Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 563 of 770
Found at i:175461108 original size:6 final size:6
Alignment explanation
Indices: 175461064--175461167 Score: 70
Period size: 6 Copynumber: 16.8 Consensus size: 6
175461054 TTGCATTCAC
* * * *
175461064 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
175461113 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
175461163 ATTCT
1 ATTCT
175461168 AGTTCTGGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
5 5 0.07
6 59 0.79
7 8 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:175463511 original size:45 final size:45
Alignment explanation
Indices: 175463447--175463577 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 45
175463437 TATCGTATAG
* *
175463447 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
175463492 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
175463537 TGA-TA-TCGGG-CTTTGAGCCT-GCCAGGCGA-AATGCTGGTGAA
1 T-ACTATTCGGGCCTTTGAGCCTAG-CAGGCTATAATGCCGGTGAA
175463578 TGAATGCGGG
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
42 12 0.15
43 16 0.20
44 5 0.06
45 46 0.57
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:175464553 original size:45 final size:47
Alignment explanation
Indices: 175464436--175464712 Score: 194
Period size: 46 Copynumber: 5.9 Consensus size: 47
175464426 CAAGGGTAAA
*
175464436 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATC
1 GTGCCGATG-CATGTCCCAGACATGGTCTTACACTAG--CACACATAATC
* *
175464486 GTGCCGATGCTATGTCCTAGACATGGTCTTACACT-G-ACACAT-CTC
1 GTGCCGATGC-ATGTCCCAGACATGGTCTTACACTAGCACACATAATC
* * ** * **
175464531 GTAGCCGTTGCATGTCCCAGACAT-GTCTTATACTAGCTTACGT-CCC
1 GT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCACACATAATC
* * * * * * * *
175464577 GAGGCTGATGCATGTCCTAGACAT-GTCCTATACTAGCACTCGT-CTC
1 G-TGCCGATGCATGTCCCAGACATGGTCTTACACTAGCACACATAATC
* * * * *
175464623 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAAT-
1 -GTGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCACACATAATC
*
175464671 GTAGCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCACA
1 GT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCACACA
175464713 CAAATGACCC
Statistics
Matches: 183, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
44 9 0.05
45 17 0.09
46 75 0.41
47 26 0.14
48 21 0.11
49 3 0.02
50 32 0.17
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GTGCCGATGCATGTCCCAGACATGGTCTTACACTAGCACACATAATC
Found at i:175464684 original size:94 final size:94
Alignment explanation
Indices: 175464437--175464712 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 94
175464427 AAGGGTAAAG
175464437 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCGT-GCCGATGCTATGT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATAAT-GTAGCCGATGC-ATGT
*
175464501 CCTAGACATGGTCTTACACT-G-ACACATCTCG
63 CCTAGACAT-GTCTTACACTAGCACACATCTCA
* * * *** *
175464532 TAGCCGTTG-CATGTCCCAGACAT-GTCTTATACTAGCT-TACGTCCCG-AGGCTGATGCATGTC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATAATGTA-GCCGATGCATGTC
* * * *
175464593 CTAGACATGTCCTATACTAGCACTCGTCTCAA
64 CTAGACATGTCTTACACTAGCACACATCTC-A
* * *
175464625 TGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCT-CATAATGTAGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATAATGTAGCCGATGCATGTCCT
*
175464689 AGACATGTCTTACACTAGCTCACA
66 AGACATGTCTTACACTAGCACACA
175464713 CAAATGACCC
Statistics
Matches: 144, Mismatches: 27, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
90 8 0.06
91 15 0.10
92 23 0.16
93 15 0.10
94 60 0.42
95 17 0.12
96 6 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATAATGTAGCCGATGCATGTCCT
AGACATGTCTTACACTAGCACACATCTCA
Found at i:175468896 original size:40 final size:40
Alignment explanation
Indices: 175468692--175468896 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
175468682 CGGAGTTTAA
** *
175468692 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
175468732 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
175468772 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
175468812 CCAGATTTAGTAACTCGCACGAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
175468852 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTGAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
175468892 CCGGA
1 CCGGA
175468897 CATCATTCGA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 129 0.90
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:175476837 original size:40 final size:40
Alignment explanation
Indices: 175476763--175476948 Score: 236
Period size: 40 Copynumber: 4.6 Consensus size: 40
175476753 GCTACTCGTT
*
175476763 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTATAGTAACTCGCA
*
175476802 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTATAGTAACTCGCA
*
175476842 CAAATGCCTTCGGATCTTAGTCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTATAGTAACTCGCA
* * * *
175476882 CGAATGCCTTCGGATCTTAGTCCGGATTATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
175476924 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
175476949 CATCATTCGA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 14 0.11
40 84 0.64
41 24 0.18
42 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:175485392 original size:40 final size:40
Alignment explanation
Indices: 175485337--175485500 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
175485327 TGAATGATAC
* * * *
175485337 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
175485377 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
175485417 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
175485457 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
175485497 CCGG
1 CCGG
175485501 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:175488247 original size:577 final size:576
Alignment explanation
Indices: 175487110--175488252 Score: 1290
Period size: 577 Copynumber: 2.0 Consensus size: 576
175487100 CTAGGGGCTT
* *
175487110 TGTGACAGCCTTAAAACGACCCTAGTCGGAATGTGGTTTTGGGACCACAAAACCGAGGCATAAAA
1 TGTGACAGCCTCAAAACGACCCTAGTCGGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
* * * * *
175487175 ATAATTTAATATTTATTTTATTGCCTATAATATGTGTTAACTCATGTGTGACATTTTTGATGTTT
66 ATAATTAAAAATTTATTTGATTGCCTATAATATGTGTTAAATCATGTATGACATTTTTGATGTTT
** * *
175487240 TGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGAAAACTTTGGAAGTATGAT
131 CAATTTAGAATTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGAAAACTTTGAAAGTATGAT
* * *
175487305 GGGGGAATGTGTAATGACTAATTAAAGCATGCATGCAAAACAATGGCCTTGCATGTCAAATATCC
196 GGGGAAATGTGTAATGACTAATTAAAGCATGCATGCAAAACAAGGGACTTGCATGTCAAATATCC
**** *
175487370 CTCTTTTTATAAGAGGTGGCCGGCCATGACAATGAGGGATGGGCAAAACATGTCATAGACATGTT
261 CTCTAAGGATAAGAAGTGGCCGGCCATGACAATGAGGGATGGGCAAAACATGTCATAGACATGTT
** * * * * *
175487435 TTGTTGGTGCATTAGGGAGAAAAGAAATAAACAAATAAGCATGGGTAATAAAGAATGAAAAAAAA
326 TTGTTAATGCATGAGGGAGAAAAGAAATAAACAAATAAGCATGGGAAAGAAACAATAAAAAAAAA
* * *
175487500 TGTGTGTGAGTGAACCCCCCCTATTGCCGTGTATTGAAGAAAAGAAAAGAAAAAAAAAATTGATC
391 TGTGTGTCAGTCAACCCCCCCTATTGCCGTGTAGTGAAGAAAAGAAAAG-AAAAAAAAATTGATC
* *
175487565 ATCCTTTCATTCTCTCTTGACCGAAAATCCTAAGGAAGAAGAGGGAATTTTTGCTTCATGTTTGG
455 ATCCTTTCATTCTCTCTTGACCGAAAATACTAAGGAAGAAGAAGGAATTTTTGCTTCATGTTTGG
* ** * *
175487630 TTTGGAAGAGGATTAGGAAGGGGTTTGGCTGTACTTGCATCAAGATTAAGCTCAAGG
520 TTTAGAAGAGGATTAGGAAGGAATTTGGCTGAAATTGCATCAAGATTAAGCTCAAGG
*
175487687 TGTGACAGCC-CAAAATTGACCCTAGTCGGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAA
1 TGTGACAGCCTCAAAA-CGACCCTAGTCGGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAA
* **
175487751 AATAATTAAAAATTTAATTTGA-TGCCTATGATATGTGTTAAATTGTGTATGACA-TTTTGATGT
65 AATAATTAAAAATTT-ATTTGATTGCCTATAATATGTGTTAAATCATGTATGACATTTTTGATGT
*
175487814 TTCAATTTAGAATTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGTAAACTTTGAAAGTATG
129 TTCAATTTAGAATTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGAAAACTTTGAAAGTATG
* * * * * *
175487879 ATGGGGAAATGTGTGATGACTAGTT-GAGCATGCATGCAAAAATAAGGGATTTGCATGTCAAATT
194 ATGGGGAAATGTGTAATGACTAATTAAAGCATGCATGC-AAAACAAGGGACTTGCATGTCAAATA
* * *
175487943 TCCC-C-AAGGAT-GGTATAGTGGCCGGCCATGACAA-G-GGAATATGGGCAAGGAAGACATGTT
258 TCCCTCTAAGGATAAG-A-AGTGGCCGGCCATGACAATGAGG--GATGGGC-A--AA-ACATGTC
* * * *
175488003 AT-GACATGTTTTGTTAATGCATGATGTGATAAATGATAA-AAA-AATTAAGCATGTAGGAAGAG
315 ATAGACATGTTTTGTTAATGCATGA-GGGAGAAAAGA-AATAAACAAATAAGCATG--GGAA-AG
** * * *
175488065 AAACAA-AAAAAAAAAT-T-TGCTCA-TCCTTCCCCCCCTTTTGCCGTG-AGTGAAAGAGAAGCA
375 AAACAATAAAAAAAAATGTGTG-TCAGT-CAACCCCCCCTATTGCCGTGTAGTG-AAGAAAAGAA
** * * *
175488125 AAG-AAAAAATTTTGTTCA-CCTTT-TTTCTCTTCTTTGGCCGAAAATACTAAGGAAGAAGGAAG
437 AAGAAAAAAAAATTGATCATCCTTTCATTCTC-TC-TTGACCGAAAATACTAAGGAAGAA-GAAG
* *
175488187 G-ATTTTTGCTTCATTTTCTTTGTTTAGAAGA-GATCTA-GAAGGAATTTGGCT-AAATTGCATC
499 GAATTTTTGCTTCA-TGT-TTGGTTTAGAAGAGGAT-TAGGAAGGAATTTGGCTGAAATTGCATC
175488248 AAGAT
561 AAGAT
175488253 AAGGTATGTA
Statistics
Matches: 475, Mismatches: 66, Indels: 50
0.80 0.11 0.08
Matches are distributed among these distances:
573 3 0.01
574 4 0.01
575 40 0.08
576 128 0.27
577 155 0.33
578 63 0.13
579 62 0.13
580 14 0.03
581 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (576 bp):
TGTGACAGCCTCAAAACGACCCTAGTCGGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
ATAATTAAAAATTTATTTGATTGCCTATAATATGTGTTAAATCATGTATGACATTTTTGATGTTT
CAATTTAGAATTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGAAAACTTTGAAAGTATGAT
GGGGAAATGTGTAATGACTAATTAAAGCATGCATGCAAAACAAGGGACTTGCATGTCAAATATCC
CTCTAAGGATAAGAAGTGGCCGGCCATGACAATGAGGGATGGGCAAAACATGTCATAGACATGTT
TTGTTAATGCATGAGGGAGAAAAGAAATAAACAAATAAGCATGGGAAAGAAACAATAAAAAAAAA
TGTGTGTCAGTCAACCCCCCCTATTGCCGTGTAGTGAAGAAAAGAAAAGAAAAAAAAATTGATCA
TCCTTTCATTCTCTCTTGACCGAAAATACTAAGGAAGAAGAAGGAATTTTTGCTTCATGTTTGGT
TTAGAAGAGGATTAGGAAGGAATTTGGCTGAAATTGCATCAAGATTAAGCTCAAGG
Found at i:175489428 original size:40 final size:40
Alignment explanation
Indices: 175489362--175489512 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
175489352 AAATTGAATG
* * *
175489362 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
175489401 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
175489441 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
175489481 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
175489513 ACGGTTATAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:175497463 original size:40 final size:40
Alignment explanation
Indices: 175497378--175497528 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
175497368 AATTGAATGA
* * *
175497378 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
175497418 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
175497459 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
175497498 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
175497529 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:175497542 original size:40 final size:40
Alignment explanation
Indices: 175497415--175497544 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
175497405 ATGCTGGAAA
* * * *
175497415 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
175497455 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
175497495 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
175497535 TTATATCCGG
1 TTATATCCGG
175497545 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:175499270 original size:27 final size:28
Alignment explanation
Indices: 175499213--175499282 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
175499203 AAACTTGTAC
*
175499213 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
175499241 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
175499268 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
175499283 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:175499293 original size:27 final size:27
Alignment explanation
Indices: 175499213--175499294 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
175499203 AAACTTGTAC
* * *
175499213 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
175499241 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
175499268 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
175499295 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:175507594 original size:43 final size:42
Alignment explanation
Indices: 175507546--175507763 Score: 152
Period size: 45 Copynumber: 5.0 Consensus size: 42
175507536 CCGTAAGATT
*
175507546 TCGATATGTGCTTTCGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTG-TTTCATGTAAGACCACATCTGGGACGTTGGCA
* * *
175507589 TCGATATATGTGTTTTCTTGTAAGACCACGTCTGGGACATTGGCA
1 TCG--ATATGTG-TTTCATGTAAGACCACATCTGGGACGTTGGCA
* * * ** * * *
175507634 TTGATATATGTGGTTACGTGTAAGACCATTTCTGGGACATCGGTA
1 TCG--ATATGT-GTTTCATGTAAGACCACATCTGGGACGTTGGCA
* * **
175507679 TCG-TATTTGATTCATGTAAGACCTTATCTGGGACAG-TGGCA
1 TCGATATGTGTTTCATGTAAGACCACATCTGGGAC-GTTGGCA
* ** * *
175507720 TCGATATGAGATAGCATGTAAGACCACGTCTGAGACGTTGGCA
1 TCGATATGTG-TTTCATGTAAGACCACATCTGGGACGTTGGCA
175507763 T
1 T
175507764 TGTTTGATAT
Statistics
Matches: 138, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
41 27 0.20
42 9 0.07
43 27 0.20
45 74 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TCGATATGTGTTTCATGTAAGACCACATCTGGGACGTTGGCA
Found at i:175507611 original size:45 final size:44
Alignment explanation
Indices: 175507549--175507726 Score: 182
Period size: 45 Copynumber: 4.0 Consensus size: 44
175507539 TAAGATTTCG
*
175507549 ATATGTGCTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGAT
1 ATATGTG-TTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* * *
175507594 ATATGTGTTTTCTTGTAAGACCACGTCTGGGACATTGGCATTGAT
1 ATATGTG-TTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* ** * *
175507639 ATATGTGGTTACGTGTAAGACCATTTCTGGGACATCGGTATCG-T
1 ATATGT-GTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* * ** *
175507683 AT-T-TGATTCATGTAAGACCTTATCTGGGACAGTGGCATCGAT
1 ATATGTGTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
175507725 AT
1 AT
175507727 GAGATAGCAT
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
41 28 0.25
42 4 0.04
43 1 0.01
44 3 0.03
45 74 0.67
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (44 bp):
ATATGTGTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
Found at i:175511169 original size:80 final size:80
Alignment explanation
Indices: 175511085--175511233 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
175511075 TATGGTAACC
* * * *
175511085 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
175511149 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
175511165 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
175511230 CCGG
66 CCGG
175511234 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:175511175 original size:40 final size:38
Alignment explanation
Indices: 175511126--175511233 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
175511116 ATCACGATTT
*
175511126 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
175511166 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
175511206 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
175511234 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:175515815 original size:41 final size:41
Alignment explanation
Indices: 175515770--175515887 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
175515760 TGAAAGATAA
175515770 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
175515811 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
175515841 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
175515882 ATGTAG
1 ATGTAG
175515888 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:175515826 original size:71 final size:71
Alignment explanation
Indices: 175515738--175515901 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
175515728 GAGATGTATC
175515738 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
175515803 AGGACA
66 AGGACA
175515809 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
175515874 AGGACA
66 AGGACA
175515880 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
175515902 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:175520729 original size:24 final size:26
Alignment explanation
Indices: 175520702--175520772 Score: 96
Period size: 24 Copynumber: 2.9 Consensus size: 26
175520692 CTCTTTTAAT
175520702 AACTGGGGC-AAAG-CCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
175520726 AACTGAGGCAAAAGCCCTTTTCG-TA
1 AACTGGGGCAAAAGCCCTTTTTGATA
175520751 AACT-GGGCAAAAGCCCTTTTTG
1 AACTGGGGCAAAAGCCCTTTTTG
175520773 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 24 0.59
25 10 0.24
26 7 0.17
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTTGATA
Found at i:175520746 original size:25 final size:24
Alignment explanation
Indices: 175520689--175520770 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
175520679 CTGGAGGCCT
*
175520689 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACT-GGGCAAA
*
175520713 AGCCTTTTTGATAAACTGAGGCAAA
1 AGCCCTTTTGATAAACTG-GGCAAA
175520738 AGCCCTTTTCG-TAAACTGGGCAAA
1 AGCCCTTTT-GATAAACTGGGCAAA
175520762 AGCCCTTTT
1 AGCCCTTTT
175520771 TGCACTTCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
23 7 0.14
24 26 0.51
25 17 0.33
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGCAAA
Found at i:175520840 original size:9 final size:9
Alignment explanation
Indices: 175520826--175520882 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
175520816 ACATCATGTG
175520826 CATATCATA
1 CATATCATA
*
175520835 CATATCATGTG
1 CATATCA--TA
*
175520846 CATATCACA
1 CATATCATA
*
175520855 CATATCATGTG
1 CATATCA--TA
175520866 CATATCATA
1 CATATCATA
175520875 CATATCAT
1 CATATCAT
175520883 GTATATCAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (9 bp):
CATATCATA
Found at i:175520841 original size:20 final size:20
Alignment explanation
Indices: 175520818--175520884 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
175520808 TTATGAATAC
175520818 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
175520838 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
175520858 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
175520878 ATCATGT
1 ATCATGT
175520885 ATATCAGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:175520849 original size:11 final size:11
Alignment explanation
Indices: 175520818--175520873 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
175520808 TTATGAATAC
175520818 ATCATGTGCAT
1 ATCATGTGCAT
*
175520829 ATCA--TACAT
1 ATCATGTGCAT
175520838 ATCATGTGCAT
1 ATCATGTGCAT
**
175520849 ATCA--CACAT
1 ATCATGTGCAT
175520858 ATCATGTGCAT
1 ATCATGTGCAT
175520869 ATCAT
1 ATCAT
175520874 ACATATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:175527562 original size:40 final size:39
Alignment explanation
Indices: 175527396--175527569 Score: 219
Period size: 39 Copynumber: 4.4 Consensus size: 39
175527386 AAACCAAGTA
* * **
175527396 CCTTCGGGATTTA-ACCGGATATAGCTACTCGTTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* *
175527435 CCTTCGGGACTTAGCCC-GATATAGTAGTTCGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
175527474 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
*
175527513 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
*
175527553 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
175527570 CGTTATCATC
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
38 3 0.03
39 78 0.65
40 39 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:175535453 original size:40 final size:40
Alignment explanation
Indices: 175535391--175535685 Score: 456
Period size: 40 Copynumber: 7.4 Consensus size: 40
175535381 AAACCAAGTA
* * *
175535391 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
** *
175535430 CCTTCGGGACTTAGCCCGGATATAGTAGTTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
175535470 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
175535510 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
175535550 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
175535590 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
175535630 CCTTC-GGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
175535669 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
175535686 CGTTATCATC
Statistics
Matches: 241, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
39 51 0.21
40 190 0.79
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:175539797 original size:31 final size:31
Alignment explanation
Indices: 175539762--175539825 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
175539752 CCTTTTCATA
175539762 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
175539793 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
175539824 TT
1 TT
175539826 ACTATAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:175540073 original size:24 final size:24
Alignment explanation
Indices: 175540033--175540107 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 24
175540023 CTGGAGGCCT
*
175540033 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
175540057 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
*
175540082 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
175540107 A
1 A
175540108 AGTCTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.15
24 13 0.28
25 14 0.30
26 12 0.26
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:175540116 original size:26 final size:25
Alignment explanation
Indices: 175540033--175540109 Score: 104
Period size: 26 Copynumber: 3.1 Consensus size: 25
175540023 CTGGAGGCCT
*
175540033 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
175540057 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
175540082 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
175540108 AG
1 AG
175540110 TCTTTTTTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.15
24 13 0.27
25 11 0.23
26 17 0.35
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:175544939 original size:51 final size:51
Alignment explanation
Indices: 175544884--175544985 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
175544874 GGATACTCAG
* * *
175544884 CAAAGCTACCTTCTT-CACAAAGTGGCCTTCACATAGTACCACACTTGTGAT
1 CAAAGCCACC-TCTTACACAAAGTGGCCTGCACATAGTACCACACATGTGAT
* * *
175544935 CAAAGCCATCTCTTACACATAGTGGCCTGCACTTAGTACCACACATGTGAT
1 CAAAGCCACCTCTTACACAAAGTGGCCTGCACATAGTACCACACATGTGAT
175544986 TGAAGCTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 4 0.09
51 40 0.91
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (51 bp):
CAAAGCCACCTCTTACACAAAGTGGCCTGCACATAGTACCACACATGTGAT
Found at i:175545003 original size:51 final size:51
Alignment explanation
Indices: 175544899--175545032 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
175544889 CTACCTTCTT
* * * * *
175544899 CACAAAGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCCATCTCTTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGATCAAAGCCATCTCGTA
** * *
175544950 CACATAGTGGCCTGCACTTAGTACCACACATGTGATTGAAGCTAT-TGGGTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGATCAAAGCCATCT-CGTA
* *
175545001 CACATAGTAGCCTGCACTTAGTACTACACATG
1 CACATAGTGGCCTGCACTTAGTACCACACATG
175545033 CAACCTAACC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 1 0.01
51 70 0.99
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
CACATAGTGGCCTGCACTTAGTACCACACATGTGATCAAAGCCATCTCGTA
Found at i:175550570 original size:53 final size:54
Alignment explanation
Indices: 175550513--175550717 Score: 243
Period size: 53 Copynumber: 3.8 Consensus size: 54
175550503 TTTCCTTTTT
* * * *
175550513 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** *
175550566 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
175550620 GTAACTCATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
175550675 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATC
175550718 TTTATCTTAG
Statistics
Matches: 129, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 44 0.34
54 38 0.29
55 43 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:175550651 original size:55 final size:53
Alignment explanation
Indices: 175550524--175550712 Score: 236
Period size: 55 Copynumber: 3.5 Consensus size: 53
175550514 AACTTACCAT
* *
175550524 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
175550577 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * *
175550632 TTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
175550686 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
175550713 ATATCTTTAT
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 34 0.29
55 43 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:175550772 original size:46 final size:47
Alignment explanation
Indices: 175550699--175550797 Score: 164
Period size: 46 Copynumber: 2.1 Consensus size: 47
175550689 CATGCCTTGG
* *
175550699 CATGGTCTTACATGATATCTTTATCTTAGCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
*
175550746 CATGGTCTTACATG-TATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
175550792 CATGGT
1 CATGGT
175550798 ATCCTTGTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 35 0.71
47 14 0.29
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:175551717 original size:31 final size:31
Alignment explanation
Indices: 175551676--175551739 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
175551666 CCTTTTCATA
*
175551676 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
175551707 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
175551738 TT
1 TT
175551740 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:175551983 original size:24 final size:24
Alignment explanation
Indices: 175551931--175552096 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
175551921 GCTTTATCAT
*
175551931 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
175551956 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
175551980 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
175552003 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
175552027 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
175552051 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
175552074 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
175552097 TCATTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:175552007 original size:47 final size:48
Alignment explanation
Indices: 175551930--175552096 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
175551920 TGCTTTATCA
* *
175551930 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
175551979 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
175552026 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
175552073 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
175552097 TCATTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 70 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:175552031 original size:71 final size:71
Alignment explanation
Indices: 175551931--175552096 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
175551921 GCTTTATCAT
* *
175551931 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
175551995 GCCCTTTA
64 GCCCTTTA
* * *
175552003 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
175552068 CCTTTA
66 CCTTTA
175552074 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
175552097 TCATTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:175552168 original size:9 final size:9
Alignment explanation
Indices: 175552154--175552230 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
175552144 ATCTCGTGTG
175552154 CATATCATA
1 CATATCATA
*
175552163 CATATCATGTG
1 CATATCA--TA
175552174 CATATCATA
1 CATATCATA
* *
175552183 CATGTCATGTG
1 CATATCA--TA
175552194 CATATCATA
1 CATATCATA
*
175552203 CATATCATGTG
1 CATATCA--TA
175552214 CATATCATA
1 CATATCATA
175552223 CATATCAT
1 CATATCAT
175552231 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:175552173 original size:20 final size:20
Alignment explanation
Indices: 175552150--175552232 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
175552140 GAACATCTCG
175552150 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
175552170 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
175552190 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
175552210 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
175552230 TGT
1 TGT
175552233 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:175552179 original size:11 final size:11
Alignment explanation
Indices: 175552150--175552221 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
175552140 GAACATCTCG
175552150 TGTGCATATCA
1 TGTGCATATCA
*
175552161 --TACATATCA
1 TGTGCATATCA
175552170 TGTGCATATCA
1 TGTGCATATCA
* *
175552181 --TACATGTCA
1 TGTGCATATCA
175552190 TGTGCATATCA
1 TGTGCATATCA
*
175552201 --TACATATCA
1 TGTGCATATCA
175552210 TGTGCATATCA
1 TGTGCATATCA
175552221 T
1 T
175552222 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:175552315 original size:25 final size:25
Alignment explanation
Indices: 175552269--175552316 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
175552259 ATATATAAAC
* * * *
175552269 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
175552294 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
175552317 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:175553563 original size:27 final size:27
Alignment explanation
Indices: 175553472--175553555 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
175553462 GGGCATATTC
* *
175553472 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACCATACAGGGGCT-TTACG
*
175553499 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
175553526 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
175553553 GTC
1 GTC
175553556 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:175553572 original size:27 final size:26
Alignment explanation
Indices: 175553472--175553565 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
175553462 GGGCATATTC
* *
175553472 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACC-TACAGGGGCT-TTACG
175553499 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
175553526 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
175553553 GTCTTTTTACCTA
1 GTCACTTTACCTA
175553566 ATAGGGGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.07
27 53 0.88
28 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:175553647 original size:27 final size:27
Alignment explanation
Indices: 175553594--175553846 Score: 143
Period size: 27 Copynumber: 9.3 Consensus size: 27
175553584 TTTCATCCTA
* * * * * *
175553594 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
175553621 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
175553648 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
* * *
175553677 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *
175553704 C-AGTGGTATTTTGGTAATTTTAAAAAT
1 CAAG-GGTATTTCGGTAATTTTATAAAT
** * *
175553731 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
175553757 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* *
175553784 CTAAGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
** * * *
175553812 TGAGGGTATTCCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
*
175553839 CGAGGGTA
1 CAAGGGTA
175553847 AAATAGTAAT
Statistics
Matches: 179, Mismatches: 40, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.02
27 143 0.80
28 17 0.09
29 15 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:175553821 original size:54 final size:54
Alignment explanation
Indices: 175553602--175553810 Score: 179
Period size: 54 Copynumber: 3.8 Consensus size: 54
175553592 TACAAGGGTG
* * * * * *** *
175553602 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
* * * * ** *
175553656 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTT-GTAAATCAGTGGTA
1 TTT-TGGTAA-TTTTAAAAACT-AAGGGTATTTCGGTAA-TTTCACAAACCAGTGGTA
* *
175553712 TTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
* * *
175553766 TTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTCACAAA
175553811 TTGAGGGTAT
Statistics
Matches: 127, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
53 3 0.02
54 71 0.56
55 17 0.13
56 33 0.26
57 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
Found at i:175553855 original size:27 final size:27
Alignment explanation
Indices: 175553825--175554100 Score: 214
Period size: 27 Copynumber: 9.8 Consensus size: 27
175553815 GGGTATTCCT
*
175553825 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
**
175553852 GTAATTCTGTAAATTAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
175553879 GTAATTCTATAAATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
175553906 ATAATTTTGTAAATCGAGGGTAAAA-C
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
175553932 GATAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAA
1 G-TAATTCTGTAAATCGAGGGTAAAA------T---A
* *
175553969 TGGTAATTATGTAAATC-AGGGGTAAAATG
1 --GTAATTCTGTAAATCGA-GGGTAAAATA
* *
175553998 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
175554025 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
175554052 GTACTTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
175554079 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
175554101 CTTTGGTAAT
Statistics
Matches: 202, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
27 178 0.88
28 1 0.00
32 1 0.00
37 1 0.00
38 20 0.10
39 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:175553856 original size:81 final size:81
Alignment explanation
Indices: 175553708--175553857 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
175553698 GTAAATCAGT
* *** *
175553708 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGT
1 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTCCGGTAATTTCACAAACCAGTGGTAAAATAGT
175553773 AATTTTACAAACTAAG
66 AATTTTACAAACTAAG
* * *** *
175553789 GGTATTTTGGTAATTTTACAAATTGAGGGTATTCCTGTAATTTTGTAAATCGAG-GGTAAAATAG
1 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTCCGGTAATTTCACAAA-CCAGTGGTAAAATAG
175553853 TAATT
65 TAATT
175553858 CTGTAAATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 54 0.95
82 3 0.05
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTAAAAATTGAGGGTATTCCGGTAATTTCACAAACCAGTGGTAAAATAGT
AATTTTACAAACTAAG
Found at i:175553870 original size:81 final size:81
Alignment explanation
Indices: 175553708--175553944 Score: 181
Period size: 81 Copynumber: 2.9 Consensus size: 81
175553698 GTAAATCAGT
* * *** * *** *
175553708 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTATTTTGG
1 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTACAGTAATTTTGTAAATCGAG-GGTAAAATAG
* **
175553772 TAATTTTACAAACTAAG
65 TAATTCTGTAAACTAAG
* * *
175553789 GGTATTTTGGTAATTTTACAAATTGAGGGTATTCCTGTAATTTTGTAAATCGAGGGTAAAATAGT
1 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTACAGTAATTTTGTAAATCGAGGGTAAAATAGT
*
175553854 AATTCTGTAAATTAAG
66 AATTCTGTAAACTAAG
*** * * * * * ** * *
175553870 GGTAAAATAGTAATTCTATAAATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAA-CGA
1 GGTATTTTGGTAATTTTAAAAATTGAGGGTATTACAGTAATTTTGTAAATCGAGGGTAAAATAG-
175553934 TAATTCTGTAA
65 TAATTCTGTAA
175553945 GTCGAGGGTA
Statistics
Matches: 125, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
80 1 0.01
81 121 0.97
82 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTAAAAATTGAGGGTATTACAGTAATTTTGTAAATCGAGGGTAAAATAGT
AATTCTGTAAACTAAG
Found at i:175553965 original size:38 final size:38
Alignment explanation
Indices: 175553914--175553995 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
175553904 CAATAATTTT
* * *
175553914 GTAAATCGAGGGTAAAACGATAATTCTGTAAGTC-GAGG
1 GTAAAACGAGGGTAAAACGATAATTATGTAAATCAG-GG
* * *
175553952 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCAGGG
1 GTAAAACGAGGGTAAAACGATAATTATGTAAATCAGGG
175553990 GTAAAA
1 GTAAAA
175553996 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGATAATTATGTAAATCAGGG
Found at i:175553992 original size:146 final size:146
Alignment explanation
Indices: 175553825--175554100 Score: 392
Period size: 146 Copynumber: 1.9 Consensus size: 146
175553815 GGGTATTCCT
* * *
175553825 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATTAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * * *
175553890 AATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGGGTA
66 AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTA
175553955 AAACGGGGGTAAAATG
131 AAACGGGGGTAAAATG
*
175553971 GTAATTATGTAAATC-AGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 GTAATTATGTAAATCGA-GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
* ** * * * *
175554035 AAATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAATGGTAATTATGTAAATCGGGGGT
65 AAATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGT
175554100 A
130 A
175554101 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
145 1 0.01
146 112 0.99
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (146 bp):
GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTA
AAACGGGGGTAAAATG
Found at i:175553993 original size:92 final size:92
Alignment explanation
Indices: 175553869--175554052 Score: 228
Period size: 92 Copynumber: 2.0 Consensus size: 92
175553859 TGTAAATTAA
* * *
175553869 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAAC-G
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
* * *
175553933 ATAATTCTGTAAGTCGAGGGTAAAACGG
66 -TAATTCTATAAATCAAGGGTAAAACGG
* * * ***
175553961 GGGTAAAATGGTAATTATGTAAATC-AGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACA
1 GGGTAAAATAGTAATTATATAAATCGA-CGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACA
175554025 GTAATTCTATAAATCAAGGGTAAAACGG
65 GTAATTCTATAAATCAAGGGTAAAACGG
175554053 TACTTCTATA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
91 1 0.01
92 76 0.97
93 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
TAATTCTATAAATCAAGGGTAAAACGG
Found at i:175554045 original size:119 final size:119
Alignment explanation
Indices: 175553833--175554076 Score: 326
Period size: 119 Copynumber: 2.1 Consensus size: 119
175553823 CTGTAATTTT
* * * *
175553833 GTAAATCGAGGGTAAAATAGTAATTCTGTAAATTAAGGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * * *
175553898 GTAAAACAATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCGAGG
* * * * * *
175553952 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCAGGGGTAAAATGGTAATTCTGTAAATCAAGG
1 GTAAAACGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * *
175554017 GTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCGAGG
175554071 GTAAAA
1 GTAAAA
175554077 TGGTAATTAT
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 107 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (119 bp):
GTAAAACGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACAATAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCGAGG
Found at i:175554123 original size:54 final size:52
Alignment explanation
Indices: 175553961--175554127 Score: 172
Period size: 54 Copynumber: 3.1 Consensus size: 52
175553951 GGTAAAACGG
*
175553961 GGGTAAAATGGTAATTATGTAAATCAGGGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTATGTAAATCAGGGGTAAAATGGTAATT-T-TAAATCGA
** * * * * *
175554015 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGA
1 GGGTAAAATGGTAATTATGTAAATCAGGGGTAAAATGGTAATT-T-TAAATCGA
* ***
175554069 GGGTAAAATGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAATGGTAATTATGTAAATCAGGGGTAAAATGGTAATTTTA-AA-TCGA
175554123 GGGTA
1 GGGTA
175554128 TTTCAATAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
52 2 0.02
53 3 0.03
54 86 0.95
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (52 bp):
GGGTAAAATGGTAATTATGTAAATCAGGGGTAAAATGGTAATTTTAAATCGA
Found at i:175561828 original size:39 final size:39
Alignment explanation
Indices: 175561768--175561977 Score: 315
Period size: 39 Copynumber: 5.5 Consensus size: 39
175561758 CGGATGATAA
*
175561768 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
175561808 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
175561847 CCGGGCTAAGT-CGAAGGCATTT-TGC-AG--ACTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
*
175561881 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
*
175561920 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
*
175561960 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGG
175561978 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 3, Indels: 13
0.91 0.02 0.07
Matches are distributed among these distances:
34 18 0.11
35 11 0.07
36 5 0.03
37 5 0.03
38 11 0.07
39 72 0.45
40 39 0.24
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:175561904 original size:73 final size:77
Alignment explanation
Indices: 175561768--175561977 Score: 304
Period size: 73 Copynumber: 2.7 Consensus size: 77
175561758 CGGATGATAA
*
175561768 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCGAAGGCATTTGT
175561833 GCGAGTTACTATAT
64 GCGAGTTACTATAT
175561847 CCGGGCTAAGT-CGAAGGCATTT-TGC-AG-ACTATATCCGGGCTAAGTCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGC
*
175561908 GAGTTGCTATAT
66 GAGTTACTATAT
* *
175561920 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGT-CCGAAGG
175561978 TACTTGGGTT
Statistics
Matches: 120, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
73 56 0.47
75 13 0.11
76 6 0.05
77 13 0.11
78 8 0.07
79 24 0.20
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGC
GAGTTACTATAT
Found at i:175569882 original size:40 final size:40
Alignment explanation
Indices: 175569837--175570039 Score: 327
Period size: 40 Copynumber: 5.1 Consensus size: 40
175569827 CTAAGATCCG
* *
175569837 AAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTTCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
* *
175569877 AAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
175569917 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
*
175569957 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
* * *
175569997 AAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
175570036 AAGG
1 AAGG
175570040 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 14 0.09
40 140 0.91
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCA
Found at i:175571615 original size:133 final size:133
Alignment explanation
Indices: 175571377--175571675 Score: 429
Period size: 133 Copynumber: 2.2 Consensus size: 133
175571367 GGGTGTTACA
* **
175571377 CTAAGTGGATATACCACGA-TAACACATATTGATACATGTAACATGGTGCTGAGTGGATATGTCA
1 CTAAGTGGATATACCACGATTAA-ACATATTGATACATGTAACATGGTGCTAAGTGGATATACCA
* * * * *
175571441 CGGTTACATATATCGATTCATTAACGCGGTGCTAAGTGGATATACCACGGTTACACGTGTAATGT
65 CGATTACATATATCGATTCATTAACGCGGTGCTAAGTGGATATACCACGGTTAAACATATAACGT
175571506 GGTG
130 GGTG
* *
175571510 CTAAGTGGATATACCACGATTAAACATATTGATACATGTAACATGGTGCTAAGTGGTTATACCAT
1 CTAAGTGGATATACCACGATTAAACATATTGATACATGTAACATGGTGCTAAGTGGATATACCAC
* * *
175571575 GATTACATATATCGGTTCATTAATGTGGTGCTAAGTGGATATACCACGGTTAAACATATAACGTG
66 GATTACATATATCGATTCATTAACGCGGTGCTAAGTGGATATACCACGGTTAAACATATAACGTG
175571640 GTG
131 GTG
* * * *
175571643 CTAAGTGGATATGCCACGGTTATACATGTTGAT
1 CTAAGTGGATATACCACGATTAAACATATTGAT
175571676 TTGAAAAGTG
Statistics
Matches: 148, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
133 145 0.98
134 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (133 bp):
CTAAGTGGATATACCACGATTAAACATATTGATACATGTAACATGGTGCTAAGTGGATATACCAC
GATTACATATATCGATTCATTAACGCGGTGCTAAGTGGATATACCACGGTTAAACATATAACGTG
GTG
Found at i:175571618 original size:47 final size:48
Alignment explanation
Indices: 175571498--175571633 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 48
175571488 CGGTTACACG
*
175571498 TGTAATGTGGTGCTAAGTGGATATACCACGATTAAACATATTGATACA
1 TGTAATGTGGTGCTAAGTGGATATACCACGATTAAACATATCGATACA
** * * * * * *
175571546 TGTAACATGGTGCTAAGTGGTTATACCATGATTACATATATCGGTTCA
1 TGTAATGTGGTGCTAAGTGGATATACCACGATTAAACATATCGATACA
*
175571594 T-TAATGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
1 TGTAATGTGGTGCTAAGTGGATATACCACGATTAAACATAT
175571634 AACGTGGTGC
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
47 32 0.44
48 40 0.56
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (48 bp):
TGTAATGTGGTGCTAAGTGGATATACCACGATTAAACATATCGATACA
Found at i:175574176 original size:93 final size:93
Alignment explanation
Indices: 175574064--175574234 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
175574054 GCCCATAAGT
* *
175574064 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
175574129 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
175574157 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
175574222 CGAGTTCGGATGC
66 CGAGCTCGGATGC
175574235 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:175574231 original size:46 final size:46
Alignment explanation
Indices: 175574056--175574231 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
175574046 TGTAACCCGC
* *
175574056 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
175574102 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
175574148 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
175574195 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
175574232 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:175579544 original size:45 final size:45
Alignment explanation
Indices: 175579480--175579653 Score: 217
Period size: 45 Copynumber: 3.8 Consensus size: 45
175579470 TGTAACCCGC
*
175579480 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
175579525 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
175579571 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
175579618 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
175579654 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 36 0.33
46 33 0.30
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:175579646 original size:93 final size:92
Alignment explanation
Indices: 175579488--175579657 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
175579478 GCCCATAAGT
*
175579488 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
175579553 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
*
175579580 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
175579645 CGAGTTCGGATGC
65 CGAGCTCGGATGC
175579658 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:175579673 original size:46 final size:46
Alignment explanation
Indices: 175579485--175579673 Score: 144
Period size: 46 Copynumber: 4.1 Consensus size: 46
175579475 CCCGCCCATA
* * *
175579485 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
175579529 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
175579579 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
175579623 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
175579669 AGTGA
1 AGTGA
175579674 CATGTCACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 32 0.28
46 34 0.29
47 30 0.26
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:175581399 original size:27 final size:26
Alignment explanation
Indices: 175581352--175581407 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
175581342 GCTGTAACTA
175581352 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
175581378 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
175581405 ATT
1 ATT
175581408 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:175583044 original size:19 final size:20
Alignment explanation
Indices: 175583005--175583045 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
175582995 ATACTCAGGG
*
175583005 CAATTTTATCGATACTTTTT
1 CAATTATATCGATACTTTTT
175583025 CAATTATATCGATA-TTTTT
1 CAATTATATCGATACTTTTT
175583044 CA
1 CA
175583046 GGTTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (20 bp):
CAATTATATCGATACTTTTT
Found at i:175586421 original size:46 final size:45
Alignment explanation
Indices: 175586328--175586413 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
175586318 TACATTTCAC
* *
175586328 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
175586374 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
175586414 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:175586857 original size:30 final size:30
Alignment explanation
Indices: 175586823--175586882 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
175586813 ATTTAATACG
175586823 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
175586853 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
175586883 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:175594289 original size:30 final size:30
Alignment explanation
Indices: 175594255--175594314 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
175594245 ATTTAATACG
175594255 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
175594285 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
175594315 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:175602549 original size:40 final size:40
Alignment explanation
Indices: 175602422--175602551 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
175602412 ATGCTGGAAA
* *
175602422 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
175602462 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
175602502 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
175602542 TTATATCCGG
1 TTATATCCGG
175602552 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:175610651 original size:20 final size:20
Alignment explanation
Indices: 175610628--175610665 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
175610618 CACATCCAAA
*
175610628 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
175610648 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
175610666 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:175613463 original size:40 final size:40
Alignment explanation
Indices: 175613336--175613465 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
175613326 ATGCTGGAAA
* *
175613336 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
175613376 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
175613416 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
175613456 TTATATCCGG
1 TTATATCCGG
175613466 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:175619837 original size:20 final size:20
Alignment explanation
Indices: 175619812--175619850 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
175619802 CCCTTACATC
175619812 ATTACATAATTGAAACTTTG
1 ATTACATAATTGAAACTTTG
175619832 ATTACATAATTGAAACTTT
1 ATTACATAATTGAAACTTT
175619851 TAAGAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (20 bp):
ATTACATAATTGAAACTTTG
Found at i:175632820 original size:40 final size:40
Alignment explanation
Indices: 175632712--175632921 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
175632702 CGGGATTTAA
* * * * *
175632712 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
175632752 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175632792 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175632832 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175632872 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175632912 CCGGATATAT
1 CCGGATATAT
175632922 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:175640948 original size:40 final size:40
Alignment explanation
Indices: 175640840--175641049 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
175640830 CGGGATTTAA
* * * * *
175640840 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
175640880 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175640920 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175640960 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175641000 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
175641040 CCGGATATAT
1 CCGGATATAT
175641050 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:175647268 original size:41 final size:40
Alignment explanation
Indices: 175647201--175647420 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
175647191 TCGAATGGTG
* * * *
175647201 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAA
* *
175647242 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
* *
175647282 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
* *
175647322 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATCACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
* * * * * *
175647361 TACCGGGCTATGTCCCGAAGGCAATCGAGCGAGTCACTATA
1 T-CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
* *
175647402 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
175647421 TACGTGATTC
Statistics
Matches: 152, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
39 14 0.09
40 111 0.73
41 27 0.18
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
Found at i:175647336 original size:80 final size:79
Alignment explanation
Indices: 175647202--175647420 Score: 276
Period size: 80 Copynumber: 2.7 Consensus size: 79
175647192 CGAATGGTGT
* * * *
175647202 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCAGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTCACTAAATCC-GGTTAAGTCCCGAAGGCATTT
* *
175647267 GTGCGAGTTACTAAAA
64 GTGCGAATCACTAAAA
*
175647283 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAATCC-GGTTAAGTCCCGAAGGCATTTG
**
175647348 TGCGAATCACTATTA
65 TGCGAATCACTAAAA
* * * * * *
175647363 CCGGGCTATGTCCCGAAGGCAATCGAGCGAGTCACTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAATCCGGTTAAGTCCCGAAGG
175647421 TACGTGATTC
Statistics
Matches: 121, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
79 14 0.12
80 82 0.68
81 25 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAATCCGGTTAAGTCCCGAAGGCATTTGT
GCGAATCACTAAAA
Found at i:175653205 original size:24 final size:24
Alignment explanation
Indices: 175653178--175653225 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
175653168 AACAAGAGAT
175653178 TGCATAGAATTTGAGGCCGAGTGG
1 TGCATAGAATTTGAGGCCGAGTGG
175653202 TGCATAGAATTTGAGGCCGAGTGG
1 TGCATAGAATTTGAGGCCGAGTGG
175653226 CACTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.25
Consensus pattern (24 bp):
TGCATAGAATTTGAGGCCGAGTGG
Found at i:175655111 original size:49 final size:49
Alignment explanation
Indices: 175654993--175655330 Score: 551
Period size: 49 Copynumber: 7.0 Consensus size: 49
175654983 TTATGACATT
* * *
175654993 TATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
175655040 TATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
175655089 TATACACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
175655138 TATACACTTTCACATTCATCACATCAGCCAATAGGCC-TATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
175655184 TATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
175655233 TATACACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
175655282 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
175655331 AATATCTCAT
Statistics
Matches: 271, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 37 0.14
47 47 0.17
48 6 0.02
49 181 0.67
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:175655196 original size:144 final size:144
Alignment explanation
Indices: 175654993--175655330 Score: 613
Period size: 144 Copynumber: 2.3 Consensus size: 144
175654983 TTATGACATT
* *
175654993 TATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACACCTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACACCTTCACATTCA
*
175655058 TCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAG
65 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAG
175655123 GCCTTATCACATATA
130 GCCTTATCACATATA
* *
175655138 TATACACTTTCACATTCATCACATCAGCCAATAGGCCTATCACATATATACACCTTCACATTCAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACCTTCACATTCAT
175655203 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGG
66 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGG
175655268 CCTTATCACATATA
131 CCTTATCACATATA
175655282 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATA
175655331 AATATCTCAT
Statistics
Matches: 185, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
144 143 0.77
145 42 0.23
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (144 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACCTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGG
CCTTATCACATATA
Found at i:175658205 original size:40 final size:40
Alignment explanation
Indices: 175658110--175658205 Score: 90
Period size: 40 Copynumber: 2.4 Consensus size: 40
175658100 CATCTCTGAA
* * * *
175658110 TCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCT
1 TCGGGACTTAGCCCGGATATAGTAACTAGCACGAAAGCCT
* * *
175658149 TC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-AAAGCCT
1 TCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACGAAAGCCT
175658189 TCGGGACTTAGCCCGGA
1 TCGGGACTTAGCCCGGA
175658206 CATCATTCGA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
38 2 0.05
39 2 0.05
40 32 0.73
41 8 0.18
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATAGTAACTAGCACGAAAGCCT
Found at i:175658994 original size:40 final size:40
Alignment explanation
Indices: 175658950--175659297 Score: 572
Period size: 40 Copynumber: 8.7 Consensus size: 40
175658940 CCAGCATGAT
*
175658950 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
175658990 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
175659030 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
175659070 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
175659110 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
175659150 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
175659190 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
175659230 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
175659270 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
175659298 GTCGAGACCT
Statistics
Matches: 284, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 280 0.99
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:175661731 original size:49 final size:49
Alignment explanation
Indices: 175661602--175661826 Score: 338
Period size: 49 Copynumber: 4.7 Consensus size: 49
175661592 CCCTTCGGGA
* *
175661602 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
175661649 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
175661696 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
175661745 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
175661794 C-TATCAC--ATATATACACCTTCACATTCATCACA
1 CTTATCACATATATATACACTTTCACATTCATCACA
175661827 ACTTTCACAT
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
46 26 0.16
47 47 0.29
48 6 0.04
49 85 0.52
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:175661835 original size:64 final size:66
Alignment explanation
Indices: 175661763--175661893 Score: 212
Period size: 64 Copynumber: 2.0 Consensus size: 66
175661753 ATATATATAC
*
175661763 ACTTTCACATTCATCACATCGGCCATTTGGCC-TATCAC-ATATATACACCTTCACATTCATCAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACCTTCACATTCATCAC
175661826 A
66 A
* *
175661827 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACCTTCACATTCATCA
175661892 CA
65 CA
175661894 TCGGCCATTA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
64 30 0.49
65 6 0.10
67 25 0.41
ACGTcount: A:0.30, C:0.31, G:0.06, T:0.33
Consensus pattern (66 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACCTTCACATTCATCAC
A
Found at i:175661866 original size:40 final size:41
Alignment explanation
Indices: 175661821--175661915 Score: 102
Period size: 49 Copynumber: 2.1 Consensus size: 41
175661811 CTTCACATTC
*
175661821 ATCACA-ACTTTCACATTCTTCACATCGGCCATTAGGCCTT
1 ATCACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
175661861 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--------ACACTTTCACATTCATCACATCGGCCATTAGGCCTT
175661910 ATCACA
1 ATCACA
175661916 TATAAATATC
Statistics
Matches: 45, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
40 5 0.11
41 1 0.02
48 1 0.02
49 38 0.84
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (41 bp):
ATCACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:175661898 original size:113 final size:114
Alignment explanation
Indices: 175661714--175661919 Score: 396
Period size: 113 Copynumber: 1.8 Consensus size: 114
175661704 ATATATATAC
175661714 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
175661779 CATCGGCCATTTGGCC-TATCACATATATACACCTTCACATTCATCACA
66 CATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
175661827 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
175661892 CATCGGCCATTAGGCCTTATCACATATA
66 CATCGGCCATTAGGCCTTATCACATATA
175661920 AATATCTCAT
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
113 80 0.88
114 11 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (114 bp):
ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
Found at i:175670608 original size:40 final size:39
Alignment explanation
Indices: 175670440--175670610 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
175670430 AGAAATTGAA
* *
175670440 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
175670480 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
175670520 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
175670560 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
175670600 TGATATCCGGG
1 TGATATCCGGG
175670611 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:175678456 original size:40 final size:39
Alignment explanation
Indices: 175678288--175678458 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
175678278 AGAAATTGAA
* *
175678288 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
175678328 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
175678368 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
175678408 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
175678448 TGATATCCGGG
1 TGATATCCGGG
175678459 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:175683355 original size:70 final size:71
Alignment explanation
Indices: 175683202--175683364 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
175683192 GAGATGTATC
175683202 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
175683267 AGGACA
66 AGGACA
175683273 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTA-GTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
175683337 AGGACA
66 AGGACA
175683343 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
175683365 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 51 0.55
71 41 0.45
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:175684714 original size:37 final size:37
Alignment explanation
Indices: 175684664--175684735 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
175684654 GGGGTGTTAC
175684664 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTACG
1 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTACG
175684701 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
175684736 AGACTTCGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
ACCCGATGACTACGTGTGGAGATTATGTCCGGGTACG
Found at i:175686661 original size:40 final size:40
Alignment explanation
Indices: 175686617--175686886 Score: 438
Period size: 40 Copynumber: 6.8 Consensus size: 40
175686607 GAGAATTGAG
*
175686617 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
175686657 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGT-CT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
175686696 AGTGATGTATCCGGACTAAGTTCCG-AGAAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAG-AGCATTCGTGCT
*
175686736 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
175686776 AGTGATGTATCAGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
175686816 AGTGATGTATCTGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
175686856 AGTGATGTATCCGGGCT-AGGTCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
175686887 ATCGCGCTGG
Statistics
Matches: 217, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.00
39 49 0.23
40 166 0.76
41 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:175686880 original size:119 final size:119
Alignment explanation
Indices: 175686617--175686886 Score: 463
Period size: 119 Copynumber: 2.3 Consensus size: 119
175686607 GAGAATTGAG
*
175686617 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCAGGACTAAGTTCCG
175686682 AGGAGCATTCGTCTAGTGATGTATCCGGACTAAGTTCCGAGAAGCATTCGTGCT
66 AGGAGCATTCGTCTAGTGATGTATCCGGACTAAGTTCCGAGAAGCATTCGTGCT
* *
175686736 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTATCAGGACTAAGTTCCG
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCAGGACTAAGTTCCG
*
175686801 AGGAGCATTCGTGCTAGTGATGTATCTGGACTAAGTTCCGA-AGAGCATTCGTGCT
66 AGGAGCATTCGT-CTAGTGATGTATCCGGACTAAGTTCCGAGA-AGCATTCGTGCT
*
175686856 AGTGATGTATCCGGGCT-AGGTCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCA
175686887 ATCGCGCTGG
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
119 87 0.61
120 55 0.39
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (119 bp):
AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCAGGACTAAGTTCCG
AGGAGCATTCGTCTAGTGATGTATCCGGACTAAGTTCCGAGAAGCATTCGTGCT
Found at i:175690555 original size:49 final size:49
Alignment explanation
Indices: 175690494--175690746 Score: 445
Period size: 49 Copynumber: 5.2 Consensus size: 49
175690484 ATGTATGAGA
*
175690494 TGTATATATGTGATAAGGACTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
175690543 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
175690592 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
175690641 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT-AATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
175690689 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
175690738 TATATATAT
1 TGTATATAT
175690747 ATGTGGCAAA
Statistics
Matches: 196, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 47 0.24
49 149 0.76
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:175690783 original size:146 final size:146
Alignment explanation
Indices: 175690494--175690774 Score: 420
Period size: 146 Copynumber: 1.9 Consensus size: 146
175690484 ATGTATGAGA
*
175690494 TGTATATATGTGATAAGGACTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAA
1 TGTATATATGTGATAAGGACTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
* * * * * * *
175690559 GGCCTAATGGCCGATGTGATGAATGTGAAAATGTGTATATGTGTGATAAGGCCTAATGGCCGATG
66 GGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGACAAAGCCGAATGGCCAATG
175690624 TGATGAATGTGAAAGTG
131 TGATG-ATGTGAAAGTG
*
175690641 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT-AATGTGAAAGTGTGTATATATGTGATAA
1 TGTATATATGTGATAAGGACTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
* * *
175690705 GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGGCAAAGCCGAATGGCTAA
66 GGCCTAATGGCCGACGTGATGAATGTGAAAATG--TATATATATGTGACAAAGCCGAATGGCCAA
175690770 TGTGA
129 TGTGA
175690775 ATGTTGAAAC
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
146 58 0.48
147 35 0.29
148 27 0.22
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (146 bp):
TGTATATATGTGATAAGGACTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
GGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGACAAAGCCGAATGGCCAATG
TGATGATGTGAAAGTG
Found at i:175690856 original size:37 final size:37
Alignment explanation
Indices: 175690828--175690900 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
175690818 GTTCCGGTGA
175690828 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
175690865 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
175690901 AGACTTCGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.25
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
Found at i:175700236 original size:15 final size:15
Alignment explanation
Indices: 175700212--175700271 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
175700202 TATGATATTG
175700212 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* *
175700227 TATTTTGGATTTCTC
1 TATCTTGGATTTCTT
*
175700242 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
* *
175700257 AATCTTGGTTTTCTT
1 TATCTTGGATTTCTT
175700272 GTTATCTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:175702252 original size:26 final size:26
Alignment explanation
Indices: 175702216--175702266 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
175702206 GATTATAGGT
175702216 CTGTTCTAGCCCCGTTTTTAATGATC
1 CTGTTCTAGCCCCGTTTTTAATGATC
175702242 CTGTTCTAGCCCCGTTTTTAATGAT
1 CTGTTCTAGCCCCGTTTTTAATGAT
175702267 TTTTACGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (26 bp):
CTGTTCTAGCCCCGTTTTTAATGATC
Found at i:175704493 original size:28 final size:28
Alignment explanation
Indices: 175704461--175704526 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
175704451 CACGAGCGTG
* * *
175704461 TGGGCCCATTTGGGCTGAGAATTGGCTT
1 TGGGCCCATTTAGGCCGAGAATAGGCTT
175704489 TGGGCCCATTTAGGCCGAGAATAGGCTT
1 TGGGCCCATTTAGGCCGAGAATAGGCTT
*
175704517 TGGGACCATT
1 TGGGCCCATT
175704527 CGCATTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGGCCCATTTAGGCCGAGAATAGGCTT
Found at i:175704608 original size:27 final size:27
Alignment explanation
Indices: 175704578--175704718 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
175704568 TACTGAAATG
* * * *
175704578 CCCTCTATTTGTATAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
175704605 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
175704632 CCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
175704659 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
*
175704686 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTA
175704713 CCCTCG
1 CCCTCG
175704719 GTTGTGAAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 95 0.99
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCGTTTTA
Found at i:175704658 original size:54 final size:54
Alignment explanation
Indices: 175704592--175704718 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 54
175704582 CTATTTGTAT
* * *
175704592 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCT-TGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAG-TTTACAA
*
175704646 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAGTTTACAA
175704700 AATTACCGTTTTACCCTCG
1 AATTACCGTTTTACCCTCG
175704719 GTTGTGAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAGTTTACAA
Found at i:175704758 original size:27 final size:27
Alignment explanation
Indices: 175704733--175704947 Score: 288
Period size: 27 Copynumber: 8.0 Consensus size: 27
175704723 TGAAATTATT
* * *
175704733 GAAATACCCTTGTGGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
175704760 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
175704787 AAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
175704814 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
175704841 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
175704868 GCAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
175704895 AAAATACCCCTATAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
175704922 GAGATA-CCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
175704948 ATTTTTCCCC
Statistics
Matches: 165, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.09
27 150 0.91
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:175705417 original size:22 final size:21
Alignment explanation
Indices: 175705374--175705438 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
175705364 TTAAAGCCTT
* *
175705374 CTGATTATGGCTTGGTGTCAAC
1 CTGAATATGGCTT-GTGCCAAC
175705396 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCT-TGTGCCAAC
*
175705418 CTGATTATGGCTGTGTGCCAA
1 CTGAATATGGCT-TGTGCCAA
175705439 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 33 0.92
23 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (21 bp):
CTGAATATGGCTTGTGCCAAC
Found at i:175705679 original size:27 final size:26
Alignment explanation
Indices: 175705597--175705698 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
175705587 ATTCTGTTAA
* * *
175705597 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTT-TG
* *
175705624 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTTG
175705651 GTGGCTCTGCCACAATATCTGTATTTG
1 GTGGCTCTGCCACAATATCTGT-TTTG
** *
175705678 GTAACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
175705699 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.14
27 47 0.73
28 8 0.12
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTTTG
Found at i:175705875 original size:6 final size:6
Alignment explanation
Indices: 175705864--175705945 Score: 78
Period size: 6 Copynumber: 13.3 Consensus size: 6
175705854 TTACCCGATA
* *
175705864 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* *
175705913 CTG-TCAA CTAATT CTGATT CTGATT CTGATT CT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CT
175705946 AGTTCTAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 52 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:175705881 original size:31 final size:31
Alignment explanation
Indices: 175705835--175705945 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
175705825 TTGCATTCAC
* *
175705835 ATTCTGATTTTTGATTCTGTTACCCGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
175705867 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
175705898 ATTCTGATTCTGATTCTGTCAACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
175705929 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
175705946 AGTTCTAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 66 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:175707223 original size:18 final size:18
Alignment explanation
Indices: 175707200--175707241 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
175707190 CACTCTATAG
*
175707200 CAGTCAGTTATGCAATAA
1 CAGTCACTTATGCAATAA
*
175707218 CAGTCACTTATTCAATAA
1 CAGTCACTTATGCAATAA
175707236 CAGTCA
1 CAGTCA
175707242 ATCATTCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (18 bp):
CAGTCACTTATGCAATAA
Found at i:175707248 original size:18 final size:18
Alignment explanation
Indices: 175707212--175707248 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
175707202 GTCAGTTATG
* *
175707212 CAATAACAGTCACTTATT
1 CAATAACAGTCAATCATT
175707230 CAATAACAGTCAATCATT
1 CAATAACAGTCAATCATT
175707248 C
1 C
175707249 TGTAGCAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (18 bp):
CAATAACAGTCAATCATT
Found at i:175708506 original size:3 final size:3
Alignment explanation
Indices: 175708498--175708540 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
175708488 ATATATATAT
175708498 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
175708541 CAACAACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:175709416 original size:50 final size:50
Alignment explanation
Indices: 175709277--175709689 Score: 441
Period size: 50 Copynumber: 8.2 Consensus size: 50
175709267 TTTAGGTCAT
* * * * *
175709277 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTATTAT
1 GTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * * * * * *
175709327 GCGTACCCGATAGCTTCGATCACGTCTGTAGTACTAAGTGTAGGCTACTAC
1 GTGTACCAGAT-GGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* *
175709378 GTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTAC
1 GTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * ** * * *
175709428 GTGTACCAGATTGTTAGGTTACAAGTGTAGTACTAACTGCAAGCTACTAT
1 GTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * * * *
175709478 GCGTACCCGATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTACCAGAT-GGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
*
175709529 GTGTATCC-GATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACCAC
1 GTGTA-CCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * * *
175709579 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
1 GTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
** * * * *
175709629 GCATACCAGATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTAT
1 GTGTACCAGAT-GGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
*
175709680 GCGTACCAGA
1 GTGTACCAGA
175709690 GAGCTTCGGT
Statistics
Matches: 297, Mismatches: 61, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
49 2 0.01
50 178 0.60
51 115 0.39
52 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
Found at i:175709501 original size:101 final size:101
Alignment explanation
Indices: 175709300--175709697 Score: 415
Period size: 101 Copynumber: 3.9 Consensus size: 101
175709290 TTAGGTCGCA
* * * * * * *
175709300 TGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGATAGCTTCGATCACGTCTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACGTGTGTAGTACTAAG
* * * * * * *
175709365 TGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCACG
65 TGCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
* * * ** *
175709401 TGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATTGTTAGGTTACAAGTGTAGTACTAACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTACTAAGT
* *
175709466 GCAAGCTACTATGCGTACCCGATAGCTTCGATCACG
66 GCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
*
175709502 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCC-GATGGTTAGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAGTTAGGTCACGTGTGTAGTACTAAG
* * * * * * * *
175709566 TGCAGGCTACCACGTGTACCAGATTG-TTAGGTCGCA
65 TGCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
* ** * *
175709602 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACGTGTGTAGTACTAAG
*
175709667 TGCAGGCTACTATGCGTACCAGAGAGCTTCG
65 TGCAGGCTACTATGCGTACCAGATAGCTTCG
175709698 GTTACAAGGG
Statistics
Matches: 242, Mismatches: 50, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
99 2 0.01
100 74 0.31
101 161 0.67
102 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
Found at i:175709501 original size:151 final size:151
Alignment explanation
Indices: 175709277--175709678 Score: 687
Period size: 151 Copynumber: 2.7 Consensus size: 151
175709267 TTTAGGTCAT
*
175709277 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGATAGCT
1 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
* *
175709342 TCGATCACGTCTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
66 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
* *
175709407 GTACTAAGTGCAGTCTACTAC
131 GTACTAAGTGCAGGCTACCAC
** * * *
175709428 GTGTACCAGATTGTTAGGTTACAAGTGTAGTACTAACTGCAAGCTACTATGCGTACCCGATAGCT
1 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
*
175709493 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCGATGGTTAGGTCACGTGTGTA
66 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
175709558 GTACTAAGTGCAGGCTACCAC
131 GTACTAAGTGCAGGCTACCAC
* *
175709579 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGCT
1 GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
175709644 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTA
66 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTA
175709679 TGCGTACCAG
Statistics
Matches: 233, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 233 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (151 bp):
GTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
GTACTAAGTGCAGGCTACCAC
Found at i:175712221 original size:20 final size:21
Alignment explanation
Indices: 175712192--175712231 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
175712182 AAAAATAATG
*
175712192 GAATCGAGCTCAA-TGAGCTA
1 GAATCAAGCTCAATTGAGCTA
*
175712212 GAATCAAGCTGAATTGAGCT
1 GAATCAAGCTCAATTGAGCT
175712232 CCATTAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
GAATCAAGCTCAATTGAGCTA
Found at i:175714235 original size:20 final size:21
Alignment explanation
Indices: 175714181--175714228 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
175714171 AAAAGAAATG
* *
175714181 AGCTGAAACGAGCAAAAATCA
1 AGCTCAAACGAGCTAAAATCA
175714202 AGCTCAAACGAGCTAAAAT-A
1 AGCTCAAACGAGCTAAAATCA
175714222 AGCTCAA
1 AGCTCAA
175714229 GTGAGCTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAAATCA
Found at i:175718136 original size:29 final size:29
Alignment explanation
Indices: 175718074--175718176 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
175718064 GTGACGAGAT
* * *
175718074 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
175718103 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
175718132 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
175718161 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
175718177 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:175725118 original size:40 final size:40
Alignment explanation
Indices: 175725006--175725158 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
175724996 GGATATAGCG
* * * * ***
175725006 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
175725046 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
175725086 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
175725126 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
175725159 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:175735886 original size:21 final size:22
Alignment explanation
Indices: 175735855--175735895 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
175735845 ATATTTCTCC
*
175735855 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
175735877 TCTT-AATTATATTATTTAT
1 TCTTGAATTATATTATTTAT
175735896 ACTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:175744200 original size:28 final size:28
Alignment explanation
Indices: 175744168--175744233 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
175744158 TTTAAAACCC
175744168 TAGGGGT-ATATCGGTAATTTTGCTCTTT
1 TAGGGGTAAT-TCGGTAATTTTGCTCTTT
175744196 TAGGGGTAATTCGGTAATTTTGCTC-TT
1 TAGGGGTAATTCGGTAATTTTGCTCTTT
*
175744223 TAAGGGTAATT
1 TAGGGGTAATT
175744234 TCGTGTTCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 12 0.33
28 22 0.61
29 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTCGGTAATTTTGCTCTTT
Found at i:175745879 original size:20 final size:20
Alignment explanation
Indices: 175745856--175745893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
175745846 CACATCCAAA
*
175745856 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
175745876 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
175745894 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:175746746 original size:11 final size:12
Alignment explanation
Indices: 175746724--175746752 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
175746714 TTTTATATAC
175746724 TTTTATAATTAA
1 TTTTATAATTAA
175746736 TTTTA-AATTAA
1 TTTTATAATTAA
175746747 TTTTAT
1 TTTTAT
175746753 TATTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATAATTAA
Found at i:175751112 original size:30 final size:29
Alignment explanation
Indices: 175751077--175751184 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 29
175751067 CTGGGCATTT
175751077 CCACACAGGTAGGACACACGTCCATGTGTG
1 CCACACAGGTAGGACACACG-CCATGTGTG
* * *
175751107 CCACACAAGCAGGACACACGCCCATGTGTA
1 CCACACAGGTAGGACACACG-CCATGTGTG
* *
175751137 CCACA-TGGATTGGACACACGCCTATGTGTG
1 CCACACAGG-TAGGACACACGCC-ATGTGTG
175751167 CCACACAGGTAGGACACA
1 CCACACAGGTAGGACACA
175751185 TGCCCATATG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 3 0.05
30 59 0.92
31 2 0.03
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.15
Consensus pattern (29 bp):
CCACACAGGTAGGACACACGCCATGTGTG
Done.