTGGCGTCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2450371 GTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
** *
2450399 GTCCACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2450426 GTCCACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2450453 GTCCACTAACTCCGTGGCATCCGTTTAA
1 GTCCAC-AACTTAGTGGCATCCTTTTAA
* ** *
2450481 GTCCACAAGTCCGTGGCAACCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2450508 GCCCACAAGTTAGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * * * *
2450535 TGCCCATAAGTCAATGGCATCCCTTTAA
1 -GTCCACAACTTAGTGGCATCCTTTTAA
* * * *
2450563 GTCTATAACACT-GCGGCATCCTTTTAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAA
**
2450590 GTCCACAACTCT-GTGGCATTTTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
* *
2450618 ATCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** *
2450645 GTCTC-CAACTCCGTGGCATCCTTTAAA
1 GTC-CACAACTTAGTGGCATCCTTTTAA
*
2450672 GTCCACAACTCT-GTGGCATCATTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
** *
2450700 GTCCACAACTCCGTGGCATCCTTTTGA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* **
2450727 GTCCACAACTCCA-TGGCAAACTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * *
2450754 GCCCACAAGTTAGTGGCACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* * * * *
2450782 GCCCACAAGTTAGTAGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* *
2450810 G-CCTACAAGTTAGTGGCATCCTCTTAA
1 GTCC-ACAACTTAGTGGCATCCTTTTAA
***
2450837 GTCCACAACCCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * * *
2450864 GTCCATAGCTTCGTGCCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** * * *
2450891 GTCCACAACTCCGTGGTAACTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *
2450918 GTCCACAACACT-GTGGCAACCTTTTAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAA
* * * *
2450945 GCCCCCAAGTTAGTGGCACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* * * *
2450973 GCCCATAAGTCAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2451000 GTCCACAACTCT-GTGGCACCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2451027 -TCCACAACTCCA-TGGCATCTTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
** * *
2451054 GTCCACAACTCCGTGACATCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2451081 GTCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** * ** *
2451108 GTTGATAACTCCGTGGCATCCTCTTAAA
1 GTCCACAACTTAGTGGCATCCT-TTTAA
*
2451136 GTCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * *
2451163 GCCCACAAGTAAGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * * * *
2451190 TGCCCATAAGTCAATGGCATCCCTTTAA
1 -GTCCACAACTTAGTGGCATCCTTTTAA
* * *** *
2451218 GTCTATAACACCGTGGCATCCTTTTTA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2451245 GTCCACAACTCT-GTGGCATCTTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
2451273 GTCCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** *
2451300 GTCCACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* ** *
2451327 GTACACAACCCCA-TGGCATCCTTTTTCA
1 GTCCACAA-CTTAGTGGCATCC-TTTTAA
* *
2451355 GTCTATAACTCT-GTGGCATCCGTTTT-A
1 GTCCACAACT-TAGTGGCATCC-TTTTAA
* *
2451382 GTCCTGCAACTCT-GTGGCATCTTTTTAA
1 GTCC-ACAACT-TAGTGGCATCCTTTTAA
* * *
2451410 GCCCACAAGTCT-GTGGCACCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * *
2451437 GCCCACAAGTCT-GTGGCATCTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* ** *
2451464 GTCCACAGCTCCGTGTCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* ** *
2451491 ATCCACAACTCCGTGGCATCCATTTAAA
1 GTCCACAACTTAGTGGCATCC-TTTTAA
***
2451519 GTCCACAACTCCTTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2451546 GTCCATAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* ** * *
2451573 GCCCACAGGTTAGTGGCACCCTTTCAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** * * * * *
2451600 AACCTACAAGTCAATGGCACCCTTTCAAA
1 GTCC-ACAACTTAGTGGCATCCTTT-TAA
* * * * * *
2451629 ATCCATAAGTCAGGGGCATCCTTTTAG
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2451656 GTCCACCACTTCGTGGCATCCATTTAAA
1 GTCCACAACTTAGTGGCATCC-TTTTAA
* *** *
2451684 GTCCGCAACTCCTTAGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * **
2451711 GTACATAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * *
2451738 GCCCACAAGTCT-GTGGTATCCTTTCAAA
1 GTCCACAACT-TAGTGGCATCCTTT-TAA
** * * *
2451766 ACCCACAAGTCAGTGGCATCCTTTGAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *
2451793 GTCCACAA-TTCTGTGGCATCTTTTTAA
1 GTCCACAACTT-AGTGGCATCCTTTTAA
** * *
2451820 GTCCACCTCTCT-GTGGC-TTCTATTTGAT
1 GTCCACAACT-TAGTGGCATCCT-TTT-AA
* *
2451848 GTCCACAACTCAATGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** * ** *
2451875 AACCATAACTCCGTGGCATCATTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *
2451902 G-CACACAA-TTCAGTGGCACCCTTTCAAA
1 GTC-CACAACTT-AGTGGCATCCTTT-TAA
*
2451930 G-CCACAAGTTAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
2451956 GTCCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * *
2451983 GTCCACAATTTCGTGGCGTCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2452010 GTCCACAACTCCGTGGCATCTTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
** *
2452038 GTCCACAACTCCGTGGCATCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2452065 GTCCACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2452092 GTCCACAACTCCGTGGCATCCGTTTAAA
1 GTCCACAACTTAGTGGCATCC-TTTTAA
** *
2452120 GTCCACAACTCCGTGGCATCCGTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * ** *
2452147 GTCTACAAGTCCGTGGCAACCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2452174 GCCCACAAGTTAGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * * * * *
2452201 TGCCCATAAGTCAATGGCATCCCTTTAA
1 -GTCCACAACTTAGTGGCATCCTTTTAA
* * *** *
2452229 GTCTATAACACCGTGGCATCCTTTTTA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2452256 GTCCACAACTCTA-TGGCATCTTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
*
2452284 GTCCACAACTCT-GTGGCATACTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** **
2452311 GTCCACAACTCCGTGGCATCCTTCAAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2452338 GTCCACAACTCCGTGGCATCCTTTGAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* * *
2452366 GTCCATAAATCT-GTGGCATCCTTTTTA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** * *
2452393 GTCTGCAACCCT-GTGGCATCTTTTTAA
1 GTCCACAA-CTTAGTGGCATCCTTTTAA
* * *
2452420 GCCCACAAGCCT-GTGGCACCCTTTTAA
1 GTCCACAA-CTTAGTGGCATCCTTTTAA
*
2452447 G-CTCACAAGTCT-GTGGCATCCTTTTAA
1 GTC-CACAACT-TAGTGGCATCCTTTTAA
*
2452474 GTCCACAACTCT-GTGGCATCCTTTTAC
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** * * *
2452501 GTCCACAACTCCGCGACATCCATTTAAA
1 GTCCACAACTTAGTGGCATCC-TTTTAA
***
2452529 GTCCACAACTCCTTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *
2452556 GTCCATAACTCT-GTGGCATCTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * *
2452583 GCCCACAAGTTAGTGGCACCCTTTCAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** * * * *
2452610 AACCTACAAGTCAGTGGCACCCTTTCCAA
1 GTCC-ACAACTTAGTGGCATCCTTT-TAA
* * * *
2452639 ATCCACAAGTCAGTGGCATCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2452666 GTCCACCACTTCGTGGCATCCATTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* *** *
2452693 TGTCCGCAACTCCTTAGCATCCTTTTAA
1 -GTCCACAACTTAGTGGCATCCTTTTAA
*
2452721 GTACACAACTTCA-TGGCATCCTTTTAA
1 GTCCACAACTT-AGTGGCATCCTTTTAA
* * * * * *
2452748 GCCCACAAGTCAGTAGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
** * * *
2452776 ACCCACAAGTCAGTGGCATCCTTTTAT
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2452803 GTTCACAA-TTCCGTGGCATCTTTTTAA
1 GTCCACAACTT-AGTGGCATCCTTTTAA
*
2452830 GTCCACCACTCTA-TGGCAT-CTATTTGAA
1 GTCCACAACT-TAGTGGCATCCT-TTT-AA
*
2452858 GTCCACAACTCCA-TGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** ** *
2452885 AACCACAACTCCGTGGCATCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2452912 GTCCACAACTTCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** *
2452939 GTCTGCAACTCT-GTGGCATCATTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
** *
2452966 GTCCACAACTCCGTGGCATCCTTTTTA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* * *
2452993 GCCCACAAGTCT-GTGGCACCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2453020 GCCCACAAGTTAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
**
2453047 GTCCACAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* **
2453074 GTCCATAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* *
2453102 GTCTACAACTTCA-TGGCATCTTTTTAA
1 GTCCACAACTT-AGTGGCATCCTTTTAA
* *
2453129 GTCCACAACTTCGTGGCATCCTTTTTA
1 GTCCACAACTTAGTGGCATCCTTTTAA
* ** * *
2453156 GCCCACATGTCT-GTGGCACCCCTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* *
2453183 GCCCACAAGTTAGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
2453210 GTCCACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
*
2453237 GTCCATAACTCT-GTGGCATCCTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AA
** *
2453265 GTCTGCAACTTCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2453292 GTCTACAACTCT-GTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAA
* * * * * *
2453319 GCCCACAAGTTAATTGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* * * *
2453347 GCCCAC-ACGTCAGTGGCATCTTTTTAT
1 GTCCACAAC-TTAGTGGCATCCTTTTAA
* ** * *
2453374 GTCCATAACTCCGAGGCATCGTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
*
2453401 GTCCACAACTTCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA
** * * * **
2453428 ACCCACAAGTCAGTGGCAACCTTCCAAA
1 GTCCACAACTTAGTGGCATCCTT-TTAA
* * * * * *
2453456 GCCCATAAGTTTGTGGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* * *
2453484 GCCCACAACTTAGTGTCATCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAA
* *
2453512 GTCCACAAATAAGTGGCA-CCTTTTCGAAA
1 GTCCACAACTTAGTGGCATCCTTTT---AA
* ** * *
2453541 GCCCACAA-GAAGTGACACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AA
* *
2453568 GCCCACAAGTTAGTGGCATCCTTT
1 GTCCACAACTTAGTGGCATCCTTT
2453592 CAAAGTTCAC
Statistics
Matches: 4413, Mismatches: 798, Indels: 438
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.00
25 23 0.01
26 144 0.03
27 2744 0.62
28 1423 0.32
29 62 0.01
30 14 0.00
31 1 0.00
32 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (27 bp):
GTCCACAACTTAGTGGCATCCTTTTAA
Found at i:2448224 original size:55 final size:54
Alignment explanation
Indices: 2448133--2453519 Score: 3724
Period size: 55 Copynumber: 98.6 Consensus size: 54
2448123 CCCCTTCAAC
*
2448133 GTCCACAA-TTCAGTGGCATTTCTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTAA
1 GTCCACAACTT-AGTGGCA-TCCTTTT--AAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * * *
2448190 GCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT-TAGTAGCACCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAAGTCCACAACTCT-GTGGCATCCTTTT-AA
* *
2448246 G-CCTACAAGC-CAGTGGCATCCTTTTAAGTCCACAAC-CTCATGGCATCCTTTTAA
1 GTCC-ACAA-CTTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
* * * * * * * *
2448300 GTCCATAGCTCCA-TGCCATCCTTTTAAAGTCCATAACTCCGTGGCAACTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * *
2448355 GTCCACAACACT-GTGGCAACGTTTTAAGCCCCCAAGT-TAGTGGCACCCTTTTAAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTT-AA
* * * * *
2448410 GCCCACAAGTCAGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * *
2448464 -TCCACAACTCCA-AGGCATCTTTTTAAAGTCCAAAACTCCGTGACATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
*
2448518 GTCCACAACTTA-TGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
* * * *
2448572 GTCCATAACTCT-GTGGCATCCTTTTCAGTCCACAACTCTATGGCTTCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * ** * * * **
2448626 GCCCACAAGTCAGTGGTACCCTTTCAAAAACTATAAGTCAATGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCATCCTTTTAA
* *** **
2448681 CTCCACAACTCCTTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * *
2448735 GTCCACCACTCCA-TGGCATCCTTTTAAGCCCACAAGT-TAGTGGCA-CTCTTTCAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATC-CTTT-TAA
** * * * *
2448790 CCCCACAAGTTAGTGGCATCTTTTTAGGTCCACAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * ** * **
2448844 GTCTACCACTCCGTGGCATCCATTTAAAGTCCACAACTCCATGGCATCC--TTAA
1 GTCCACAACTTAGTGGCATCC-TTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
** * *
2448897 GTCCACAACTCCGTGGCATCCTTTTAAG-CCAACAAGTCAGTGGCA-CCTTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCC-ACAACTCTGTGGCATCCTTTT--AA
* * *
2448952 GCCCACAAGTTAGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * *
2449006 GTCCACAATTTCGTGGCATCAC-TTTAAGTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATC-CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
* *
2449061 GTCCACAACTCCA-TGGCATCCTTTTAAAGTCCACAACT-TCATGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AAGTCCACAACTCT-GTGGCATCCTTTTAA
*
2449116 GT-CACAACTCT-GTGGCATCCTTTTAAGTCCACAACTCCT-TGGCATCATTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACT-CTGTGGCATCCTTTT-AA
** * * *
2449170 GTCCACAACTCCGTGGCATCCTTTTGAGTCCATAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * * * *
2449224 GCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT-TAGTAGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTT-TAAGTCCACAACTCT-GTGGCATCCTTT-TAA
* * * ** * *
2449280 G-CTTACAAGTCAGTGGCATCCTCATAAGTCCACAACCCCGTGGCATCCTTTTAA
1 GTC-CACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * *
2449334 GTCCATAGCTTCGTGCCATCCTTTTAAAGTCCACAACTCCGTGGCAACTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * *
2449389 GTCCACAACACTA-TGGCAACCTTTTAAGCCCCCAAGT-TAGTGGCACCCTTTTAAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTT-AA
* * *
2449444 GCCCACAAGTCAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * *
2449498 GTCCACAATTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
** * *
2449553 GTCCACAACTCCGTGGCATCCTTTAAAGTCCACAACTCTGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * *
2449607 GTCCATAACTCT-GTGGCATCCGTTTAAGTCCACAAGTCCTGTGGCAACCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACT-CTGTGGCATCCTTTTAA
* * * * * * ** *
2449662 GCCCACAAGTTAGTGGCACCCTTTTAATGCCCATAAGTCAATGGCATCCCTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA-GTCCACAACTCTGTGGCATCCTTTTAA
*** * * *
2449717 GTCTTTAACACT-GCGGCATCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTAAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
* * * * *
2449772 ATCCATAACTCT-GTGGCATCCTTTTAAGTCTACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
** * *
2449826 GTCCACAACTCCGT-GCATCCTTTTAAAGTCCATAACTCTGTGGCATCCTTTTTA
1 GTCCACAACTTAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
** * * * *
2449880 GTCTGCAACTCT-GTGGCATCTTTTTAAGTCGACAAGTCTGTGGCACCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * ** *
2449934 GCCCACAAGTGT-GTGGCACCCTTGTAAGTCCACAACTCCATGTCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
** *
2449988 GTCCACAACTCCGTGGCATCCATTTAAAGTCCACAACTCCT-TGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCC-TTTTAAGTCCACAACT-CTGTGGCATCCTTTTAA
* * ** * *
2450043 GTCCATAACTCT-GTGGCATCCTTTTAAGCCCACAGGT-TAGTGGCACCCTTTCAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * * * * ** * *
2450097 AACCTACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCTGTGGCATCCTTTGAA
1 GTCC-ACAACTTAGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCATCCTTTTAA
* *
2450153 GTCCACAA-TTCTGTGGCATCCTTTTAAGTCCACCACTCTGTGGCAT-CTATTTGAA
1 GTCCACAACTT-AGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCT-TTT-AA
* * **
2450208 GTCCACAACTCAATGGCATCCTTTTAAAACCACAACTCTGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * **
2450262 G-CGCACAA-TTCAGTGGCACCCTTTCCAAGCCCACATGT-TAGTGGCATCCTTTTAA
1 GTC-CACAACTT-AGTGGCATCCTTT-TAAGTCCACAACTCT-GTGGCATCCTTTTAA
* *
2450317 GTCCACAACTCT-GTGGCATCCTTTTAAGTCCACAA-TTTCGTGGCGTCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * *
2450371 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
** * * *
2450426 GTCCACAACTCCGTGGCATCCTTTAAAGTCCACTAACTCCGTGGCATCCGTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCAC-AACTCTGTGGCATCCTTTTAA
* ** * * * *
2450481 GTCCACAAGTCCGTGGCAACCTTTTAAGCCCACAAGT-TAGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
* * * * * * * * * *
2450535 TGCCCATAAGTCAATGGCATCCCTTTAAGTCTATAACACTGCGGCATCCTTTTAA
1 -GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
** * *
2450590 GTCCACAACTCT-GTGGCATTTTTTTAAAATCCATAACTCTGTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
** * *
2450645 GTCTC-CAACTCCGTGGCATCCTTTAAAGTCCACAACTCTGTGGCATCATTTTAAA
1 GTC-CACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
** * ** **
2450700 GTCCACAACTCCGTGGCATCCTTTTGAGTCCACAACTCCATGGCAAACTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * * *
2450754 GCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGT-TAGTAGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTTT-AAGTCCACAACTCT-GTGGCATCCTTT-TAA
* * * *
2450810 G-CCTACAAGTTAGTGGCATCCTCTTAAGTCCACAACCCCGTGGCATCCTTTTAA
1 GTCC-ACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * * * *
2450864 GTCCATAGCTTCGTGCCATCCTTTAAAGTCCACAACTCCGTGGTAACTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * *
2450918 GTCCACAACACT-GTGGCAACCTTTTAAGCCCCCAAGT-TAGTGGCACCCTTTTAAA
1 GTCCACAAC-TTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTT-AA
* * * * *
2450973 GCCCATAAGTCAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * *
2451027 -TCCACAACTCCA-TGGCATCTTTTTAAAGTCCACAACTCCGTGACATCTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
* ** * * *
2451081 GTCCATAACTCT-GTGGCATCCTTTTAAGTTGATAACTCCGTGGCATCCTCTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCT-TTTAA
* * * ** *
2451136 GTCCATAACTCT-GTGGCATCCTTTTAAGCCCACAAGTAAGTGGCACCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * * * * * *
2451190 TGCCCATAAGTCAATGGCATCCCTTTAAGTCTATAACACCGTGGCATCCTTTTTA
1 -GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
*
2451245 GTCCACAACTCT-GTGGCATCTTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
** * * * ** *
2451300 GTCCACAACTCCGTGGCATCCTTTAAAGTACACAACCCCATGGCATCCTTTTTCA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCC-TTTTAA
* * * *
2451355 GTCTATAACTCT-GTGGCATCCGTTTT-AGTCCTGCAACTCTGTGGCATCTTTTTAA
1 GTCCACAACT-TAGTGGCATCC-TTTTAAGTCC-ACAACTCTGTGGCATCCTTTTAA
* * * * * *
2451410 GCCCACAAGTCT-GTGGCACCCTTTTAAGCCCACAAGTCTGTGGCATCTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* ** * * * *
2451464 GTCCACAGCTCCGTGTCATCCTTTTAAATCCACAACTCCGTGGCATCCATTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCC-TTTTAA
*** *
2451519 GTCCACAACTCCTTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* ** * * ** * ** * *
2451573 GCCCACAGGTTAGTGGCACCCTTTCAAAACCTACAAGTCAATGGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCC-ACAACTCTGTGGCATCCTTT-TAA
* * * * * * * *
2451629 ATCCATAAGTCAGGGGCATCCTTTTAGGTCCACCACT-TCGTGGCATCCATTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCC-TTTTAA
* *** * * * *
2451684 GTCCGCAACTCCTTAGCATCCTTTTAAGTACATAACTCCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * ** * * *
2451738 GCCCACAAGTCT-GTGGTATCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTGAA
1 GTCCACAACT-TAGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCATCCTTTTAA
* * ** * *
2451793 GTCCACAA-TTCTGTGGCATCTTTTTAAGTCCACCTCTCTGTGGC-TTCTATTTGAT
1 GTCCACAACTT-AGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCT-TTT-AA
* * ** * * *
2451848 GTCCACAACTCAATGGCATCCTTTTAAAACCATAACTCCGTGGCATCATTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * *
2451902 G-CACACAA-TTCAGTGGCACCCTTTCAAAG-CCACAAGT-TAGTGGCATCCTTTTAA
1 GTC-CACAACTT-AGTGGCATCCTTT-TAAGTCCACAACTCT-GTGGCATCCTTTTAA
* * *
2451956 GTCCACAACTCT-GTGGCATCCTTTTAAGTCCACAA-TTTCGTGGCGTCTTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * * *
2452010 GTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACTCCGTGGCATCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
** * * *
2452065 GTCCACAACTCCGTGGCATCCTTTAAAGTCCACAACTCCGTGGCATCCGTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCC-TTTTAA
** * * * * *
2452120 GTCCACAACTCCGTGGCATCCGTTTAAGTCTACAAGTCCGTGGCAACCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * ** *
2452174 GCCCACAAGTTAGTGGCACCCTTTTAATGCCCATAAGTCAATGGCATCCCTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA-GTCCACAACTCTGTGGCATCCTTTTAA
* * *** * * *
2452229 GTCTATAACACCGTGGCATCCTTTTTAGTCCACAACTCTATGGCATCTTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
* * **
2452284 GTCCACAACTCT-GTGGCATACTTTTAAGTCCACAACTCCGTGGCATCCTTCAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
** * * * *
2452338 GTCCACAACTCCGTGGCATCCTTTGAAAGTCCATAAATCTGTGGCATCCTTTTTA
1 GTCCACAACTTAGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCATCCTTTTAA
** * * * *
2452393 GTCTGCAACCCT-GTGGCATCTTTTTAAGCCCACAAGC-CTGTGGCACCCTTTTAA
1 GTCCACAA-CTTAGTGGCATCCTTTTAAGTCCACAA-CTCTGTGGCATCCTTTTAA
* *
2452447 G-CTCACAAGTCT-GTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAC
1 GTC-CACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
** * * *
2452501 GTCCACAACTCCGCGACATCCATTTAAAGTCCACAACTCCT-TGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCC-TTTTAAGTCCACAACT-CTGTGGCATCCTTTTAA
* * * * * *
2452556 GTCCATAACTCT-GTGGCATCTTTTTAAGCCCACAAGT-TAGTGGCACCCTTTCAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * * * * * * * *
2452610 AACCTACAAGTCAGTGGCACCCTTTCCAAATCCACAAGTCAGTGGCATCTTTTTAA
1 GTCC-ACAACTTAGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * *
2452666 GTCCACCACTTCGTGGCATCCATTTAATGTCCGCAACTCCT-TAGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAA-GTCCACAACT-CTGTGGCATCCTTTTAA
* * * * * * *
2452721 GTACACAACTTCA-TGGCATCCTTTTAAGCCCACAAGTCAGTAGCACCCTTTCAAA
1 GTCCACAACTT-AGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTT-TAA
** * * * * * * *
2452776 ACCCACAAGTCAGTGGCATCCTTTTATGTTCACAATTCCGTGGCATCTTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* **
2452830 GTCCACCACTCTA-TGGCAT-CTATTTGAAGTCCACAACTCCATGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCT-TTT-AAGTCCACAACTCTGTGGCATCCTTTTAA
** ** *
2452885 AACCACAACTCCGTGGCATCTTTTTAAGTCCACAACT-TCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * * *
2452939 GTCTGCAACTCT-GTGGCATCATTTTAAGTCCACAACTCCGTGGCATCCTTTTTA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * *
2452993 GCCCACAAGTCT-GTGGCACCCTTTTAAGCCCACAAGT-TAGTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * *
2453047 GTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
* * *
2453102 GTCTACAACTTCA-TGGCATCTTTTTAAGTCCACAACT-TCGTGGCATCCTTTTTA
1 GTCCACAACTT-AGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
* ** * * * *
2453156 GCCCACATGTCT-GTGGCACCCCTTTAAGCCCACAAGT-TAGTGGCATCCTTTTAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
*
2453210 GTCCACAACTCT-GTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAA
1 GTCCACAACT-TAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AA
** * *
2453265 GTCTGCAACTTCGTGGCATCCTTTTAAGTCTACAACTCTGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
* * * * * * * * * *
2453319 GCCCACAAGTTAATTGCACCCTTTCAAAGCCCAC-ACGTCAGTGGCATCTTTTTAT
1 GTCCACAACTTAGTGGCATCCTTT-TAAGTCCACAAC-TCTGTGGCATCCTTTTAA
* ** * *
2453374 GTCCATAACTCCGAGGCATCGTTTTAAGTCCACAACT-TCGTGGCATCCTTTTAA
1 GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAA
** * * * ** * * * * * *
2453428 ACCCACAAGTCAGTGGCAACCTTCCAAAGCCCATAAGTTTGTGGCACCCTTTCAAA
1 GTCCACAACTTAGTGGCATCCTT-TTAAGTCCACAACTCTGTGGCATCCTTT-TAA
* * *
2453484 GCCCACAACTTAGTGTCATCCTTTCAAAGTCCACAA
1 GTCCACAACTTAGTGGCATCCTTT-TAAGTCCACAA
2453520 ATAAGTGGCA
Statistics
Matches: 4164, Mismatches: 944, Indels: 445
0.75 0.17 0.08
Matches are distributed among these distances:
51 4 0.00
52 19 0.00
53 139 0.03
54 1656 0.40
55 2080 0.50
56 248 0.06
57 16 0.00
58 2 0.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (54 bp):
GTCCACAACTTAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA
Found at i:2448226 original size:28 final size:28
Alignment explanation
Indices: 2448156--2448269 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 28
2448146 TGGCATTTCT
* * *
2448156 TTTCAAAGTCCACAACTCT-GTGGCATCC
1 TTTCAAAGCCCACAAGT-TAGTGGCACCC
*
2448184 TTT-TAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
*
2448211 TTTCAAAGCCCACAAGTTAGTAGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * ** *
2448239 TTTTAAAGCCTACAAGCCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
2448267 TTT
1 TTT
2448270 TAAGTCCACA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 21 0.29
28 50 0.69
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:2448356 original size:82 final size:80
Alignment explanation
Indices: 2448133--2453450 Score: 4163
Period size: 82 Copynumber: 65.0 Consensus size: 80
2448123 CCCCTTCAAC
* * * * *
2448133 GTCCACAATTCAGTGGCATTTCTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTAAGCCCACAA
1 GTCCACAACTCCGTGGCA-TCCTTTT--AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
* * * *
2448198 GTTAGTGGCACCCTTTCAAA
63 -CTCGTGGCATCCTTT-TAA
* * ** * * *
2448218 GCCCACAAGTTAGTAGCACCCTTTTAAAG-CCTACAAGC-CAGTGGCATCCTTTTAAGTCCACAA
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCC-ACAA-CTCCGTGGCATCCTTTTAAGTCCACAA
*
2448281 CCTCATGGCATCCTTTTAA
63 -CTCGTGGCATCCTTTTAA
* * * * * * * *
2448300 GTCCATAGCTCCATGCCATCCTTTTAAAGTCCATAACTCCGTGGCAACTTTTTAAGTCCACAACA
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
* *
2448365 CTGTGGCAACGTTTTAA
65 C-GTGGCATCCTTTTAA
* * * ** * * * *
2448382 GCCCCCAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2448447 CCGTGGCACCCTTTTAA
65 -CGTGGCATCCTTTTAA
** * * *
2448464 -TCCACAACTCCAAGGCATCTTTTTAAAGTCCAAAACTCCGTGACATCCTTTTAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
**
2448528 TATGGCATCCTTTTAA
65 CGTGGCATCCTTTTAA
* * *
2448544 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCATAACTCTGTGGCATCCTTTTCAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
* *
2448609 CTATGGCTTCCTTTTAA
65 C-GTGGCATCCTTTTAA
* * * * * * ** * * * ** *
2448626 GCCCACAAGTCAGTGGTACCCTTTCAAAAACTATAAGTCAATGGCATCCTTTTAACTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2448691 CCTTGGCATCCTTTTAA
65 -CGTGGCATCCTTTTAA
* * * * *
2448708 GTCCACAACTCCATGGCATCCTTTTAAGTCCACCACTCCATGGCATCCTTTTAAGCCCACAAGTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA-CT
* *
2448773 AGTGGCA-CTCTTTCAAA
65 CGTGGCATC-CTTT-TAA
** * ** * * * *
2448790 CCCCACAAGTTAGTGGCATCTTTTTAGGTCCACAACTCCGTGGCATCCTTTTAAGTCTACCACTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-
*
2448855 CGTGGCATCCATTTAAA
65 CGTGGCATCC-TTTTAA
* *
2448872 GTCCACAACTCCATGGCATCC--TTAAGTCCACAACTCCGTGGCATCCTTTTAAG-CCAACAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC-ACAACT
2448934 CAGTGGCA-CCTTTTCAAA
65 C-GTGGCATCCTTTT--AA
* * ** * * *
2448952 GCCCACAAGTTAGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCACAATTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA-CT
2449017 CGTGGCATCAC-TTTAA
65 CGTGGCATC-CTTTTAA
*
2449033 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAAC
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAAC
*
2449098 TTCATGGCATCCTTTTAA
64 -TCGTGGCATCCTTTTAA
* * *
2449116 GT-CACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCTTGGCATCATTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACT
*
2449180 CCGTGGCATCCTTTTGA
65 -CGTGGCATCCTTTTAA
* * * ** * * * *
2449197 GTCCATAACTCCGTGGCATCCTTTTAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAA-C
* * * *
2449262 TAGTAGCACCCTTTCAAA
64 TCGTGGCATCCTTT-TAA
* * * ** * * *
2449280 G-CTTACAAGTCAGTGGCATCCTCATAAGTCCACAACCCCGTGGCATCCTTTTAAGTCCATAGCT
1 GTC-CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC-
*
2449344 TCGTGCCATCCTTTTAAA
64 TCGTGGCATCCTTTT-AA
* * * ** * * * *
2449362 GTCCACAACTCCGTGGCAACTTTTTAAGTCCACAACACTATGGCAACCTTTTAAGCCCCCAAGTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA-CT
* *
2449427 AGTGGCACCCTTTTAAA
65 CGTGGCATCCTTTT-AA
* * * * *
2449444 GCCCACAAGTCAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAATTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA-CT
2449509 CGTGGCATCCTTTTAA
65 CGTGGCATCCTTTTAA
*
2449525 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2449590 CTGTGGCATCCTTTAAA
65 C-GTGGCATCCTTTTAA
* * * * * * *
2449607 GTCCATAACTCTGTGGCATCCGTTTAAGTCCACAAGTCCTGTGGCAACCTTTTAAGCCCACAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCC-GTGGCATCCTTTTAAGTCCACAA-C
* *
2449672 TAGTGGCACCCTTTTAA
64 TCGTGGCATCCTTTTAA
* * * ** * *** * * *
2449689 TGCCCATAAGTCAATGGCATCCCTTTAAGTCTTTAACACTGCGGCATCCTTTTAAGTCCACAACT
1 -GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2449754 CTGTGGCATCTTTTTAAA
65 C-GTGGCATCCTTTT-AA
* * * * *
2449772 ATCCATAACTCTGTGGCATCCTTTTAAGTCTACAACTCCGTGGCATCCTTTAAAGTCCACAACTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-
2449837 CGT-GCATCCTTTTAAA
65 CGTGGCATCCTTTT-AA
* * * ** * * * *
2449853 GTCCATAACTCTGTGGCATCCTTTTTAGTCTGCAACTCTGTGGCATCTTTTTAAGTCGACAAGTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTC
*
2449918 TGTGGCACCCTTTTAA
66 -GTGGCATCCTTTTAA
* * ** * * * *
2449934 GCCCACAAGTGTGTGGCACCCTTGTAAGTCCACAACTCCATGTCATCCTTTTAAGTCCACAACTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-
*
2449999 CGTGGCATCCATTTAAA
65 CGTGGCATCC-TTTTAA
* * * * **
2450016 GTCCACAACTCCTTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGCCCACAGGTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACA-ACT
* * *
2450081 AGTGGCACCCTTTCAA
65 CGTGGCATCCTTTTAA
** * * * * ** * * * *
2450097 AACCTACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCTGTGGCATCCTTTGAAGTCCACAAT
1 GTCC-ACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC
2450162 TCTGTGGCATCCTTTTAA
64 TC-GTGGCATCCTTTTAA
* * ** **
2450180 GTCCACCACTCTGTGGCAT-CTATTTGAAGTCCACAACTCAATGGCATCCTTTTAAAACCACAAC
1 GTCCACAACTCCGTGGCATCCT-TTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC
2450244 TCTGTGGCATCCTTTTAA
64 TC-GTGGCATCCTTTTAA
* * * * * ** **
2450262 G-CGCACAATTCAGTGGCACCCTTTCCAAGCCCACATGTTAGTGGCATCCTTTTAAGTCCACAAC
1 GTC-CACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC
2450326 TCTGTGGCATCCTTTTAA
64 TC-GTGGCATCCTTTTAA
* * *
2450344 GTCCACAATTTCGTGGCGTCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACT
*
2450409 CCGTGGCATCCTTTAAA
65 -CGTGGCATCCTTTTAA
* * *
2450426 GTCCACAACTCCGTGGCATCCTTTAAAGTCCACTAACTCCGTGGCATCCGTTTAAGTCCACAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCAC-AACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2450491 CCGTGGCAACCTTTTAA
65 -CGTGGCATCCTTTTAA
* * ** * * * * ** * * * *
2450508 GCCCACAAGTTAGTGGCACCCTTTTAATGCCCATAAGTCAATGGCATCCCTTTAAGTCTATAACA
1 GTCCACAACTCCGTGGCATCCTTTTAA-GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2450573 CTGCGGCATCCTTTTAA
65 C-GTGGCATCCTTTTAA
* ** * * *
2450590 GTCCACAACTCTGTGGCATTTTTTTAAAATCCATAACTCTGTGGCATCCTTTTAAGTCTC-CAAC
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTC-CACAAC
*
2450654 TCCGTGGCATCCTTTAAA
64 T-CGTGGCATCCTTTTAA
* * *
2450672 GTCCACAACTCTGTGGCATCATTTTAAAGTCCACAACTCCGTGGCATCCTTTTGAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
* **
2450737 CCATGGCAAACTTTTAA
65 -CGTGGCATCCTTTTAA
* * ** * * * ** * * *
2450754 GCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTTAGTAGCACCCTTTCAAAG-CCTACAA
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTT-TAAGTCC-ACAA
* * *
2450818 GTTAGTGGCATCCTCTTAA
63 -CTCGTGGCATCCTTTTAA
* * * * * *
2450837 GTCCACAACCCCGTGGCATCCTTTTAAGTCCATAGCTTCGTGCCATCCTTTAAAGTCCACAACTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-
* * *
2450902 CGTGGTAACTTTTTAA
65 CGTGGCATCCTTTTAA
* * * * * * ** * * * *
2450918 GTCCACAACACTGTGGCAACCTTTTAAGCCCCCAAGTTAGTGGCACCCTTTTAAAGCCCATAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACT
2450983 CAGTGGCATCCTTTTAA
65 C-GTGGCATCCTTTTAA
* * * *
2451000 GTCCACAACTCTGTGGCACCCTTTTAA-TCCACAACTCCATGGCATCTTTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACT
* *
2451064 CCGTGACATCTTTTTAA
65 -CGTGGCATCCTTTTAA
* * ** * * *
2451081 GTCCATAACTCTGTGGCATCCTTTTAAGTTGATAACTCCGTGGCATCCTCTTAAAGTCCATAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT-TTTAAGTCCACAACT
2451146 CTGTGGCATCCTTTTAA
65 C-GTGGCATCCTTTTAA
* * ** * * * * ** * * *
2451163 GCCCACAAGTAAGTGGCACCCTTTTAATGCCCATAAGTCAATGGCATCCCTTTAAGTCTATAACA
1 GTCCACAACTCCGTGGCATCCTTTTAA-GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC-
* *
2451228 CCGTGGCATCCTTTTTA
64 TCGTGGCATCCTTTTAA
* * *
2451245 GTCCACAACTCTGTGGCATCTTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2451310 CCGTGGCATCCTTTAAA
65 -CGTGGCATCCTTTTAA
* * * * * * * *
2451327 GTACACAACCCCATGGCATCCTTTTTCAGTCTATAACTCTGTGGCATCCGTTTT-AGTCCTGCAA
1 GTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCC-ACAA
*
2451391 CTCTGTGGCATCTTTTTAA
63 CTC-GTGGCATCCTTTTAA
* * * * * * * * *
2451410 GCCCACAAGTCTGTGGCACCCTTTTAAGCCCACAAGTCTGTGGCATCTTTTTAAGTCCACAGCTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-
*
2451475 CGTGTCATCCTTTTAA
65 CGTGGCATCCTTTTAA
* * * *
2451491 ATCCACAACTCCGTGGCATCCATTTAAAGTCCACAACTCCTTGGCATCCTTTTAAGTCCATAACT
1 GTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
2451556 CTGTGGCATCCTTTTAA
65 C-GTGGCATCCTTTTAA
* ** ** * * ** * ** * * * * *
2451573 GCCCACAGGTTAGTGGCACCCTTTCAAAACCTACAAGTCAATGGCACCCTTTCAAAATCCATAAG
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCC-ACAACTCCGTGGCATCCTTT-TAAGTCCACAAC
* *
2451638 TCAGGGGCATCCTTTTAG
64 TC-GTGGCATCCTTTTAA
* * * * * * * *
2451656 GTCCACCACTTCGTGGCATCCATTTAAAGTCCGCAACTCCTTAGCATCCTTTTAAGTACATAACT
1 GTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
2451721 CCGTGGCATCCTTTTAA
65 -CGTGGCATCCTTTTAA
* * * * * ** * * * *
2451738 GCCCACAAGTCTGTGGTATCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTGAAGTCCACAATT
1 GTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT
*
2451803 CTGTGGCATCTTTTTAA
65 C-GTGGCATCCTTTTAA
** * * * ** ** *
2451820 GTCCACCTCTCTGTGGC-TTCTATTTGATGTCCACAACTCAATGGCATCCTTTTAAAACCATAAC
1 GTCCACAACTCCGTGGCATCCT-TTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC
*
2451884 TCCGTGGCATCATTTTAA
64 T-CGTGGCATCCTTTTAA
* * * * * **
2451902 G-CACACAATTCAGTGGCACCCTTTCAAAG-CCACAAGTTAGTGGCATCCTTTTAAGTCCACAAC
1 GTC-CACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAAC
2451965 TCTGTGGCATCCTTTTAA
64 TC-GTGGCATCCTTTTAA
* * * * *
2451983 GTCCACAATTTCGTGGCGTCTTTTTAAGTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACT
*
2452048 CCGTGGCATCTTTTTAA
65 -CGTGGCATCCTTTTAA
* *
2452065 GTCCACAACTCCGTGGCATCCTTTAAAGTCCACAACTCCGTGGCATCCGTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACT
*
2452130 CCGTGGCATCCGTTTAA
65 -CGTGGCATCCTTTTAA
* * * * * ** * * * *
2452147 GTCTACAAGTCCGTGGCAACCTTTTAAGCCCACAAGTTAGTGGCACCCTTTTAATGCCCATAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAA-GTCCACAACT
* *
2452212 CAATGGCATCCCTTTAA
65 C-GTGGCATCCTTTTAA
* * * * ** *
2452229 GTCTATAACACCGTGGCATCCTTTTTAGTCCACAACTCTATGGCATCTTTTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACT
*
2452294 CTGTGGCATACTTTTAA
65 C-GTGGCATCCTTTTAA
** * * *
2452311 GTCCACAACTCCGTGGCATCCTTCAAAGTCCACAACTCCGTGGCATCCTTTGAAAGTCCATAAAT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACT
*
2452376 CTGTGGCATCCTTTTTA
65 C-GTGGCATCCTTTTAA
** * * * *
2452393 GTCTGCAAC-CCTGTGGCATCTTTTTAAGCCCACAAGC-CTGTGGCACCCTTTTAAG-CTCACAA
1 GTCCACAACTCC-GTGGCATCCTTTTAAGTCCACAA-CTCCGTGGCATCCTTTTAAGTC-CACAA
*
2452455 GTCTGTGGCATCCTTTTAA
63 CTC-GTGGCATCCTTTTAA
* * * * *
2452474 GTCCACAACTCTGTGGCATCCTTTTACGTCCACAACTCCGCGACATCCATTTAAAGTCCACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACT
*
2452539 CCTTGGCATCCTTTTAA
65 -CGTGGCATCCTTTTAA
* * * * * ** * * ** *
2452556 GTCCATAACTCTGTGGCATCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTCAAAACCTACAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC-ACAACT
* *
2452621 CAGTGGCACCCTTTCCAA
65 C-GTGGCATCCTTT-TAA
* * * * * * * *
2452639 ATCCACAAGTCAGTGGCATCTTTTTAAGTCCACCACTTCGTGGCATCCATTTAATGTCCGCAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAA-GTCCACAACT
* *
2452704 CCTTAGCATCCTTTTAA
65 -CGTGGCATCCTTTTAA
* * * * * * * * * ** *
2452721 GTACACAACTTCATGGCATCCTTTTAAGCCCACAAGTCAGTAGCACCCTTTCAAAACCCACAAGT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACT
*
2452786 CAGTGGCATCCTTTTAT
65 C-GTGGCATCCTTTTAA
* * * * **
2452803 GTTCACAATTCCGTGGCATCTTTTTAAGTCCACCACTCTATGGCAT-CTATTTGAAGTCCACAAC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT-TTT-AAGTCCACAAC
*
2452867 TCCATGGCATCCTTTTAA
64 T-CGTGGCATCCTTTTAA
** * * **
2452885 AACCACAACTCCGTGGCATCTTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTCTGCAACTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTC
*
2452950 TGTGGCATCATTTTAA
66 -GTGGCATCCTTTTAA
* * * * * * *
2452966 GTCCACAACTCCGTGGCATCCTTTTTAGCCCACAAGTCTGTGGCACCCTTTTAAGCCCACAAGTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA-CT
*
2453031 AGTGGCATCCTTTTAA
65 CGTGGCATCCTTTTAA
* *
2453047 GTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAAGTCTACAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAAC-
* *
2453112 TCATGGCATCTTTTTAA
64 TCGTGGCATCCTTTTAA
* * * ** * * * * *
2453129 GTCCACAACTTCGTGGCATCCTTTTTAGCCCACATGTCTGTGGCACCCCTTTAAGCCCACAAGTT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA-CT
*
2453194 AGTGGCATCCTTTTAA
65 CGTGGCATCCTTTTAA
* * * **
2453210 GTCCACAACTCTGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAAGTCTGCAACT
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAAC-
2453275 TCGTGGCATCCTTTTAA
64 TCGTGGCATCCTTTTAA
* * * * *** * * * *
2453292 GTCTACAACTCTGTGGCATCCTTTTAAGCCCACAAGTTAATTGCACCCTTTCAAAGCCCAC-ACG
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAAC-
* *
2453356 TCAGTGGCATCTTTTTAT
64 TC-GTGGCATCCTTTTAA
* * * * ** *
2453374 GTCCATAACTCCGAGGCATCGTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAACCCACAAGTC
1 GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTC
*
2453439 AGTGGCAACCTT
66 -GTGGCATCCTT
2453451 CCAAAGCCCA
Statistics
Matches: 4131, Mismatches: 957, Indels: 294
0.77 0.18 0.05
Matches are distributed among these distances:
78 3 0.00
79 4 0.00
80 83 0.02
81 982 0.24
82 2571 0.62
83 456 0.11
84 18 0.00
85 14 0.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (80 bp):
GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTC
GTGGCATCCTTTTAA
Found at i:2453512 original size:56 final size:55
Alignment explanation
Indices: 2453403--2453893 Score: 203
Period size: 56 Copynumber: 8.7 Consensus size: 55
2453393 CGTTTTAAGT
* * * * * * *
2453403 CCACAACTTCGTGGCATCCTTTTAAA-CCCACAAGTCAGTGGCAACCTTCCAAAGC
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAA-TAAGTGACAACCTTTCAAAGC
* * * * * *
2453458 CCATAAGTTTGTGGCACCCTTTCAAAGCCCACAACTTAGTGTCATCCTTTCAAAGT
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAA-TAAGTGACAACCTTTCAAAGC
* * * * * *
2453514 CCACAAATAAGTGGCACCTTTTCGAAAGCCCACAAGAAGTGACACCCTTTTAAAGC
1 CCACAAGTTAGTGGCACCCTTTC-AAAGCCCACAATAAGTGACAACCTTTCAAAGC
* ** * * *
2453570 CCACAAGTTAGTGGCATCCTTTCAAAGTTCACAAATCAATGGGAC-CCCTTCCAAAGC
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCAC-AAT-AA-GTGACAACCTTTCAAAGC
* * * * * * ***
2453627 CCATAGGTCAATGGCACCCTTTCAAAGCCCATAAGTGAA-TGGCATTTTTTCAAAAGC
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAA-T-AAGTGACAACCTTTC-AAAGC
* * * * * * * *
2453684 CCACAAGTCAGTAGG-ATCTTTTCAAAGCCCACAAGTCAGTGGC-GCTTTTAGAAAGC
1 CCACAAGTTAGT-GGCACCCTTTCAAAGCCCACAA-TAAGTGACAACCTTT-CAAAGC
* ** * *
2453740 CCACAAGTGAGTGGCATCTTTTTCAAAGCCCATAAGTCAA-TGGCAACCTTTTCAAAGC
1 CCACAAGTTAGTGGCA-CCCTTTCAAAGCCCACAA-T-AAGTGACAACC-TTTCAAAGC
* * **
2453798 CCACAAGTCT-GTAGCA-CCTTTCAAAAGCCCATAAGTCAA-TG-GTACCTTTTCAAAGC
1 CCACAAGT-TAGTGGCACCCTTTC-AAAGCCCACAA-T-AAGTGACAACC-TTTCAAAGC
* * * *
2453854 CCACAAATCAGTGGCAACCATTTTCAAAACCCAC-ATAAGT
1 CCACAAGTTAGTGGC-ACC-CTTTCAAAGCCCACAATAAGT
2453894 TGGTGGCACC
Statistics
Matches: 336, Mismatches: 77, Indels: 45
0.73 0.17 0.10
Matches are distributed among these distances:
55 34 0.10
56 134 0.40
57 127 0.38
58 34 0.10
59 7 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (55 bp):
CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAATAAGTGACAACCTTTCAAAGC
Found at i:2453571 original size:84 final size:84
Alignment explanation
Indices: 2453395--2453805 Score: 257
Period size: 85 Copynumber: 4.9 Consensus size: 84
2453385 CGAGGCATCG
* * * * * *
2453395 TTTT-AAGTCCACAACTTCGTGGCATCCTTTTAAA-CCCACAAGTCAGTGGCAACCTTCCAAAGC
1 TTTTAAAGCCCACAACTTAGTGGCATCCTTTCAAAGTCCACAAATAAGTGGCAACCTTCCAAAGC
* ** *
2453458 CCATAAGTTTGTGGCACCC
66 CCACAAGTAAGTGACACCC
* * *
2453477 TTTCAAAGCCCACAACTTAGTGTCATCCTTTCAAAGTCCACAAATAAGTGGC-ACCTTTTCGAAA
1 TTTTAAAGCCCACAACTTAGTGGCATCCTTTCAAAGTCCACAAATAAGTGGCAACC--TTCCAAA
2453541 GCCCACAAG-AAGTGACACCC
64 GCCCACAAGTAAGTGACACCC
* * * *
2453561 TTTTAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGTTCACAAATCAA-TGGGACCCCTTCCAAA
1 TTTTAAAGCCCACAACTTAGTGGCATCCTTTCAAAGTCCACAAAT-AAGTGGCA-ACCTTCCAAA
* * *
2453625 GCCCATAGGTCAA-TGGCACCC
64 GCCCACAAGT-AAGTGACACCC
* * * * * ** * * * * * *
2453646 TTTCAAAGCCCATAAGTGAATGGCATTTTTTCAAAAGCCCACAAGTCAGTAGG-ATCTTTTCAAA
1 TTTTAAAGCCCACAACTTAGTGGCATCCTTTC-AAAGTCCACAAATAAGT-GGCAACCTTCCAAA
* * *
2453710 GCCCACAAGTCAGTG--GCGC
64 GCCCACAAGTAAGTGACACCC
* * * * * * *
2453729 TTTTAGAAAGCCCACAAGTGAGTGGCATCTTTTTCAAAGCCCATAAGTCAA-TGGCAACCTTTTC
1 TTTT--AAAGCCCACAACTTAGTGGCATC-CTTTCAAAGTCCACAAAT-AAGTGGCAACC-TTCC
2453793 AAAGCCCACAAGT
61 AAAGCCCACAAGT
2453806 CTGTAGCACC
Statistics
Matches: 261, Mismatches: 49, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
82 3 0.01
83 34 0.13
84 81 0.31
85 102 0.39
86 39 0.15
87 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
TTTTAAAGCCCACAACTTAGTGGCATCCTTTCAAAGTCCACAAATAAGTGGCAACCTTCCAAAGC
CCACAAGTAAGTGACACCC
Found at i:2453683 original size:57 final size:56
Alignment explanation
Indices: 2453413--2453869 Score: 320
Period size: 57 Copynumber: 8.1 Consensus size: 56
2453403 CCACAACTTC
* * * * * * **
2453413 GTGGCATCCTTTTAAA-CCCACAAGTCAGTGGCAACC-TTCCAAAGCCCATAAGTTT
1 GTGGCACCCTTTCAAAGCCCATAAGTCAATGGC-ACCTTTTCAAAGCCCACAAGTCA
* * * * * * * *
2453468 GTGGCACCCTTTCAAAGCCCACAACTTAGTGTCATCC-TTTCAAAGTCCACAAATAA
1 GTGGCACCCTTTCAAAGCCCATAAGTCAATGGCA-CCTTTTCAAAGCCCACAAGTCA
* * * *
2453524 GTGGCACCTTTTCGAAAGCCCACAAG--AAGTGACACCCTTTT-AAAGCCCACAAGTTA
1 GTGGCACCCTTTC-AAAGCCCATAAGTCAA-TGGCA-CCTTTTCAAAGCCCACAAGTCA
* ** * * * * * * *
2453580 GTGGCATCCTTTCAAAGTTCACAAATCAATGGGACCCCTTCCAAAGCCCATAGGTCA
1 GTGGCACCCTTTCAAAGCCCATAAGTCAATGGCA-CCTTTTCAAAGCCCACAAGTCA
* * **
2453637 ATGGCACCCTTTCAAAGCCCATAAGTGAATGGCATTTTTTCAAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCATAAGTCAATGGCACCTTTTC-AAAGCCCACAAGTCA
* * * * * * *
2453694 GTAGG-ATCTTTTCAAAGCCCACAAGTCAGTGGC-GCTTTTAGAAAGCCCACAAGTGA
1 GT-GGCACCCTTTCAAAGCCCATAAGTCAATGGCACCTTTT-CAAAGCCCACAAGTCA
** *
2453750 GTGGCATCTTTTTCAAAGCCCATAAGTCAATGGCAACCTTTTCAAAGCCCACAAGTCT
1 GTGGCA-CCCTTTCAAAGCCCATAAGTCAATGGC-ACCTTTTCAAAGCCCACAAGTCA
* * *
2453808 GTAGCA-CCTTTCAAAAGCCCATAAGTCAATGGTACCTTTTCAAAGCCCACAAATCA
1 GTGGCACCCTTTC-AAAGCCCATAAGTCAATGGCACCTTTTCAAAGCCCACAAGTCA
2453864 GTGGCA
1 GTGGCA
2453870 ACCATTTTCA
Statistics
Matches: 316, Mismatches: 70, Indels: 31
0.76 0.17 0.07
Matches are distributed among these distances:
55 27 0.09
56 131 0.41
57 133 0.42
58 20 0.06
59 5 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (56 bp):
GTGGCACCCTTTCAAAGCCCATAAGTCAATGGCACCTTTTCAAAGCCCACAAGTCA
Found at i:2456586 original size:11 final size:11
Alignment explanation
Indices: 2456570--2456596 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2456560 GACTTATTTG
2456570 AAAAAATACAA
1 AAAAAATACAA
2456581 AAAAAATACAA
1 AAAAAATACAA
2456592 AAAAA
1 AAAAA
2456597 GAAGATAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAATACAA
Found at i:2457066 original size:51 final size:51
Alignment explanation
Indices: 2457000--2457114 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
2456990 GAACAGTACA
2457000 TGTATCGATACATTCTATTTTTTTACCTAGATGTATCGATACATTTTCTAT
1 TGTATCGATACATTCTATTTTTTTACCTAGATGTATCGATACATTTTCTAT
* * *
2457051 TGTATTGATATATTCTATTTTTTTACCTAGATGTATCGATACATTTT-TCAA
1 TGTATCGATACATTCTATTTTTTTACCTAGATGTATCGATACATTTTCT-AT
2457102 TGTATCGATACAT
1 TGTATCGATACAT
2457115 CTAGTTAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.02
51 57 0.98
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (51 bp):
TGTATCGATACATTCTATTTTTTTACCTAGATGTATCGATACATTTTCTAT
Found at i:2457096 original size:26 final size:26
Alignment explanation
Indices: 2457016--2457098 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
2457006 GATACATTCT
2457016 ATTTTTTTACCTAGATGTATCGATAC
1 ATTTTTTTACCTAGATGTATCGATAC
* * *
2457042 ATTTTCTATT--GTA-TTGATAT--ATTC
1 ATTTT-T-TTACCTAGATG-TATCGATAC
2457066 TATTTTTTTACCTAGATGTATCGATAC
1 -ATTTTTTTACCTAGATGTATCGATAC
2457093 ATTTTT
1 ATTTTT
2457099 CAATGTATCG
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 12 0.29
26 18 0.43
27 4 0.10
28 2 0.05
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (26 bp):
ATTTTTTTACCTAGATGTATCGATAC
Found at i:2457098 original size:25 final size:25
Alignment explanation
Indices: 2457018--2457098 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
2457008 TACATTCTAT
2457018 TTTTTTACCTAGATGTATCGATACA
1 TTTTTTACCTAGATGTATCGATACA
* * *
2457043 TTTTCTA--TTGTATTGATAT--ATTCTA
1 TTTTTTACCTAG-A-TG-TATCGATAC-A
2457068 TTTTTTTACCTAGATGTATCGATACA
1 -TTTTTTACCTAGATGTATCGATACA
2457094 TTTTT
1 TTTTT
2457099 CAATGTATCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 17 0.41
26 12 0.29
27 4 0.10
28 2 0.05
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (25 bp):
TTTTTTACCTAGATGTATCGATACA
Done.