Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, whole genome shotgun sequence
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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 10 of 64
Found at i:852027 original size:25 final size:24
Alignment explanation
Indices: 851999--852045 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
851989 AGATTTATAG
*
851999 TAACATTCCTTGTATAATAATAAAA
1 TAACACTCCTTGTA-AATAATAAAA
* *
852024 TAACACTCTTTGTAAATGATAA
1 TAACACTCCTTGTAAATAATAA
852046 TCATTGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (24 bp):
TAACACTCCTTGTAAATAATAAAA
Found at i:852707 original size:36 final size:36
Alignment explanation
Indices: 852660--852732 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
852650 TATCGGAGTG
852660 AGCTCATTTTTATAGTTCTTCTAAAAATTAATCAAA
1 AGCTCATTTTTATAGTTCTTCTAAAAATTAATCAAA
* *
852696 AGCTCGTTTTTATAGTTCTTCTAGAAATTAATCAAA
1 AGCTCATTTTTATAGTTCTTCTAAAAATTAATCAAA
852732 A
1 A
852733 AAATTCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (36 bp):
AGCTCATTTTTATAGTTCTTCTAAAAATTAATCAAA
Found at i:854216 original size:153 final size:144
Alignment explanation
Indices: 853924--854476 Score: 490
Period size: 153 Copynumber: 3.8 Consensus size: 144
853914 GGATTTTTAA
* * * ** * *
853924 GCACCAAAAATCATGAAATATTATAAAATTGAA-ATGTAGAAAA-TTTTGTAAAAATCCGAGCT-
1 GCACCAAAAATCATGAAATACTATAAAAGT-AAGATCT-GAAAAGTTTCATGAAAATCTGAGCTC
** * * ** * *
853986 TGGAAAGGTCAAATTACAAAAATACCACTAAAGGGGTATTTTGGGTAATTTTACAC-CTCTAGAG
64 AAG-AAGGCCAAATTACAAAAATACCCCTAAAAAGGTATTTT-GATAATTTCACACTCT-TA-AG
** *
854050 GTACTGCTGTGATTTCAAAT
125 GTACTAATATGATTTCAAAT
* *
854070 GCACCAAAAATCATGAAATACTATGAAAGTAAGATCT-AAAAGGTTTCATGAAAATTTGAGCTCA
1 GCACCAAAAATCATGAAATACTATAAAAGTAAGATCTGAAAA-GTTTCATGAAAATCTGAGCTCA
* *
854134 AGAAGGCCAAATTATAAAACTACCCCTTACCCCTAAAAAGGTATTTTTGATAATTTTACATCTCT
65 AGAAGGCCAAATTACAAAA--A-----TACCCCTAAAAAGGTA-TTTTGATAATTTCACA-CTCT
*
854199 TAAGGTATTAATATGATTTCAAAT
121 TAAGGTACTAATATGATTTCAAAT
* **
854223 GCACCAAAAATTATGAAATACTATAAAAGTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCAA
1 GCACCAAAAATCATGAAATACTATAAAAGTAAGATCTGAAAAGTTTCATGAAAATCTGAGCTCAA
* * * * * * * * *
854288 AAAGGCTAAATTACAAAAATACTCCTATAGAGTTATTTTGGTAATTTCACACTCTTAGGGTACTG
66 GAAGGCCAAATTACAAAAATACCCCTAAAAAGGTATTTTGATAATTTCACACTCTTAAGGTACTA
* * *
854353 CTGTAATTTCAAAT
131 ATATGATTTCAAAT
* * * **
854367 GCACTAAAAATCATGAAATACTATAAAATTAAGATTTGAAAAGTTTCACAAAAATCTGAGCTC-A
1 GCACCAAAAATCATGAAATACTATAAAAGTAAGATCTGAAAAGTTTCATGAAAATCTGAGCTCAA
* * * *
854431 GAAGGCCAAATTACAAAAATACTCTTAAAGA-GTATTTTGGTAATTT
66 GAAGGCCAAATTACAAAAATACCCCTAAAAAGGTATTTTGATAATTT
854477 TAAATTCCCT
Statistics
Matches: 338, Mismatches: 54, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
142 14 0.04
143 28 0.08
144 81 0.24
145 16 0.05
146 71 0.21
147 1 0.00
148 1 0.00
151 1 0.00
153 112 0.33
154 11 0.03
155 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (144 bp):
GCACCAAAAATCATGAAATACTATAAAAGTAAGATCTGAAAAGTTTCATGAAAATCTGAGCTCAA
GAAGGCCAAATTACAAAAATACCCCTAAAAAGGTATTTTGATAATTTCACACTCTTAAGGTACTA
ATATGATTTCAAAT
Found at i:860103 original size:11 final size:11
Alignment explanation
Indices: 860087--860137 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
860077 TCTTTCTTTC
860087 TTTTTTTTC-T
1 TTTTTTTTCTT
*
860097 TTTTTTTTGTT
1 TTTTTTTTCTT
* *
860108 TTATTTTTGTGT
1 TTTTTTTTCT-T
*
860120 TTTTGTTTCTT
1 TTTTTTTTCTT
860131 TTTTTTT
1 TTTTTTT
860138 CAAAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.24
11 17 0.52
12 8 0.24
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:860107 original size:32 final size:33
Alignment explanation
Indices: 860065--860137 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
860055 ACTTAGGATG
* *
860065 TTTTTGTTGTTTTCTTTCTT-TCTTTTT-TTTCT
1 TTTTTTTTGTTTTATTT-TTGTCTTTTTGTTTCT
*
860097 TTTTTTTTGTTTTATTTTTGTGTTTTTGTTTCT
1 TTTTTTTTGTTTTATTTTTGTCTTTTTGTTTCT
860130 TTTTTTTT
1 TTTTTTTT
860138 CAAAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 2 0.06
32 21 0.58
33 13 0.36
ACGTcount: A:0.01, C:0.07, G:0.08, T:0.84
Consensus pattern (33 bp):
TTTTTTTTGTTTTATTTTTGTCTTTTTGTTTCT
Found at i:860525 original size:30 final size:30
Alignment explanation
Indices: 860437--860535 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
860427 AATTGGGTTT
* *
860437 AAAATCTCAATGCTAGCTAGATTAGGCTTA
1 AAAATCTCAGTGCCAGCTAGATTAGGCTTA
** * * *
860467 AATTTCT-ATGTGCCAACTTA-ACTGGGCTTA
1 AAAATCTCA-GTGCCAGC-TAGATTAGGCTTA
* *
860497 AAAATCTCAGTGCCAGCTAGATTTGGCTTG
1 AAAATCTCAGTGCCAGCTAGATTAGGCTTA
*
860527 AATATCTCA
1 AAAATCTCA
860536 TTTAGTGCCA
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (30 bp):
AAAATCTCAGTGCCAGCTAGATTAGGCTTA
Found at i:860784 original size:143 final size:144
Alignment explanation
Indices: 860471--860788 Score: 331
Period size: 143 Copynumber: 2.2 Consensus size: 144
860461 GGCTTAAATT
* * * *
860471 TCTATGTGCCAACTTAACTGGGCTTAAAAATCTCAGTGCCAGCTAGATTTGGCTTGAATATCTCA
1 TCTA-GTGCCAACTTAACTGGGCTTAAAAATCTCAGTACCAGCTAGATTAGGCTTAAAAATCTCA
* *
860536 TTTAGTGCCAATTGAACAAGGTAAAAGAATCTTAATGACAGCTAGATAAAGCATAAAAATCTCAT
65 TATAGTGCCAATTGAACAAGCTAAAAGAATCTTAATGACAGCTAGATAAAGCATAAAAATCTCAT
*
860601 CTTAAATAAATCTTA
130 CTTAAATAAATCTCA
** * ** *
860616 TCTAGTGGTAACTTAA-TAGGACTTAAAAATCTCAGTATTAGCTAGATTAGGTTTAAAAATCTCA
1 TCTAGTGCCAACTTAACT-GGGCTTAAAAATCTCAGTACCAGCTAGATTAGGCTTAAAAATCTCA
* * * ** *** * *
860680 TATAGTGCCAACTT-AATTATGCT-TAA-AATCTTGGTG-CTAGCTAGATTGGGCTTAAAGATCT
65 TATAGTGCCAA-TTGAA-CAAGCTAAAAGAATCTTAATGAC-AGCTAGATAAAGCATAAAAATCT
*
860741 TATCTTAAATAAATCTCA
127 CATCTTAAATAAATCTCA
*
860759 TTTAGTGCCAACTTAACTGGGCTTAAAAAT
1 TCTAGTGCCAACTTAACTGGGCTTAAAAAT
860789 TTCAATGCAA
Statistics
Matches: 140, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
142 1 0.01
143 67 0.48
144 63 0.45
145 9 0.06
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (144 bp):
TCTAGTGCCAACTTAACTGGGCTTAAAAATCTCAGTACCAGCTAGATTAGGCTTAAAAATCTCAT
ATAGTGCCAATTGAACAAGCTAAAAGAATCTTAATGACAGCTAGATAAAGCATAAAAATCTCATC
TTAAATAAATCTCA
Found at i:865544 original size:96 final size:97
Alignment explanation
Indices: 865438--865633 Score: 306
Period size: 102 Copynumber: 2.0 Consensus size: 97
865428 ATTAAAGGCT
865438 AAAAAATAAAGGTACTAGGGATG-CATCAT-TAGGCTTGAAAAGGCTCAAACTATCCAAAGAATG
1 AAAAAATAAAGGTACTAGGGA-GACATCATATAGGCTTGAAAAGGCTCAAACTATCCAAAGAATG
865501 CTTGAATCATCTCTTGAGTCAAATATGGTCTCC
65 CTTGAATCATCTCTTGAGTCAAATATGGTCTCC
*
865534 AAAAAATAAAGGTACTAGGGAGATATCATAAAAGGTAGGCTTGAAAAGGCTCAAACTATCCAAAG
1 AAAAAATAAAGGTACTAGGGAGACATCAT---A--TAGGCTTGAAAAGGCTCAAACTATCCAAAG
*
865599 AATGCTTGAATCATTTCTTGAGTCAAATATGGTCT
61 AATGCTTGAATCATCTCTTGAGTCAAATATGGTCT
865634 AGAATTTCAC
Statistics
Matches: 91, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
95 1 0.01
96 26 0.29
102 64 0.70
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (97 bp):
AAAAAATAAAGGTACTAGGGAGACATCATATAGGCTTGAAAAGGCTCAAACTATCCAAAGAATGC
TTGAATCATCTCTTGAGTCAAATATGGTCTCC
Found at i:866327 original size:24 final size:25
Alignment explanation
Indices: 866280--866327 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
866270 AAGATTTATC
*
866280 ATAACATTCTTTTTGAAATAATAAA
1 ATAACATTCTTTGTGAAATAATAAA
*
866305 ATAACATTCTTTGT-AAATGATAA
1 ATAACATTCTTTGTGAAATAATAA
866328 TCATTGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (25 bp):
ATAACATTCTTTGTGAAATAATAAA
Found at i:866981 original size:16 final size:16
Alignment explanation
Indices: 866956--866986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
866946 AAAATGAATT
866956 TTTTCATTAAAATTAA
1 TTTTCATTAAAATTAA
*
866972 TTTTCTTTAAAATTA
1 TTTTCATTAAAATTA
866987 TTGTTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTCATTAAAATTAA
Found at i:869418 original size:107 final size:108
Alignment explanation
Indices: 869232--869458 Score: 260
Period size: 107 Copynumber: 2.1 Consensus size: 108
869222 CAGAAGTTAG
*
869232 AAAATAAAGAATGACCGGGACAACACCACAAGTCAAAATAATAAAGAATGACTAGGACAATACCA
1 AAAAT-AAGAATGACCGGGACAACACCACAAGTCAAAATAATAAAGAATGACTAGGACAACACCA
** *****
869297 CAAGTCACAAAATAAAGAATGATTGGGACAACACCACAAGTTGA
65 CAAGTCACAAAATAAAGAACAACCAAAACAACACCACAAGTTGA
* * * * **
869341 AAAATAAGAATGATCGGGATAGCACCATAAGTCAAAA-AATAATTAATGACCTA-GACAACACCA
1 AAAATAAGAATGACCGGGACAACACCACAAGTCAAAATAATAAAGAATGA-CTAGGACAACACCA
***
869404 CAAGTTTGAAAATAAAGAACAACCAAAACAACACCACAAGTTGA
65 CAAGTCACAAAATAAAGAACAACCAAAACAACACCACAAGTTGA
869448 AAAATATAGAA
1 AAAATA-AGAA
869459 CGACTAGGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
107 59 0.60
108 35 0.35
109 5 0.05
ACGTcount: A:0.53, C:0.18, G:0.15, T:0.15
Consensus pattern (108 bp):
AAAATAAGAATGACCGGGACAACACCACAAGTCAAAATAATAAAGAATGACTAGGACAACACCAC
AAGTCACAAAATAAAGAACAACCAAAACAACACCACAAGTTGA
Found at i:869473 original size:36 final size:36
Alignment explanation
Indices: 869232--869475 Score: 192
Period size: 36 Copynumber: 6.8 Consensus size: 36
869222 CAGAAGTTAG
** **
869232 AAAATAAAGAATGACCGGGACAACACCACAAGTCAA
1 AAAATAAAGAATGACTAGGACAACACCACAAGTTGA
* *
869268 AATAATAAAGAATGACTAGGACAATACCACAAG-TCA
1 AA-AATAAAGAATGACTAGGACAACACCACAAGTTGA
* *
869304 CAAAATAAAGAATGATTGGGACAACACCACAAGTTGA
1 -AAAATAAAGAATGACTAGGACAACACCACAAGTTGA
* * * * **
869341 AAAAT-AAGAATGA-TCGGGATAGCACCATAAGTCAA
1 AAAATAAAGAATGACT-AGGACAACACCACAAGTTGA
**
869376 AAAATAATTAATGACCTA-GACAACACCACAAGTTTG-
1 AAAATAAAGAATGA-CTAGGACAACACCACAAG-TTGA
** * **
869412 AAAATAAAGAACAACCAAAACAACACCACAAGTTGA
1 AAAATAAAGAATGACTAGGACAACACCACAAGTTGA
* * *
869448 AAAATATAGAACGACTAGGATAACACCA
1 AAAATAAAGAATGACTAGGACAACACCA
869476 AGACAACACC
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
34 1 0.01
35 33 0.20
36 97 0.59
37 32 0.20
38 1 0.01
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (36 bp):
AAAATAAAGAATGACTAGGACAACACCACAAGTTGA
Found at i:869498 original size:47 final size:47
Alignment explanation
Indices: 869425--869522 Score: 151
Period size: 47 Copynumber: 2.1 Consensus size: 47
869415 ATAAAGAACA
* * * *
869425 ACCAAAACAACACCACAAGTTGAAAAATATAGAACGACTAGGATAAC
1 ACCAAAACAACACCACAAGTTAAAAAATAGAGAACAACTAAGATAAC
*
869472 ACCAAGACAACACCACAAGTTAAAAAATAGAGAACAACTAAGATAAC
1 ACCAAAACAACACCACAAGTTAAAAAATAGAGAACAACTAAGATAAC
869519 ACCA
1 ACCA
869523 TAAGTCAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.55, C:0.22, G:0.11, T:0.11
Consensus pattern (47 bp):
ACCAAAACAACACCACAAGTTAAAAAATAGAGAACAACTAAGATAAC
Found at i:869535 original size:83 final size:83
Alignment explanation
Indices: 869393--869558 Score: 208
Period size: 83 Copynumber: 2.0 Consensus size: 83
869383 TTAATGACCT
** * * *
869393 AGACAACACCACAAGTTTGAAAATAAAGAACAACCAAAACAACACCACAAGTTGAAAAATATAGA
1 AGACAACACCACAAGTTAAAAAATAAAGAACAACCAAAACAACACCACAAGTAGAAAAATAAAAA
869458 ACGACTAGGATAACACCA
66 ACGACTAGGATAACACCA
* * * * *
869476 AGACAACACCACAAGTTAAAAAATAGAGAACAACTAAGATAACACCATAAGTCAG-AAAATAAAA
1 AGACAACACCACAAGTTAAAAAATAAAGAACAACCAAAACAACACCACAAGT-AGAAAAATAAAA
* *
869540 AATGACTGGGATAACACCA
65 AACGACTAGGATAACACCA
869559 CAAGTAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
83 69 0.99
84 1 0.01
ACGTcount: A:0.55, C:0.20, G:0.13, T:0.13
Consensus pattern (83 bp):
AGACAACACCACAAGTTAAAAAATAAAGAACAACCAAAACAACACCACAAGTAGAAAAATAAAAA
ACGACTAGGATAACACCA
Found at i:870736 original size:121 final size:120
Alignment explanation
Indices: 870583--870800 Score: 303
Period size: 121 Copynumber: 1.8 Consensus size: 120
870573 TTTAAGCCAC
* * * *
870583 CCTTTCAGGTTTTTAGCTTAAACGATTATTCTTTTGGTTCAAATCACCATTTTTT-GGTTTTCAA
1 CCTTTCAAGTTTTTAGCCTAAACGATCATTCTTTTGGTTCAAACCACC-TTTTTTGGGTTTTCAA
*
870647 TCTAAACCGTCTCTTTTCTCTTTTATTTTTTTTTAGCTTAACTTTCATTTAAGTTGT
65 TCTAAACCATCT-TTTTCTCTTTTATTTTTTTTTAGCTTAACTTTCATTTAAGTTGT
* * **
870704 CCTTTCAAGTTTTTAGCCTAAATGATCATTCTTTTGGTTCAGACCGTCTTTTTTGGGTTTTCAAT
1 CCTTTCAAGTTTTTAGCCTAAACGATCATTCTTTTGGTTCAAACCACCTTTTTTGGGTTTTCAAT
* * *
870769 CTAAATCATCTTTTTTTGTTTTATTTTTTTTT
66 CTAAACCATCTTTTTCTCTTTTATTTTTTTTT
870801 TAAATTTCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
120 25 0.30
121 59 0.70
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.54
Consensus pattern (120 bp):
CCTTTCAAGTTTTTAGCCTAAACGATCATTCTTTTGGTTCAAACCACCTTTTTTGGGTTTTCAAT
CTAAACCATCTTTTTCTCTTTTATTTTTTTTTAGCTTAACTTTCATTTAAGTTGT
Found at i:870801 original size:121 final size:124
Alignment explanation
Indices: 870583--870922 Score: 352
Period size: 132 Copynumber: 2.7 Consensus size: 124
870573 TTTAAGCCAC
* * * * * **
870583 CCTTTCAGGTTTTTAGCTTAAACGATTATTCTTTTGGTTCAAATCACCATTTTTT-GGTTTTCAA
1 CCTTTCAAGTTTTTAGCTTAAATGATCATTCTTTTGGTTCAGACCGTC-TTTTTTGGGTTTTCAA
* *
870647 TCTAAACCGTCTCTTTTCTCTTTTATTTTTTTTT-A-GC-T-TA-A-CTTTCATTTAAGTTG
65 TCTAAACCATCT-TTTTTTCTTTTATTTTTTTTTAATGCTTCTACAGCTTTCA-TTAAGTTG
*
870703 TCCTTTCAAGTTTTTAGCCTAAATGATCATTCTTTTGGTTCAGACCGTCTTTTTTGGGTTTTCAA
1 -CCTTTCAAGTTTTTAGCTTAAATGATCATTCTTTTGGTTCAGACCGTCTTTTTTGGGTTTTCAA
* * *
870768 TCTAAATCATCTTTTTTTGTTTTATTTTTTTTTTAAATTTCTTTCTAGCTCAGCTTTCATTAAGT
65 TCTAAACCATCTTTTTTTCTTTTA-TTTTTTTTT-AA-TGC-TTCTA---CAGCTTTCATTAAGT
870833 TG
123 TG
* * * * *
870835 CCTTTTCGAGTTTTCAGCTTAAATGATCATTCTTTTGGTTTAGACTGTCCTTTTTGGGTTTTCAA
1 CC-TTTCAAGTTTTTAGCTTAAATGATCATTCTTTTGGTTCAGACCGTCTTTTTTGGGTTTTCAA
*
870900 TCTAAACCATCTTTTTTTTTTTT
65 TCTAAACCATCTTTTTTTCTTTT
870923 GAAGGATTTC
Statistics
Matches: 183, Mismatches: 21, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
120 16 0.09
121 68 0.37
123 1 0.01
125 1 0.01
127 1 0.01
128 2 0.01
131 2 0.01
132 86 0.47
133 6 0.03
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (124 bp):
CCTTTCAAGTTTTTAGCTTAAATGATCATTCTTTTGGTTCAGACCGTCTTTTTTGGGTTTTCAAT
CTAAACCATCTTTTTTTCTTTTATTTTTTTTTAATGCTTCTACAGCTTTCATTAAGTTG
Found at i:884756 original size:12 final size:10
Alignment explanation
Indices: 884704--884762 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
884694 TAGTTTGCTT
884704 GAAAAAAATAA
1 GAAAAAAA-AA
884715 GGAAAAAAAAA
1 -GAAAAAAAAA
884726 GAGAAAAAAAA
1 GA-AAAAAAAA
*
884737 GAAGAAAAAA
1 GAAAAAAAAA
* *
884747 CAATGAAAAAA
1 GAA-AAAAAAA
884758 GAAAA
1 GAAAA
884763 GGATTCGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 12 0.29
11 21 0.51
12 8 0.20
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:884757 original size:25 final size:25
Alignment explanation
Indices: 884705--884763 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
884695 AGTTTGCTTG
* *
884705 AAAAAAATAAGGAAAAAAAAAGAGA
1 AAAAAAAGAAGGAAAAAAAAAGAAA
*
884730 AAAAAAAGAA-GAAAAAACAATGAAA
1 AAAAAAAGAAGGAAAAAA-AAAGAAA
884755 AAAGAAAAG
1 AAA-AAAAG
884764 GATTCGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 7 0.24
25 17 0.59
26 5 0.17
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (25 bp):
AAAAAAAGAAGGAAAAAAAAAGAAA
Found at i:886713 original size:143 final size:143
Alignment explanation
Indices: 886148--886713 Score: 493
Period size: 144 Copynumber: 3.9 Consensus size: 143
886138 TTTCATCGTG
* * * * *
886148 CCCTAAAAA-AGTAAAATTACCAAAATACCCTTTTAGGGGGTATTTTTGTAAATTGACCTTCCCA
1 CCCTAAAAAGAGTAAAATTACCAAAATACCCTTATA-GGGGTATTTTCGTAATTTGACTTTTCCA
* ** * *
886212 AGCTT-GGATTCTTGTGAAA-TGTTTCAAATCTTAATTTTATAATATTTCATGATTTTTAGTGCA
65 AGCTTAGAATT-TCATAAAACT-TTTCAAATCTTAATTTCATAATATTTCATGATTTTTAGTGC-
* *
886275 TTTAAATTGCAAT-AGTA
127 TTCAAAAT-CAATGAGTA
* * * * *
886292 CCCCAATAAGAGTAAAATTACCAAAATACCCTTATATGGGTATTTTCATAATTTGACTTTTTCAA
1 CCCTAAAAAGAGTAAAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGACTTTTCCAA
* * * * *
886357 ACTTAGATTTTCA-AGAAACTTTTCAGATTTTAATTTCATAATATTTCATGATTTTTAGTGAGTT
66 GCTTAGAATTTCATA-AAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTAGTG-CTT
*
886421 CAAAACCACA-GTAGTA
129 CAAAATCA-ATG-AGTA
** *** * * * * * * *
886437 CGATGGGAAGGGAAAAACTACCAAAATACTCC-TATAGGGGTATTTTTGTAATTTGGC-TCTCCG
1 CCCTAAAAAGAGTAAAATTACCAAAATAC-CCTTATAGGGGTATTTTCGTAATTTGACTTTTCCA
* * * * * *
886500 AGTTTAGAATTTTACAAAACTTTTCAAATCTTAATTTCATAATATTTCATAATTTTTGGTGCATC
65 AGCTTAGAATTTCATAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTAGTGCTTC
* *
886565 GAAATCATTGCAGTA
130 AAAATCAATG-AGTA
* * * *
886580 CCCTAAAAAGTGTGAAATTACCAAAATACTCTTATAGGGGTATTTTCGTAATTTGACTTTTTCAA
1 CCCTAAAAAGAGTAAAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGACTTTTCCAA
* * * * * *
886645 GCTTGGAATTTCATAAAATTTTTCAGATCTTAATTCCATAGTATTTCATGATTTTT-GTGCTTTA
66 GCTTAGAATTTCATAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTAGTGCTTCA
886709 AAATC
131 AAATC
886714 CCAAAAATGA
Statistics
Matches: 329, Mismatches: 80, Indels: 27
0.75 0.18 0.06
Matches are distributed among these distances:
142 1 0.00
143 67 0.20
144 184 0.56
145 75 0.23
146 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (143 bp):
CCCTAAAAAGAGTAAAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGACTTTTCCAA
GCTTAGAATTTCATAAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTAGTGCTTCA
AAATCAATGAGTA
Found at i:893255 original size:9 final size:9
Alignment explanation
Indices: 893233--893324 Score: 53
Period size: 9 Copynumber: 10.2 Consensus size: 9
893223 CCACTCAGTG
*
893233 AAAAAAGGA
1 AAAAAAGAA
*
893242 GAAAAAGAA
1 AAAAAAGAA
*
893251 AAAAAA-TA
1 AAAAAAGAA
*
893259 AAAAAA-TA
1 AAAAAAGAA
*
893267 AAAGAAGAA
1 AAAAAAGAA
*
893276 AAAAATGAA
1 AAAAAAGAA
* *
893285 ATGAAATGAA
1 A-AAAAAGAA
**
893295 AGGAAAGAA
1 AAAAAAGAA
893304 AATAAAAGAA
1 AA-AAAAGAA
*
893314 GAAAAAGAA
1 AAAAAAGAA
893323 AA
1 AA
893325 GAAATGAATG
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
8 14 0.22
9 36 0.55
10 15 0.23
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:894299 original size:63 final size:63
Alignment explanation
Indices: 894200--894326 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
894190 AGCCTTCCTT
* * *
894200 GAAATATTCCTATCAGTGGAAATTTTGAATTATCAATCATCCCA-TCCATAAATATTCCAAATA
1 GAAATATGCCTATCAGTGCAAAATTTGAATTATCAATCAT-CCATTCCATAAATATTCCAAATA
*
894263 GAAATATGCCTATCAGTGCAAAATTTGAATTATCAATCATCCATTCCATAAATATTCGAAATA
1 GAAATATGCCTATCAGTGCAAAATTTGAATTATCAATCATCCATTCCATAAATATTCCAAATA
894326 G
1 G
894327 TAATCATCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 3 0.05
63 56 0.95
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (63 bp):
GAAATATGCCTATCAGTGCAAAATTTGAATTATCAATCATCCATTCCATAAATATTCCAAATA
Found at i:894750 original size:42 final size:42
Alignment explanation
Indices: 894673--894793 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 42
894663 AGAGAGCCTA
* * *
894673 TGCATTTGCATAATG-AAAAAAACATTTGCAATTGCATCCCT
1 TGCATTTGCATCATGAAAAAAAAAATTTGCATTTGCATCCCT
* *
894714 TGTATTTGCATCATGAAAAAAAAAATTTGCATTTGCATCGCT
1 TGCATTTGCATCATGAAAAAAAAAATTTGCATTTGCATCCCT
**
894756 TGCATTTGCATCACAAAAAAAAATAACATTTGCATTTG
1 TGCATTTGCATCA-TGAAAAAAA-AA-ATTTGCATTTG
894794 TATTCAAATC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 13 0.19
42 35 0.51
43 7 0.10
44 2 0.03
45 11 0.16
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (42 bp):
TGCATTTGCATCATGAAAAAAAAAATTTGCATTTGCATCCCT
Found at i:895067 original size:19 final size:21
Alignment explanation
Indices: 895029--895069 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
895019 CATTCACATT
895029 GACATTTGTATTCGCATAATTA
1 GACATTTGTATTC-CATAATTA
895051 GACATTTGTA-T-CATAATTA
1 GACATTTGTATTCCATAATTA
895070 TGTTTGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
GACATTTGTATTCCATAATTA
Found at i:895350 original size:16 final size:16
Alignment explanation
Indices: 895329--895361 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
895319 AGCTGGCCTC
895329 CGATGAAATATTAAGT
1 CGATGAAATATTAAGT
895345 CGATGAAATATTAAGT
1 CGATGAAATATTAAGT
895361 C
1 C
895362 CAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (16 bp):
CGATGAAATATTAAGT
Found at i:895501 original size:67 final size:67
Alignment explanation
Indices: 895371--895599 Score: 230
Period size: 67 Copynumber: 3.4 Consensus size: 67
895361 CCAAATTAAT
* * * * * *
895371 TGGCTTCTAATGAAATATTAAGCCTAGA-TTAGCTGGCTTTCAAAGAAAGATTTCAGTCTAGATT
1 TGGCCTCTGATGAAATATTAAGCCCA-ATTTAGCTGGCCTTCAAAGAAAGATTTAAGCCTAGATT
895435 AGC
65 AGC
* * * * *
895438 TAGCCACTGATGAAATATTAAGCCCAATTTAGCTGGCCTTCAAAGAAAGGTTTAAACCCAGATTA
1 TGGCCTCTGATGAAATATTAAGCCCAATTTAGCTGGCCTTCAAAGAAAGATTTAAGCCTAGATTA
*
895503 GT
66 GC
** * * * * *
895505 TGGCCTCAAAT-AAATATTAAG-CCTATATTAGTTGGCCTTTAAAGAAAAATTTAAGCTTAGATT
1 TGGCCTCTGATGAAATATTAAGCCCAAT-TTAGCTGGCCTTCAAAGAAAGATTTAAGCCTAGATT
*
895568 AAC
65 AGC
895571 TGGCCCTCTGATGAAATATTAAGCCCAAT
1 TGG-CCTCTGATGAAATATTAAGCCCAAT
895600 GCATTTGCAT
Statistics
Matches: 128, Mismatches: 29, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
65 4 0.03
66 44 0.34
67 66 0.52
68 10 0.08
69 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (67 bp):
TGGCCTCTGATGAAATATTAAGCCCAATTTAGCTGGCCTTCAAAGAAAGATTTAAGCCTAGATTA
GC
Found at i:895886 original size:18 final size:19
Alignment explanation
Indices: 895860--895912 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
895850 TTGCATTAAG
*
895860 CATTCACATTTGCATTCT-
1 CATTGACATTTGCATTCTA
895878 CATTGACATTTGCATT-TA
1 CATTGACATTTGCATTCTA
*
895896 TATTGACATTTGCATTC
1 CATTGACATTTGCATTC
895913 GTATCATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (19 bp):
CATTGACATTTGCATTCTA
Found at i:896489 original size:35 final size:35
Alignment explanation
Indices: 896450--896693 Score: 204
Period size: 35 Copynumber: 7.0 Consensus size: 35
896440 TCTTTGATTT
* *
896450 ATGGTTTAATCCAGGTCATTTTCATTTTCTGGCTC
1 ATGGTTTAATCCCGGTCATTTTCATTTTCTGACTC
** * *
896485 ATGGTTTAATCCTAGTCATTTTTATCTTT-TGATTC
1 ATGGTTTAATCCCGGTCATTTTCAT-TTTCTGACTC
* *
896520 ACGGTTTAATCCCGGTCGTTTTCATCTTT-TGACTC
1 ATGGTTTAATCCCGGTCATTTTCAT-TTTCTGACTC
* * ** * * * *
896555 GTAGTTTAATCTTGATTATTTTCATTCTCTAACTC
1 ATGGTTTAATCCCGGTCATTTTCATTTTCTGACTC
** * * *
896590 ATGGTTTAATCTTGGTCATTTTTATTTTTTGACTT
1 ATGGTTTAATCCCGGTCATTTTCATTTTCTGACTC
* * * *
896625 GTGGTTTAATCCCGATCATTTTCATCTTCTGATTC
1 ATGGTTTAATCCCGGTCATTTTCATTTTCTGACTC
* * *
896660 GTGGTTTAATCCCGATCATTTTCATTTTGTGACT
1 ATGGTTTAATCCCGGTCATTTTCATTTTCTGACT
896694 TGTTTTTATT
Statistics
Matches: 165, Mismatches: 42, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
34 2 0.01
35 160 0.97
36 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (35 bp):
ATGGTTTAATCCCGGTCATTTTCATTTTCTGACTC
Found at i:896517 original size:70 final size:70
Alignment explanation
Indices: 896435--896693 Score: 249
Period size: 70 Copynumber: 3.7 Consensus size: 70
896425 CTTTGTCACA
* * * *
896435 TTCATTCTT-TGATTTATGGTTTAATCCAGGTCATTTTCATTTTCTGGCTCATGGTTTAATCCTA
1 TTCA-TCTTCTGATTCATGGTTTAATCCCGGTCATTTTCATTTT-TGACTCGTGGTTTAATCCTA
896499 G-TCATT
64 GATCATT
* * * * * *
896505 TTTATCTTTTGATTCACGGTTTAATCCCGGTCGTTTTCATCTTTTGACTCGTAGTTTAAT-CTTG
1 TTCATCTTCTGATTCATGGTTTAATCCCGGTCATTTTCAT-TTTTGACTCGTGGTTTAATCCTAG
*
896569 ATTATT
65 ATCATT
* * ** * * *
896575 TTCAT-TCTCTAACTCATGGTTTAATCTTGGTCATTTTTATTTTTTGACTTGTGGTTTAATCC-C
1 TTCATCT-TCTGATTCATGGTTTAATCCCGGTCATTTTCA-TTTTTGACTCGTGGTTTAATCCTA
896638 GATCATT
64 GATCATT
* *
896645 TTCATCTTCTGATTCGTGGTTTAATCCCGATCATTTTCATTTTGTGACT
1 TTCATCTTCTGATTCATGGTTTAATCCCGGTCATTTTCATTTT-TGACT
896694 TGTTTTTATT
Statistics
Matches: 151, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
69 12 0.08
70 133 0.88
71 6 0.04
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.51
Consensus pattern (70 bp):
TTCATCTTCTGATTCATGGTTTAATCCCGGTCATTTTCATTTTTGACTCGTGGTTTAATCCTAGA
TCATT
Found at i:896579 original size:105 final size:105
Alignment explanation
Indices: 896453--896687 Score: 292
Period size: 105 Copynumber: 2.2 Consensus size: 105
896443 TTGATTTATG
* * **
896453 GTTTAATCCAGGTCATTTTCATTTTCTGGCTCATGGTTTAATCCTAGTCATTTTTATCTTTTGA-
1 GTTTAATCCCGATCATTTTCATTTTCTAACTCATGGTTTAATCCTAGTCATTTTTATCTTTTGAC
* * *
896517 TTCACGGTTTAATCCCGGTCGTTTTCATCTTTTGACTCGTA
66 TT-ACGGTTTAATCCCGATCATTTTCATCTTCTGACTCGTA
** * * * * *
896558 GTTTAATCTTGATTATTTTCATTCTCTAACTCATGGTTTAATCTTGGTCATTTTTATTTTTTGAC
1 GTTTAATCCCGATCATTTTCATTTTCTAACTCATGGTTTAATCCTAGTCATTTTTATCTTTTGAC
** * *
896623 TTGTGGTTTAATCCCGATCATTTTCATCTTCTGATTCGTG
66 TTACGGTTTAATCCCGATCATTTTCATCTTCTGACTCGTA
896663 GTTTAATCCCGATCATTTTCATTTT
1 GTTTAATCCCGATCATTTTCATTTT
896688 GTGACTTGTT
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 106 0.98
106 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (105 bp):
GTTTAATCCCGATCATTTTCATTTTCTAACTCATGGTTTAATCCTAGTCATTTTTATCTTTTGAC
TTACGGTTTAATCCCGATCATTTTCATCTTCTGACTCGTA
Found at i:896709 original size:88 final size:88
Alignment explanation
Indices: 896608--896781 Score: 215
Period size: 88 Copynumber: 2.0 Consensus size: 88
896598 ATCTTGGTCA
** * * * *
896608 TTTTTATTTTTTGACTTGTGGTTTAATCCCGATCATTTTCA-TCTTCTGATTCGTGGTTTAATCC
1 TTTTTATTTTTTGACTCATGATTTAATCCCGATCATTTTCATTC-TCTGACTCATGATTTAATCC
896672 CGATCATTTTCATTTTGTGACTTG
65 CGATCATTTTCATTTTGTGACTTG
** * **
896696 TTTTTATTTTTTGACTCATGATTTAATCTTGATCATTTTTATTCTCTGACTCATGATTTAATCTT
1 TTTTTATTTTTTGACTCATGATTTAATCCCGATCATTTTCATTCTCTGACTCATGATTTAATCCC
* *
896761 TATCATTTTCATTTTTTGACT
66 GATCATTTTCATTTTGTGACT
896782 CATGGTTTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 70 0.97
89 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (88 bp):
TTTTTATTTTTTGACTCATGATTTAATCCCGATCATTTTCATTCTCTGACTCATGATTTAATCCC
GATCATTTTCATTTTGTGACTTG
Found at i:896727 original size:18 final size:18
Alignment explanation
Indices: 896706--896760 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
896696 TTTTTATTTT
896706 TTGACTCATGATTTAATC
1 TTGACTCATGATTTAATC
* *
896724 TTGA-TCAT-TTTTATTC
1 TTGACTCATGATTTAATC
896740 TCTGACTCATGATTTAATC
1 T-TGACTCATGATTTAATC
896759 TT
1 TT
896761 TATCATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 9 0.30
19 7 0.23
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (18 bp):
TTGACTCATGATTTAATC
Found at i:896746 original size:35 final size:35
Alignment explanation
Indices: 896707--897043 Score: 186
Period size: 35 Copynumber: 9.5 Consensus size: 35
896697 TTTTATTTTT
* *
896707 TGACTCATGATTTAATCTTGATCATTTTTATTCTC
1 TGACTCATGGTTTAATCTTGATCATTTTCATTCTC
* * * *
896742 TGACTCATGATTTAATCTTTATCATTTTCATTTTT
1 TGACTCATGGTTTAATCTTGATCATTTTCATTCTC
*
896777 TGACTCATGGTTTAATCTTGGTTGTCATTTT--TTCTC
1 TGACTCATGGTTTAATCTT-G--ATCATTTTCATTCTC
* * ** ** * *
896813 TAACTCATGATTTAATCCCGATTGTTTTCATTTTT
1 TGACTCATGGTTTAATCTTGATCATTTTCATTCTC
** * *
896848 TGACTTGTGGTTTAATCTCGATCATCATTT-TTTC-C
1 TGACTCATGGTTTAATCTTGATCAT--TTTCATTCTC
* * ** * *
896883 TTGACTCGTGGTATAATCCCGATCATTTTCATTTTT
1 -TGACTCATGGTTTAATCTTGATCATTTTCATTCTC
* *
896919 TGACTCATGATTTAATCTCAATTG-TCATTTT--TTTTC
1 TGACTCATGGTTTAA--TC--TTGATCATTTTCATTCTC
** **
896955 TGACTCATGGTTTAATCTCAATTGTTTTCA-TCTTC
1 TGACTCATGGTTTAATCTTGATCATTTTCATTC-TC
* * **
896990 TAACTTATGGTTTAATCTTGATTGTTTTCATTCTC
1 TGACTCATGGTTTAATCTTGATCATTTTCATTCTC
* *
897025 TGACTCATGGCTTCATCTT
1 TGACTCATGGTTTAATCTT
897044 CTGACCTGTG
Statistics
Matches: 229, Mismatches: 54, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
32 1 0.00
33 10 0.04
34 6 0.03
35 130 0.57
36 62 0.27
37 5 0.02
38 14 0.06
39 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (35 bp):
TGACTCATGGTTTAATCTTGATCATTTTCATTCTC
Found at i:896827 original size:71 final size:71
Alignment explanation
Indices: 896696--897033 Score: 319
Period size: 71 Copynumber: 4.8 Consensus size: 71
896686 TTGTGACTTG
* *
896696 TTTTTATTTTTTGACTCATGATTTAATCTTGA---TCATTTTTATTCTCTGACTCATGATTTAAT
1 TTTTCATTTTTTGACTCATGGTTTAATCTTGATTGTCA-TTTT-TTCTCTGACTCATGATTTAAT
***
896758 CTTTATCA
64 CCCGATCA
* *
896766 TTTTCATTTTTTGACTCATGGTTTAATCTTGGTTGTCATTTTTTCTCTAACTCATGATTTAATCC
1 TTTTCATTTTTTGACTCATGGTTTAATCTTGATTGTCATTTTTTCTCTGACTCATGATTTAATCC
**
896831 CGATTG
66 CGATCA
** * ** * * *
896837 TTTTCATTTTTTGACTTGTGGTTTAATCTCGATCATCATTTTTTC-CTTGACTCGTGGTATAATC
1 TTTTCATTTTTTGACTCATGGTTTAATCTTGATTGTCATTTTTTCTC-TGACTCATGATTTAATC
896901 CCGATCA
65 CCGATCA
* ** * * *
896908 TTTTCATTTTTTGACTCATGATTTAATCTCAATTGTCATTTTTTTTCTGACTCATGGTTTAATCT
1 TTTTCATTTTTTGACTCATGGTTTAATCTTGATTGTCATTTTTTCTCTGACTCATGATTTAATCC
* **
896973 CAATTG
66 CGATCA
* * * * *
896979 TTTTCATCTTCTAACTTATGGTTTAATCTTGATTGT--TTTCATTCTCTGACTCATG
1 TTTTCATTTTTTGACTCATGGTTTAATCTTGATTGTCATTT-TTTCTCTGACTCATG
897034 GCTTCATCTT
Statistics
Matches: 219, Mismatches: 43, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
69 3 0.01
70 43 0.20
71 165 0.75
72 5 0.02
73 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (71 bp):
TTTTCATTTTTTGACTCATGGTTTAATCTTGATTGTCATTTTTTCTCTGACTCATGATTTAATCC
CGATCA
Found at i:896948 original size:142 final size:141
Alignment explanation
Indices: 896693--897033 Score: 398
Period size: 142 Copynumber: 2.4 Consensus size: 141
896683 ATTTTGTGAC
* * * * *
896693 TTGTTTTTATTTTTTGACTCATGATTTAATCTTGATCATTTTTATTCTCTGACTCATGATTTAAT
1 TTGTTTTCATTTTTTGACTTATGGTTTAATCTCGATCATTTTTATTCTCTGACTCATGATATAAT
*** * ***
896758 CTTTATCATTTTCATTTTTTGACTCATGGTTTAATCTTGGTTGTCATTTTTTCTCTAACTCATGA
66 CCCGATCATTTTCATTTTTTGACTCATGATTTAATCTCAATTGTCATTTTTTCTCTAACTCATGA
*
896823 TTTAATCCCGA
131 TTTAATCCCAA
* * *
896834 TTGTTTTCATTTTTTGACTTGTGGTTTAATCTCGATCATCATTTT-TTC-CTTGACTCGTGGTAT
1 TTGTTTTCATTTTTTGACTTATGGTTTAATCTCGATCAT--TTTTATTCTC-TGACTCATGATAT
* *
896897 AATCCCGATCATTTTCATTTTTTGACTCATGATTTAATCTCAATTGTCATTTTTTTTCTGACTCA
63 AATCCCGATCATTTTCATTTTTTGACTCATGATTTAATCTCAATTGTCATTTTTTCTCTAACTCA
* *
896962 TGGTTTAATCTCAA
128 TGATTTAATCCCAA
* * * * ** *
896976 TTGTTTTCATCTTCTAACTTATGGTTTAATCTTGATTGTTTTCATTCTCTGACTCATG
1 TTGTTTTCATTTTTTGACTTATGGTTTAATCTCGATCATTTTTATTCTCTGACTCATG
897034 GCTTCATCTT
Statistics
Matches: 166, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
140 3 0.02
141 46 0.28
142 113 0.68
143 4 0.02
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (141 bp):
TTGTTTTCATTTTTTGACTTATGGTTTAATCTCGATCATTTTTATTCTCTGACTCATGATATAAT
CCCGATCATTTTCATTTTTTGACTCATGATTTAATCTCAATTGTCATTTTTTCTCTAACTCATGA
TTTAATCCCAA
Found at i:897073 original size:55 final size:55
Alignment explanation
Indices: 896981--897089 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
896971 CTCAATTGTT
* ** *
896981 TTCATCTTCTAACTTATGGTTTAATCTTGATTGTTTTCATTCTCTGACTCATGGC
1 TTCATCTTCTAACCTATGGTTTAATCTCAATTATTTTCATTCTCTGACTCATGGC
* * *
897036 TTCATCTTCTGACCTGTGGTTTAATCTCAATTATTTTCATTCTCTGGCTCATGG
1 TTCATCTTCTAACCTATGGTTTAATCTCAATTATTTTCATTCTCTGACTCATGG
897090 TTTAATCCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (55 bp):
TTCATCTTCTAACCTATGGTTTAATCTCAATTATTTTCATTCTCTGACTCATGGC
Found at i:897107 original size:35 final size:35
Alignment explanation
Indices: 897068--899389 Score: 673
Period size: 35 Copynumber: 66.3 Consensus size: 35
897058 AATCTCAATT
*
897068 ATTTTCATTCTCTGGCTCATGGTTTAATCCTGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * ** * *
897103 ATTTTTATTTTCTAACTTGTGGTTTAAT-CTCAGCC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * *
897138 A-TTTCA-TCTTCTAATTTATGGTTTAATCTTGATC
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCTGATC
* * * * * * *
897172 GTTTTCATTTTTTGACTCATAGTTTAATGCTGGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * * * **
897207 GTTTTTATTTTTTGACTCGTTATTTAAT-CTCGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * * *
897242 GTTTTTATTCTCTGACTCATGGCTTATTCCTAATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * *
897277 GATTTT-ATTTTCTGACTCGTAGTCTAATCCCT-ATTGTC
1 -ATTTTCATTCTCTGACTCATGGTTTAAT-CCTGA---TC
* * * *
897315 ATTTT--TTCTCTAAATCATGGTTTAAT-CTCAAC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * *
897347 TGTTTTCATTTTTTGACTTATGGTTTAAT-CTCGATC
1 -ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * **
897383 GTTTTCA-TCTTCTAACTTATGGTTTAATCCCAATC
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCTGATC
* * **
897418 GTTTTGATTCTCTGACTCATGGTTTAATCCCAATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* ** *
897453 ATTTTCATT-TTTGACTTGTGGTTTAATCCT-AGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * * * * * *
897487 GTTTTTA-TCTTTATATTTATGATTTAATCCCGATC
1 ATTTTCATTCTCT-GACTCATGGTTTAATCCTGATC
* * *
897522 ATTTTCATTTTTTGAC-CAGTGGTTTAATCCCGATC
1 ATTTTCATTCTCTGACTCA-TGGTTTAATCCTGATC
* * *
897557 GTTTTTATTTTCTGACTCATGGTTTAAT-CTCGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* ** *
897592 ATTTTTATTCTCTGACTTGTAGTTTAATCCTGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * * * *
897627 GTTTTCATTTTCTGACTCTTGGTTTAGTCATGGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * *
897662 ATCATTTC-TTCTTTGACTCAGGGTTTAATCC-CAGTC
1 AT--TTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* **
897698 ATTTTCA-TCTTCTGACCCATGGTTTAATCCCAATC
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCTGATC
*
897733 ATTTTCATTCTCTGACTCATGGTTTAAT-CTCAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * *
897768 ATTTTCATTTTTTGACTCAGGGTTTAAT-CTCAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
** * * * *
897803 ATTTTCA-TCTTCCAATTCATGGTTTAATCTTGGTT
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCTGATC
* * * * * * *
897838 TTTTTCATTTTCTAACTTATAGTTTAATCC-CAGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * ** * *
897873 GTTTTCATTTTATGACTTGTGATTTAATCTTG-TC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * *
897907 ATTTTTATTTTCTGACTCATAGTTTAATCC-CAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * ** *
897942 ATTTTCATTTTTTGACTTGTGGTTTAATCTTGGTCATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-G--ATC
* *
897980 ATTTT--TTCTTTGACTCATGGTTTAAT-CTCGTTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * * **
898013 GTTTTCATTTTTTGACTCGTGGTTTAATCCCAATCGCC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGAT---C
* *
898051 ATTTT--TTCTCTGACTCATGATTTAAT-CTCAATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * ** *
898084 GTTTTCA-TCTTCTAAGTTGTGGTTTAAT-CTCGTTC
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCT-GATC
* * *
898119 ATTTTCATTCTCTTACTTATGGTTTAAT-ATCGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * * *
898154 ATTTTCATTTTTTGACTCGTGGTTTAAT-CTCAGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * * * *
898189 GTTTTTA-TCTTTTGATTCATGGTTTAATACTGGTC
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCTGATC
* ** *
898224 ATTTTCATTTTCAAACTCATGGTTTAATCTTGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
** * * *
898259 GCTTTCATTTTCTAACTCATGGTTTAAT-TTCGAT-
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * **
898293 AGTTTTTATTCTCTGATTTGTGGTTTAATCCTTG-T-
1 A-TTTTCATTCTCTGACTCATGGTTTAATCC-TGATC
* * * *
898328 -TGTTTCATTTTTTGACTCATGTTTTAATTCTGGTTATC
1 AT-TTTCATTCTCTGACTCATGGTTTAATCCT-G--ATC
* * *
898366 ATTTT--TTCCCTAACTCATGGTTTAAT-CTCAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * *
898399 GTTTTCA-TCTTTTGACTCATGGTATAAT-CTCGGTC
1 ATTTTCATTC-TCTGACTCATGGTTTAATCCT-GATC
* * * ** ** *
898434 AATTTT-ATTTTCTAATTTGTACTTTAATCCCGATC
1 -ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * *
898469 GTTTTTATTCTCTGACTCATGGTTTAATTCTGGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * * *
898504 ATTTTCATTTTTTAACTCATAGTTTAATCTTGGTCATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-G--ATC
* * *
898542 ATTTT--TTCTCTGACT--T-G--TGATCCTGGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * *
898570 ATTTTCATTTTCTGACTTATGGTTTAAT-CTCGGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * *
898605 ATTATT-TTTCCCTGACTCATGGTTTAATCTTGGTC
1 ATT-TTCATTCTCTGACTCATGGTTTAATCCTGATC
* * **
898640 GTTTTCATTTTCTGACTTGTGGTTTAAT-CTCGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCT-GATC
*
898675 ATTTTCATTCTTTGACTCATGGTTTAATCCT-AGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * * * * * *
898710 ATTTTAATTTTCTAACTCGTGGTTTAAACTTGGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * * *
898745 ATTTTCA-TCTTTTGATTCGTAGTTTAATCCCT-ATT
1 ATTTTCATTC-TCTGACTCATGGTTTAAT-CCTGATC
* * * * * *
898780 ATTTTTATTTTTTGACTCATGGTTTAATCTTGGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * * * **
898815 GTTTTCATTTTTTAACTCGTGGTTTAATATTGTCATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTG--ATC
*
898852 ATTTT--TTCTCTGACTCATGGTTTAATCC-CAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * ** *
898885 ATTTTTA-TCTTTTGACTTGTGGTTTAATTCC-AATC
1 ATTTTCATTC-TCTGACTCATGGTTTAA-TCCTGATC
* ** *
898920 ATTTTCATTCTCTAACTTGTGGTTTAATTCC-AATC
1 ATTTTCATTCTCTGACTCATGGTTTAA-TCCTGATC
* * * ** *
898955 ATTTTCATTTTTTGACTCGTAATTTAATCC-CAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * * * *
898990 ATTTTTAGTT-TCTAACTCGA-AGTTTAATCTTGGT-
1 ATTTTCA-TTCTCTGACTC-ATGGTTTAATCCTGATC
* * * ** * *
899024 AGTTTTCA-TCTTTTAATTCATCATTTAATCC-CATTT
1 A-TTTTCATTC-TCTGACTCATGGTTTAATCCTGA-TC
* * * *
899060 GTTTTCATTTTTTGACTCATGGTTTAATCCCGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* *
899095 GATAATTT--TTCTCTAACTCATGATTTAAT-CTCGATC
1 -AT--TTTCATTCTCTGACTCATGGTTTAATCCT-GATC
* * * *
899131 ATTTTCATTTTCTGACTCTTGTTTTAATCCTGGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * **
899166 ATTTTCATTGTTTGACCCATGGTTTAATCCCAATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
* * * * * * * * *
899201 GTTTTCATTTTCTAACTCGTGGCTCAATTC-AAGTT
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * *
899236 GTTTTTATTCTCTGACTCAAGGTTTAATCCT-AGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* ** *
899271 ATTTTCATT-TCTTAACTTGTGGTTTAATCTCATTCATC
1 ATTTTCATTCTC-TGACTCATGGTTTAATC-C--TGATC
* * * *
899309 ATTTT-TTTCTCTGACTCGTGATTTAATCC-CAGTC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGA-TC
* * *
899343 ATTTTCATTTTCTGACTCGTGGTTTAATCCCGATC
1 ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
*
899378 ATTTTTATTCTC
1 ATTTTCATTCTC
899390 CAACTCGCGG
Statistics
Matches: 1688, Mismatches: 456, Indels: 286
0.69 0.19 0.12
Matches are distributed among these distances:
28 6 0.00
30 10 0.01
31 5 0.00
32 4 0.00
33 41 0.02
34 151 0.09
35 1214 0.72
36 185 0.11
37 32 0.02
38 37 0.02
39 3 0.00
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.50
Consensus pattern (35 bp):
ATTTTCATTCTCTGACTCATGGTTTAATCCTGATC
Found at i:897410 original size:70 final size:70
Alignment explanation
Indices: 897052--899371 Score: 832
Period size: 70 Copynumber: 33.1 Consensus size: 70
897042 TTCTGACCTG
* * * *
897052 TGGTTTAATCTCAATTATTTTCATTCTCTGGCTCATGGTTTAATC-CTGATCATTTTTATTTTCT
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTC-GATCATTTTCATTTTCT
* **
897116 AACTTG
65 GACTCA
**** * * * * * * *
897122 TGGTTTAATCTC-AGCCATTTCATCTTCTAATTTATGGTTTAATCTTGATCGTTTTCATTTTTTG
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCTG
897186 ACTCA
66 ACTCA
* ** * * * ** * * *
897191 TAGTTTAATGCT-GGTTGTTTTTATTTTTTGACTCGTTATTTAATCTCGATCGTTTTTATTCTCT
1 TGGTTTAAT-CTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCT
897255 GACTCA
65 GACTCA
* * * * * * * *
897261 TGGCTTATTC-CTAATCGATTTT-ATTTTCTGACTCGTAGTCTAATCCCTATTGTCATTTT--TT
1 TGGTTTAATCTC-AATTG-TTTTCATTTTCTGACTCATGGTTTAATCTCGA---TCATTTTCATT
* * *
897322 CTCTAAATCA
61 TTCTGACTCA
* * * * * *
897332 TGGTTTAATCTCAACTGTTTTCATTTTTTGACTTATGGTTTAATCTCGATCGTTTTCATCTTCTA
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCTG
*
897397 ACTTA
66 ACTCA
* * * * * *
897402 TGGTTTAATCCCAATCGTTTTGATTCTCTGACTCATGGTTTAATCCCAATCATTTTCATTTT-TG
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCTG
**
897466 ACTTG
66 ACTCA
* * * * * * * *
897471 TGGTTTAATC-CTAGTTGTTTTTATCTTTAT-ATTTATGATTTAATCCCGATCATTTTCATTTTT
1 TGGTTTAATCTC-AATTGTTTTCAT-TTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTC
897534 TGAC-CA
64 TGACTCA
* * * * * *
897540 GTGGTTTAATCCCGATCGTTTTTATTTTCTGACTCATGGTTTAATCTCGATCATTTTTATTCTCT
1 -TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCT
**
897605 GACTTG
65 GACTCA
* * * * * *
897611 TAGTTTAATC-CTGATCGTTTTCATTTTCTGACTCTTGGTTTAGTCAT-GGTCATCATTTC-TTC
1 TGGTTTAATCTC-AATTGTTTTCATTTTCTGACTCATGGTTTAATC-TCGATCAT--TTTCATT-
897673 TT-TGACTCA
61 TTCTGACTCA
* * * ** * * * * *
897682 GGGTTTAATCCCAGTCATTTTCATCTTCTGACCCATGGTTTAATCCCAATCATTTTCATTCTCTG
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCTG
897747 ACTCA
66 ACTCA
* ** * * * *
897752 TGGTTTAATCTCAGTCATTTTCATTTTTTGACTCAGGGTTTAATCTC-AGTCATTTTCATCTTCC
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTCT
* *
897816 AATTCA
65 GACTCA
*** * * * * * ** *
897822 TGGTTTAATCTTGGTTTTTTTCATTTTCTAACTTATAGTTTAATC-CCAGTTGTTTTCATTTTAT
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTCT
**
897886 GACTTG
65 GACTCA
* ** ** * * * *
897892 TGATTTAATCT-TGTCATTTTTATTTTCTGACTCATAGTTTAATC-CCAGTCATTTTCATTTTTT
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTCT
**
897955 GACTTG
65 GACTCA
* ** * *
897961 TGGTTTAATCT---TGGTCATCATTTTTTCTTTGACTCATGGTTTAATCTCGTTCGTTTTCATTT
1 TGGTTTAATCTCAATTGTTTTCA--TTTTC--TGACTCATGGTTTAATCTCGATCATTTTCATTT
* *
898023 TTTGACTCG
62 TCTGACTCA
* * * * * * *
898032 TGGTTTAATCCCAATCGCCATTTT--TTCTCTGACTCATGATTTAATCTCAATCGTTTTCATCTT
1 TGGTTTAATCTCAATTG---TTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTT
* * **
898095 CTAAGTTG
63 CTGACTCA
* * * * * * *
898103 TGGTTTAATCTC-GTTCATTTTCATTCTCTTACTTATGGTTTAATATCGATCATTTTCATTTTTT
1 TGGTTTAATCTCAATT-GTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCT
*
898167 GACTCG
65 GACTCA
* * * *
898173 TGGTTTAATCTCAGTTGTTTTTATCTTT-TGATTCATGGTTTAATACT-GGTCATTTTCATTTTC
1 TGGTTTAATCTCAATTGTTTTCAT-TTTCTGACTCATGGTTTAAT-CTCGATCATTTTCATTTTC
**
898236 AAACTCA
64 TGACTCA
** * * * * * *
898243 TGGTTTAATCTTGATCGCTTTCATTTTCTAACTCATGGTTTAATTTCGAT-AGTTTTTATTCTCT
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCA-TTTTCATTTTCT
* **
898307 GATTTG
65 GACTCA
* * *
898313 TGGTTTAATC-C--TTGTTGTTTCATTTTTTGACTCATGTTTTAATTCTGGTTATCATTTT--TT
1 TGGTTTAATCTCAATTG-T-TTTCATTTTCTGACTCATGGTTTAA-TCTCG--ATCATTTTCATT
** *
898373 CCCTAACTCA
61 TTCTGACTCA
* * * *
898383 TGGTTTAATCTCAGTCGTTTTCATCTTT-TGACTCATGGTATAATCTCGGTCAATTTT-ATTTTC
1 TGGTTTAATCTCAATTGTTTTCAT-TTTCTGACTCATGGTTTAATCTCGATC-ATTTTCATTTTC
* * **
898446 TAATTTG
64 TGACTCA
** * * * * * * *
898453 TACTTTAATCCCGATCGTTTTTATTCTCTGACTCATGGTTTAAT-TCTGGTCATTTTCATTTTTT
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTC-GATCATTTTCATTTTCT
*
898517 AACTCA
65 GACTCA
* * ** * * * * *
898523 TAGTTTAATCT---TGGTCATCATTTT-T-TCTC-TGACTTGTGATC-CTGGTTATTTTCATTTT
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATG-GTT-TAATCTC-GATCATTTTCATTTT
*
898581 CTGACTTA
63 CTGACTCA
** ** * * * *
898589 TGGTTTAATCTCGGTCATTATT--TTTCCCTGACTCATGGTTTAATCTTGGTCGTTTTCATTTTC
1 TGGTTTAATCTCAATTGTT-TTCATTT-TCTGACTCATGGTTTAATCTCGATCATTTTCATTTTC
**
898652 TGACTTG
64 TGACTCA
* ** * *
898659 TGGTTTAATCTCGATCATTTTCATTCTT-TGACTCATGGTTTAATC-CTAGTCATTTTAATTTTC
1 TGGTTTAATCTCAATTGTTTTCATT-TTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTC
* *
898722 TAACTCG
64 TGACTCA
* *** * * * * * * * * *
898729 TGGTTTAAACTTGGTTATTTTCATCTTT-TGATTCGTAGTTTAATCCCTATTATTTTTATTTTTT
1 TGGTTTAATCTCAATTGTTTTCAT-TTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCT
898793 GACTCA
65 GACTCA
*** * * * * * *
898799 TGGTTTAATCTTGGTTGTTTTCATTTTTTAACTCGTGGTTTAATATTGTCATCATTTT--TTCTC
1 TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCG--ATCATTTTCATTTTC
898862 TGACTCA
64 TGACTCA
* * ** * ** * *
898869 TGGTTTAATCCCAGTCATTTTTATCTTT-TGACTTGTGGTTTAAT-TCCAATCATTTTCATTCTC
1 TGGTTTAATCTCAATTGTTTTCAT-TTTCTGACTCATGGTTTAATCT-CGATCATTTTCATTTTC
* **
898932 TAACTTG
64 TGACTCA
** * * ** * * *
898939 TGGTTTAAT-TCCAATCATTTTCATTTTTTGACTCGTAATTTAATC-CCAGTCATTTTTAGTTTC
1 TGGTTTAATCT-CAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTC
*
899002 TAACTCGA
64 TGACTC-A
* *** * * * ** * ** *
899010 -AGTTTAATCTTGGTAGTTTTCATCTTT-TAATTCATCATTTAATC-CCATTTGTTTTCATTTTT
1 TGGTTTAATCTCAATTGTTTTCAT-TTTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTC
899072 TGACTCA
64 TGACTCA
* * * * * *
899079 TGGTTTAATCCCGATCGATAATTT--TTCTCTAACTCATGATTTAATCTCGATCATTTTCATTTT
1 TGGTTTAATCTCAATTG-T--TTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTT
*
899142 CTGACTCT
63 CTGACTCA
* ** ** * * * *
899150 TGTTTTAATC-CTGGTCATTTTCATTGTT-TGACCCATGGTTTAATCCCAATCGTTTTCATTTTC
1 TGGTTTAATCTC-AATTGTTTTCATT-TTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTC
* *
899213 TAACTCG
64 TGACTCA
* * * * * *
899220 TGGCTCAAT-TCAAGTTGTTTTTATTCTCTGACTCAAGGTTTAATC-CTAGTCATTTTCA-TTTC
1 TGGTTTAATCTCAA-TTGTTTTCATTTTCTGACTCATGGTTTAATCTCGA-TCATTTTCATTTTC
* **
899282 TTAACTTG
64 -TGACTCA
* * * * *
899290 TGGTTTAATCTC-ATTCATCATTT-TTTTCTCTGACTCGTGATTTAATC-CCAGTCATTTTCATT
1 TGGTTTAATCTCAATT-GT--TTTCATTT-TCTGACTCATGGTTTAATCTCGA-TCATTTTCATT
*
899352 TTCTGACTCG
61 TTCTGACTCA
899362 TGGTTTAATC
1 TGGTTTAATC
899372 CCGATCATTT
Statistics
Matches: 1710, Mismatches: 421, Indels: 236
0.72 0.18 0.10
Matches are distributed among these distances:
64 2 0.00
65 5 0.00
66 35 0.02
67 14 0.01
68 27 0.02
69 240 0.14
70 1011 0.59
71 277 0.16
72 75 0.04
73 20 0.01
74 2 0.00
77 2 0.00
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.50
Consensus pattern (70 bp):
TGGTTTAATCTCAATTGTTTTCATTTTCTGACTCATGGTTTAATCTCGATCATTTTCATTTTCTG
ACTCA
Found at i:897458 original size:105 final size:105
Alignment explanation
Indices: 897052--899382 Score: 850
Period size: 105 Copynumber: 22.2 Consensus size: 105
897042 TTCTGACCTG
* * * ** * * * * *
897052 TGGTTTAATCTCAATTATTTTCATTCTCTGGCTCATGGTTTAATCCTGATCATTTTTATTTTCTA
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
** ** * * * * *
897117 ACTTGTGGTTTAATCTCAGCCA-TTTCATCTTCTAATTTA
66 ACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * * * * * * * ** * * *
897156 TGGTTTAATCTTGATCGTTTTCATTTTTTGACTCATAGTTTAATGCTGGTTGTTTTTATTTTTTG
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
* ** * * * * *
897221 ACTCGTTATTTAATCTCGATCGTTTTTATTCTCTGACTCA
66 ACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * * ** * * *
897261 TGGCTTATTC-CTAATCGATTTT-ATTTTCTGACTCGTAGTCTAATCCCTATTGTCATTTT--TT
1 TGGTTTAATCTC-GATC-ATTTTCATTTTCTAACTTATGGTTTAATCCCGA---TCATTTTCATT
* * * *
897322 CTCTAAATCATGGTTTAATCTCAA-CTGTTTTCATTTTTTGACTTA
61 CTCTGACTCATGGTTTAATCTCAATC-ATTTTCATTTTTTGACTCA
* * * * *
897367 TGGTTTAATCTCGATCGTTTTCATCTTCTAACTTATGGTTTAATCCCAATCGTTTTGATTCTCTG
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
* **
897432 ACTCATGGTTTAATCCCAATCATTTTCA-TTTTTGACTTG
66 ACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* ** * * * * * *
897471 TGGTTTAATC-CTAGTTGTTTTTATCTT-TATATTTATGATTTAATCCCGATCATTTTCATTTTT
1 TGGTTTAATCTCGA-TCATTTTCATTTTCTA-ACTTATGGTTTAATCCCGATCATTTTCATTCTC
* * * * *
897534 TGAC-CAGTGGTTTAATCCCGATCGTTTTTATTTTCTGACTCA
64 TGACTCA-TGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * * * * * *
897576 TGGTTTAATCTCGATCATTTTTATTCTCTGACTTGTAGTTTAATCCTGATCGTTTTCATTTTCTG
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
* * *
897641 ACTCTTGGTTTAGTCATGGTC-ATCA-TTTC-TTCTTTGACTCA
66 ACTCATGGTTTA---AT-CTCAATCATTTTCATTTTTTGACTCA
* * * * ** *
897682 GGGTTTAATC-CCAGTCATTTTCATCTTCTGACCCATGGTTTAATCCCAATCATTTTCATTCTCT
1 TGGTTTAATCTCGA-TCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCT
*
897746 GACTCATGGTTTAATCTCAGTCATTTTCATTTTTTGACTCA
65 GACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * ** * ** *
897787 GGGTTTAATCTC-AGTCATTTTCATCTTCCAA-TTCATGGTTTAATCTTGGTTTTTTTCATTTTC
1 TGGTTTAATCTCGA-TCATTTTCATTTTCTAACTT-ATGGTTTAATCCCGATCATTTTCATTCTC
* * * * * ** * **
897850 TAACTTATAGTTTAATCCCAGTTGTTTTCATTTTATGACTTG
64 TGACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * * * * * *
897892 TGATTTAATCTTG-TCATTTTTATTTTCTGACTCATAGTTTAATCCC-AGTCATTTTCATTTTTT
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGA-TCATTTTCATTCTCT
** *
897955 GACTTGTGGTTTAATCTTGGTC-ATCATTTT--TTCTTTGACTCA
65 GACTCATGGTTTAATC----TCAATCATTTTCATTTTTTGACTCA
* * * * ** *
897997 TGGTTTAATCTCGTTCGTTTTCATTTTTTGACTCGTGGTTTAATCCCAATCGCCATTTT--TTCT
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGAT---CATTTTCATTCT
* * * * * * **
898060 CTGACTCATGATTTAATCTCAATCGTTTTCATCTTCTAAGTTG
63 CTGACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * ** * *
898103 TGGTTTAATCTCGTTCATTTTCATTCTCTTACTTATGGTTTAATATCGATCATTTTCATTTTTTG
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
* * ** * * *
898168 ACTCGTGGTTTAATCTCAGTTGTTTTTATCTTTTGATTCA
66 ACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * ** ** *
898208 TGGTTTAATACT-GGTCATTTTCATTTTCAAACTCATGGTTTAATCTTGATCGCTTTCATTTTCT
1 TGGTTTAAT-CTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCT
* * * * * * * **
898272 AACTCATGGTTTAATTTCGAT-AGTTTTTATTCTCTGATTTG
65 GACTCATGGTTTAATCTCAATCA-TTTTCATTTTTTGACTCA
* * * * * **
898313 TGGTTTAATCCTTG-T--TGTTTCATTTTTTGACTCATGTTTTAATTCTGGTTATCATTTT--TT
1 TGGTTTAAT-CTCGATCAT-TTTCATTTTCTAACTTATGGTTTAA-TCCCG--ATCATTTTCATT
* * * * *
898373 CCCTAACTCATGGTTTAATCTCAGTCGTTTTCATCTTTTGACTCA
61 CTCTGACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * * ** * *
898418 TGGTATAATCTCGGTCAATTTT-ATTTTCTAATTTGTACTTTAATCCCGATCGTTTTTATTCTCT
1 TGGTTTAATCTCGATC-ATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCT
** *
898482 GACTCATGGTTTAAT-TCTGGTCATTTTCATTTTTTAACTCA
65 GACTCATGGTTTAATCTC-AATCATTTTCATTTTTTGACTCA
* * * * * * * * *
898523 TAGTTTAATCTTGGTCATCATTTT--TTCTCTGAC-T-T-G--TGATCCTGGTTATTTTCATTTT
1 TGGTTTAATC-TCG--ATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCT
* **
898581 CTGACTTATGGTTTAATCTCGGTCA--TT-ATTTTTCCCTGACTCA
63 CTGACTCATGGTTTAATCTCAATCATTTTCATTTTT---TGACTCA
* * * * * * *
898624 TGGTTTAATCTTGGTCGTTTTCATTTTCTGACTTGTGGTTTAATCTCGATCATTTTCATTCTTTG
1 TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
* * * * *
898689 ACTCATGGTTTAATC-CTAGTCATTTTAATTTTCTAACTCG
66 ACTCATGGTTTAATCTC-AATCATTTTCATTTTTTGACTCA
* * * * * * * * * * * *
898729 TGGTTTAAACTTGGTTATTTTCATCTTT-TGA-TTCGTAGTTTAATCCCTATTATTTTTATTTTT
1 TGGTTTAATCTCGATCATTTTCAT-TTTCTAACTT-ATGGTTTAATCCCGATCATTTTCATTCTC
*** ** * *
898792 TGACTCATGGTTTAATCTTGGTTGTTTTCATTTTTTAACTCG
64 TGACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * * * *
898834 TGGTTTAATATTGTCATCATTTT--TTCTCTGACTCATGGTTTAATCCC-AGTCATTTTTA-TCT
1 TGGTTTAATCTCG--ATCATTTTCATTTTCTAACTTATGGTTTAATCCCGA-TCATTTTCATTC-
* ** * * * **
898895 TTTGACTTGTGGTTTAAT-TCCAATCATTTTCATTCTCTAACTTG
62 TCTGACTCATGGTTTAATCT-CAATCATTTTCATTTTTTGACTCA
* * * ** ** *
898939 TGGTTTAAT-TCCAATCATTTTCATTTTTTGACTCGTAATTTAATCCC-AGTCATTTTTAGTT-T
1 TGGTTTAATCT-CGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGA-TCATTTTCA-TTCT
* * *** * * *
899001 CTAACTCGA-AGTTTAATCTTGGT-AGTTTTCATCTTTTAATTCA
63 CTGACTC-ATGGTTTAATCTCAATCA-TTTTCATTTTTTGACTCA
** * ** * * *
899044 TCATTTAATC-CCATTTGTTTTCATTTTTTGACTCATGGTTTAATCCCGATCGATAATTT--TTC
1 TGGTTTAATCTCGA-TCATTTTCATTTTCTAACTTATGGTTTAATCCCGATC-AT--TTTCATTC
* * * * *
899106 TCTAACTCATGATTTAATCTCGATCATTTTCATTTTCTGACTCT
62 TCTGACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
* * * ** * * *
899150 TGTTTTAATC-CTGGTCATTTTCATTGTT-TGACCCATGGTTTAATCCCAATCGTTTTCATTTTC
1 TGGTTTAATCTC-GATCATTTTCATT-TTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTC
* * * * ** * * *
899213 TAACTCGTGGCTCAAT-TCAAGTTGTTTTTATTCTCTGACTCA
64 TGACTCATGGTTTAATCTCAA-TCATTTTCATTTTTTGACTCA
* * * *
899255 AGGTTTAATC-CTAGTCATTTTCA-TTTCTTAACTTGTGGTTTAATCTCATTC-ATCATTTT-TT
1 TGGTTTAATCTCGA-TCATTTTCATTTTC-TAACTTATGGTTTAATC-C---CGATCATTTTCAT
* * * * * *
899316 TCTCTGACTCGTGATTTAATCCCAGTCATTTTCATTTTCTGACTCG
60 TCTCTGACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
*
899362 TGGTTTAATCCCGATCATTTT
1 TGGTTTAATCTCGATCATTTT
899383 TATTCTCCAA
Statistics
Matches: 1686, Mismatches: 421, Indels: 237
0.72 0.18 0.10
Matches are distributed among these distances:
98 12 0.01
99 2 0.00
100 10 0.01
101 52 0.03
102 5 0.00
103 47 0.03
104 249 0.15
105 844 0.50
106 323 0.19
107 101 0.06
108 33 0.02
109 8 0.00
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.50
Consensus pattern (105 bp):
TGGTTTAATCTCGATCATTTTCATTTTCTAACTTATGGTTTAATCCCGATCATTTTCATTCTCTG
ACTCATGGTTTAATCTCAATCATTTTCATTTTTTGACTCA
Found at i:898111 original size:386 final size:384
Alignment explanation
Indices: 897330--898427 Score: 970
Period size: 386 Copynumber: 2.8 Consensus size: 384
897320 TTCTCTAAAT
* * * * * * * *
897330 CATGGTTTAATCTCAA-CTGTTTTCATTTTTTGACTTATGGTTTAATCTCGATCGTTTTCATCTT
1 CATGGTTTAATCCCAATC-ATTTTCATTCTCTGACTCATGGTTTAATATCGATCATTTTCATTTT
* * ** * * * * ** * * ***
897394 CTAACTTATGGTTTAATCCCAATCGTTTTGAT-TCTCTGACTCATGGTTTAATCCCAATCATTTT
65 TTGACTCGTGGTTTAATCTCAGTCATTTTCATCT-TCCAATTCATGGTTTAATACTGGTCATTTT
* * * * **
897458 CATTTT-TGACTTGTGGTTTAATCCTAGTTGTTTTTATCTTTATATTTATGATTTAATCCCGATC
129 CATTTTCTAACTTATGGTTTAATCCTAGTTGTTTTCAT-TTTATACTTATGATTTAATCTTGATC
* * * *
897522 ATTTTCATTTTTTGAC-CAGTGGTTTAATCCCGATCGTTTTTATTTTCTGACTCATGGTTTAATC
193 ATTTTTATTTTCTGACTCA-TGGTTTAATCCCG-TC-TTTTCATTTTTTGACTCATGGTTTAATC
* * ** * * * *
897586 TCGATCAT--TTTTATTCTCTGACTTGTAGTTTAATC-CTGATCGTTTTCATTTTCTGACTCTTG
255 TTGGTCATCATTTT-TTCTCTGACTCATGGTTTAATCTCAG-TCGTTTTCATTTTTTGACTCATG
* *** * * * * *
897648 GTTTAGTCATGGTCATCATTTCTTCTTTGACTCAGGGTTTAATCCCAGTCATTTTCATCTTCTGA
318 GTTTAATCACAATCACCATTTCTTCTCTGACTCAGGATTTAATCCCAATCATTTTCATCTTCTAA
897713 CC
383 CC
*
897715 CATGGTTTAATCCCAATCATTTTCATTCTCTGACTCATGGTTTAATCTC-AGTCATTTTCATTTT
1 CATGGTTTAATCCCAATCATTTTCATTCTCTGACTCATGGTTTAATATCGA-TCATTTTCATTTT
**
897779 TTGACTCAG-GGTTTAATCTCAGTCATTTTCATCTTCCAATTCATGGTTTAAT-CTTGGTTTTTT
65 TTGACTC-GTGGTTTAATCTCAGTCATTTTCATCTTCCAATTCATGGTTTAATAC-TGGTCATTT
* * *
897842 TCATTTTCTAACTTATAGTTTAATCCCAGTTGTTTTCATTTTATGACTTGTGATTTAATCTTG-T
128 TCATTTTCTAACTTATGGTTTAATCCTAGTTGTTTTCATTTTAT-ACTTATGATTTAATCTTGAT
* **
897906 CATTTTTATTTTCTGACTCATAGTTTAATCCCAGTCATTTTCATTTTTTGACTTGTGGTTTAATC
192 CATTTTTATTTTCTGACTCATGGTTTAATCCC-GTC-TTTTCATTTTTTGACTCATGGTTTAATC
* *
897971 TTGGTCATCATTTTTTCTTTGACTCATGGTTTAATCTC-GTTCGTTTTCATTTTTTGACTCGTGG
255 TTGGTCATCATTTTTTCTCTGACTCATGGTTTAATCTCAG-TCGTTTTCATTTTTTGACTCATGG
* * * * * * *
898035 TTTAATCCCAATCGCCATTTTTTCTCTGACTCATGATTTAATCTCAATCGTTTTCATCTTCTAAG
319 TTTAATCACAATCACCATTTCTTCTCTGACTCAGGATTTAATCCCAATCATTTTCATCTTCTAAC
*
898100 T
384 C
** * ** * *
898101 TGTGGTTTAATCTCGTTCATTTTCATTCTCTTACTTATGGTTTAATATCGATCATTTTCATTTTT
1 CATGGTTTAATCCCAATCATTTTCATTCTCTGACTCATGGTTTAATATCGATCATTTTCATTTTT
** * ***
898166 TGACTCGTGGTTTAATCTCAGTTGTTTTTATCTTTTGATTCATGGTTTAATACTGGTCATTTTCA
66 TGACTCGTGGTTTAATCTCAGTCATTTTCATCTTCCAATTCATGGTTTAATACTGGTCATTTTCA
* * * * * * * *
898231 TTTTCAAACTCATGGTTTAAT-CTTGATCGCTTTCATTTTCTAACTCATGGTTTAAT-TTCGAT-
131 TTTTCTAACTTATGGTTTAATCCTAG-TTGTTTTCATTTTAT-ACTTATGATTTAATCTT-GATC
* * ** * *
898293 AGTTTTTATTCTCTGATTTGTGGTTTAATCCTTGT-TGTTTCATTTTTTGACTCATGTTTTAAT-
193 A-TTTTTATTTTCTGACTCATGGTTTAATCC-CGTCT-TTTCATTTTTTGACTCATGGTTTAATC
* * * *
898356 TCTGGTTATCATTTTTTCCCTAACTCATGGTTTAATCTCAGTCGTTTTCATCTTTTGACTCATGG
255 T-TGGTCATCATTTTTTCTCTGACTCATGGTTTAATCTCAGTCGTTTTCATTTTTTGACTCATGG
*
898421 TATAATC
319 TTTAATC
898428 TCGGTCAATT
Statistics
Matches: 580, Mismatches: 110, Indels: 45
0.79 0.15 0.06
Matches are distributed among these distances:
384 2 0.00
385 173 0.30
386 370 0.64
387 35 0.06
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (384 bp):
CATGGTTTAATCCCAATCATTTTCATTCTCTGACTCATGGTTTAATATCGATCATTTTCATTTTT
TGACTCGTGGTTTAATCTCAGTCATTTTCATCTTCCAATTCATGGTTTAATACTGGTCATTTTCA
TTTTCTAACTTATGGTTTAATCCTAGTTGTTTTCATTTTATACTTATGATTTAATCTTGATCATT
TTTATTTTCTGACTCATGGTTTAATCCCGTCTTTTCATTTTTTGACTCATGGTTTAATCTTGGTC
ATCATTTTTTCTCTGACTCATGGTTTAATCTCAGTCGTTTTCATTTTTTGACTCATGGTTTAATC
ACAATCACCATTTCTTCTCTGACTCAGGATTTAATCCCAATCATTTTCATCTTCTAACC
Found at i:899497 original size:21 final size:21
Alignment explanation
Indices: 899471--899511 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
899461 CCAACTTGTG
899471 AAAACAAAAAAAAAACAAAAC
1 AAAACAAAAAAAAAACAAAAC
* *
899492 AAAACAAAACAAAAAGAAAA
1 AAAACAAAAAAAAAACAAAA
899512 GCAAGGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAACAAAAAAAAAACAAAAC
Found at i:900416 original size:145 final size:144
Alignment explanation
Indices: 899994--900476 Score: 444
Period size: 145 Copynumber: 3.4 Consensus size: 144
899984 TTGTAAAATG
** * * *
899994 TTTCAGATCTTAACTTT-ATAATATTTCAT-ATTTTTTATGCATTTAAAATAATAATAGTA-CCC
1 TTTCAGATCTTAA-TTTCATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGTAGTACCCC
* * * * * *
900056 AAAAAAAGGCAAATTTATCAAAATACCCTTAT-AGGTGTATTTTCGTAATTTGGATTTCCCAAGC
65 AAAAAGATG-AAA-TTACCAAAATACCCTTATAAGG-GTATTTTTGTAATTTGGCTTTCTCAAGC
* * **
900120 TCACATTTTGGTAAAACT
127 TCAAAATTTCATAAAACT
** * * * * *
900138 TTTTGGATTTTAATTTCATAATATTT-ATAATTTTTAGTG-AGTTTGAAACCACAGTAGTACCTT
1 TTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCA-TTTGAAATCATAGTAGTACC-C
* * * ** *
900201 GAGAAAGGT-AAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTCTCAAATTT
64 CAAAAAGATGAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTCTCAAGCTC
** *
900265 GGAATTTCACAAAACT
129 AAAATTTCATAAAACT
* *
900281 TTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATCTGAAATCATAGTAATACCCCA
1 TTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGTAGTACCCCA
* * **
900346 AAAAGTATGAAATTACCAAAATACCTTTATAAGGGTATTTTTGTAATTTGGCTTTTTTGAGCTCA
66 AAAAG-ATGAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTCTCAAGCTCA
*
900411 AAATTTCATGAAAC-
130 AAATTTCATAAAACT
* * * * *
900425 TTTCTAGATCTTAATTTTATAGTACTTCATGATTTTTGGTGC-TTTAAAATCA
1 TTTC-AGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATTTGAAATCA
900477 CAAAAATGAC
Statistics
Matches: 270, Mismatches: 58, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
143 85 0.31
144 87 0.32
145 94 0.35
146 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (144 bp):
TTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGTAGTACCCCA
AAAAGATGAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTCTCAAGCTCAA
AATTTCATAAAACT
Found at i:902312 original size:3 final size:3
Alignment explanation
Indices: 902304--902343 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
902294 AATTTATGCC
* * *
902304 TAA TAA TAA TGA TAA TAG TAG TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
902344 GATGTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:905726 original size:18 final size:17
Alignment explanation
Indices: 905700--905742 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
905690 TGTCTATTTC
* *
905700 CATGGAACCCCAAATTCT
1 CATGAAACCCCAAA-TCA
*
905718 CATGAAACCCTAAATCA
1 CATGAAACCCCAAATCA
905735 CATGAAAC
1 CATGAAAC
905743 TTTAAACCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.42, C:0.30, G:0.09, T:0.19
Consensus pattern (17 bp):
CATGAAACCCCAAATCA
Found at i:905776 original size:7 final size:7
Alignment explanation
Indices: 905745--905814 Score: 51
Period size: 6 Copynumber: 10.4 Consensus size: 7
905735 CATGAAACTT
905745 TAAACCC
1 TAAACCC
905752 T-AACCC
1 TAAACCC
*
905758 CAAATCCC
1 TAAA-CCC
905766 -AAACCC
1 TAAACCC
*
905772 TAAA-CT
1 TAAACCC
905778 TAAACCC
1 TAAACCC
905785 T-AACCC
1 TAAACCC
*
905791 -CAACCC
1 TAAACCC
*
905797 TAAAACCT
1 T-AAACCC
905805 TAAACCC
1 TAAACCC
905812 TAA
1 TAA
905815 CCTTAAATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
6 23 0.46
7 19 0.38
8 8 0.16
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:905784 original size:13 final size:13
Alignment explanation
Indices: 905766--905821 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
905756 CCCAAATCCC
905766 AAACCCTAAACTT
1 AAACCCTAAACTT
**
905779 AAACCCT-AACCC
1 AAACCCTAAACTT
*
905791 CAACCCTAAAACCTT
1 AAACCCT-AAA-CTT
*
905806 AAACCCTAACCTT
1 AAACCCTAAACTT
905819 AAA
1 AAA
905822 TTGAAATTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
12 9 0.27
13 13 0.39
14 4 0.12
15 7 0.21
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:905812 original size:27 final size:25
Alignment explanation
Indices: 905767--905816 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
905757 CCAAATCCCA
905767 AACCCTAAACTTAAACCCTAACCCC
1 AACCCTAAACTTAAACCCTAACCCC
905792 AACCCTAAAACCTTAAACCCTAACC
1 AACCCT-AAA-CTTAAACCCTAACC
905817 TTAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 14 0.61
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (25 bp):
AACCCTAAACTTAAACCCTAACCCC
Found at i:905874 original size:12 final size:12
Alignment explanation
Indices: 905853--905916 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
905843 CAAAACTTGA
*
905853 AACCCAAAATCT
1 AACCCTAAATCT
905865 AACCCTAAAT-T
1 AACCCTAAATCT
*
905876 AAACCCTAAACCT
1 -AACCCTAAATCT
*
905889 AATCCTAAATCCT
1 AACCCTAAAT-CT
*
905902 AAACCCTAAACCT
1 -AACCCTAAATCT
905915 AA
1 AA
905917 ACCTTAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 1 0.02
12 28 0.67
13 5 0.12
14 8 0.19
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (12 bp):
AACCCTAAATCT
Found at i:905889 original size:6 final size:6
Alignment explanation
Indices: 905875--905995 Score: 71
Period size: 7 Copynumber: 18.0 Consensus size: 6
905865 AACCCTAAAT
* * *
905875 TAAACCC TAAACC TAATCC TAAATCC TAAACCC TAAACC TAAACC TTAACAT
1 TAAA-CC TAAACC TAAACC TAAA-CC TAAA-CC TAAACC TAAACC TAAAC-C
* *
905927 TAAAATCC TAAACC TCAAAAC TAAACCC TAAATCT TAAACC TTAAATCC
1 T-AAA-CC TAAACC T-AAACC TAAA-CC TAAA-CC TAAACC -TAAA-CC
*
905976 CAAACCC TAAACC TTAAACC
1 TAAA-CC TAAACC -TAAACC
905996 AACCCAAATC
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
6 31 0.34
7 53 0.59
8 5 0.06
9 1 0.01
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAACC
Found at i:905915 original size:13 final size:13
Alignment explanation
Indices: 905852--905995 Score: 75
Period size: 14 Copynumber: 10.9 Consensus size: 13
905842 ACAAAACTTG
* *
905852 AAACCCAAAATCT
1 AAACCCTAAACCT
*
905865 -AACCCTAAA-TT
1 AAACCCTAAACCT
905876 AAACCCTAAACCT
1 AAACCCTAAACCT
*
905889 -AATCCTAAATCCT
1 AAACCCTAAA-CCT
905902 AAACCCTAAACCT
1 AAACCCTAAACCT
* *
905915 AAA-CCTTAACATT
1 AAACCCTAAAC-CT
*
905928 AAAATCCTAAACCT
1 -AAACCCTAAACCT
*
905942 CAAA-ACTAAACCCT
1 -AAACCCTAAA-CCT
* *
905956 AAATCTTAAACCTT
1 AAACCCTAAACC-T
905970 AAATCCC-AAACCCT
1 AAA-CCCTAAA-CCT
*
905984 AAACCTTAAACC
1 AAACCCTAAACC
905996 AACCCAAATC
Statistics
Matches: 102, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
11 1 0.01
12 31 0.30
13 25 0.25
14 36 0.35
15 9 0.09
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:905937 original size:34 final size:34
Alignment explanation
Indices: 905875--905993 Score: 99
Period size: 34 Copynumber: 3.5 Consensus size: 34
905865 AACCCTAAAT
905875 TAAACCCTAAACC-T-AATCCT-AAATCCTAAACCC
1 TAAA-CCTAAACCTTAAAT-CTAAAATCCTAAACCC
905908 TAAACCTAAACCTTAACAT-TAAAATCCTAAA-CC
1 TAAACCTAAACCTTAA-ATCTAAAATCCTAAACCC
* * *
905941 TCAAAACTAAACCCTAAATCTTAAA-CCTTAAATCCC
1 T-AAACCTAAACCTTAAATCTAAAATCC-TAAA-CCC
905977 -AAACCCTAAACCTTAAA
1 TAAA-CCTAAACCTTAAA
905994 CCAACCCAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
32 8 0.11
33 13 0.18
34 35 0.49
35 13 0.18
36 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (34 bp):
TAAACCTAAACCTTAAATCTAAAATCCTAAACCC
Found at i:905938 original size:41 final size:40
Alignment explanation
Indices: 905865--905995 Score: 110
Period size: 41 Copynumber: 3.3 Consensus size: 40
905855 CCCAAAATCT
* * *
905865 AACCCTAAA-TTAAACCCTAAAC-CT-AATCCTAAATCCTA
1 AACCCTAAACCTAAACCTTAAACATTAAATCCTAAA-CCTA
905903 AACCCTAAACCTAAACCTT-AACATTAAAATCCTAAACCTCA
1 AACCCTAAACCTAAACCTTAAACATT-AAATCCTAAACCT-A
* * * *
905944 AA-ACTAAACCCTAAATCTTAAACCTTAAATCCCAAACCCTA
1 AACCCTAAA-CCTAAACCTTAAACATTAAATCCTAAA-CCTA
*
905985 AACCTTAAACC
1 AACCCTAAACC
905996 AACCCAAATC
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
38 12 0.16
39 8 0.11
40 8 0.11
41 35 0.47
42 12 0.16
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (40 bp):
AACCCTAAACCTAAACCTTAAACATTAAATCCTAAACCTA
Found at i:906897 original size:35 final size:35
Alignment explanation
Indices: 906858--906933 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
906848 TGACTTGCGA
*
906858 TTTAGTGTT-GGTCATTATTATTTTCTA-ACTTATGG
1 TTTAGT-TTCGGTCATCATTATTTT-TAGACTTATGG
*
906893 TTTAGTTTCGGTCATCATTATTTTTAGATTTATGG
1 TTTAGTTTCGGTCATCATTATTTTTAGACTTATGG
906928 TTTAGT
1 TTTAGT
906934 CCTGGTTGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 4 0.11
35 33 0.89
ACGTcount: A:0.20, C:0.08, G:0.17, T:0.55
Consensus pattern (35 bp):
TTTAGTTTCGGTCATCATTATTTTTAGACTTATGG
Found at i:907002 original size:35 final size:35
Alignment explanation
Indices: 906974--907094 Score: 113
Period size: 35 Copynumber: 3.5 Consensus size: 35
906964 CTCAATATGG
906974 GTCATATTTATTTTTTAACCTGCAGCTCAGATTCA
1 GTCATATTTATTTTTTAACCTGCAGCTCAGATTCA
* * *
907009 GTCATCTTTATTTTTTTACCT--ATGGTACA-ATCTCA
1 GTCATATTTATTTTTTAACCTGCA-GCT-CAGAT-TCA
* * * * *
907044 ATCATTTTTATTTTTCAACTTGCAGCTCAGTTTCA
1 GTCATATTTATTTTTTAACCTGCAGCTCAGATTCA
*
907079 GTCATCTTTATTTTTT
1 GTCATATTTATTTTTT
907095 GGCTTGTAGC
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
33 1 0.01
34 4 0.06
35 58 0.87
36 3 0.04
37 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (35 bp):
GTCATATTTATTTTTTAACCTGCAGCTCAGATTCA
Found at i:907265 original size:35 final size:36
Alignment explanation
Indices: 907221--907312 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
907211 TAGTCCCTGC
* * *
907221 CATTC-TTATTTCTTGACTTGCGGTTCCATCTTAGT
1 CATTCTTTATTTCTTGACTTGCGGCTCAATCCTAGT
* * *
907256 CA-TCTTTATTTCCTGACCTGTGGCTCAATCCTAGT
1 CATTCTTTATTTCTTGACTTGCGGCTCAATCCTAGT
*
907291 CATTTTTTATTTCTTGACTTGC
1 CATTCTTTATTTCTTGACTTGC
907313 AATTCAGTCC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
34 2 0.04
35 28 0.62
36 15 0.33
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.48
Consensus pattern (36 bp):
CATTCTTTATTTCTTGACTTGCGGCTCAATCCTAGT
Found at i:914050 original size:357 final size:357
Alignment explanation
Indices: 913394--914644 Score: 1703
Period size: 357 Copynumber: 3.5 Consensus size: 357
913384 TATAACAAAT
* * * * *
913394 TATTGAAGGTATTTTATAATAAAAGATGCCTTTAATAATCCGAAAAAATTTTTTT-TGAGAAATT
1 TATTGAAGGCATGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTTAGGA-AAATT
* *
913458 ATTGAAGGCGTTGTTATCTGCAACTGCCTTCAGTAATTATATACGAACTGTGATAGAAATTATTA
65 ATTGAAGGCGTTGTTATCTACAACTGCCTTCAGTAATTATATACAAACTGTGATAGAAATTATTA
* * *
913523 AAGGCATCTTTCTTGGATATACACC-TCTAATAACAGTGTTAGAATTTATGTGATGGTATATAAA
130 AAGGCATCTTTCTTGGATATACACCTTC-AATAACAATGTTAGAATTTGTGTGATGGTATATAGA
* * * * *
913587 AGGTATTTTACAATAGAAGACACTTTTAATAATTCCCAAAATATTTAGTGGGAAAATTTTGAAGG
194 AGGTATTTTACAATAGAAGACGCCTTTAATAATTCCTAAAATTTTTAGTGAGAAAATTTTGAAGG
* *
913652 CGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCATAT
259 CGTCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCAT-T
**
913717 TTTCTAATAAACACCTTTCCATTACCATCATGGTA
323 TTTCTAATAAATGCCTTTCCATTACCATCATGGTA
* * *
913752 TATTGAAGGTATGTCATAATAAAAGACGCTTTTAATAATCCGAAAAAA-TTTTTTAGGGAAATTA
1 TATTGAAGGCATGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTTAGGAAAATTA
*
913816 TTGAAGGCGTTGTTATCTACAA-TCGCCTTCAGTAATTATCTACAAACTGTGATAGAAATTATTA
66 TTGAAGGCGTTGTTATCTACAACT-GCCTTCAGTAATTATATACAAACTGTGATAGAAATTATTA
** * * *
913880 AAGGTGTCTTTCTTGGATATACGCCTTCAATAACAATGTTATAATTTGTGTGTTGGTATATAGAA
130 AAGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAGAATTTGTGTGATGGTATATAGAA
* *
913945 GGTATTTTACAATAGAAGACGCCTTTAATAATTTCTAAAATTTTTAGTGTGAAAATTTTGAAGGC
195 GGTATTTTACAATAGAAGACGCCTTTAATAATTCCTAAAATTTTTAGTGAGAAAATTTTGAAGGC
* * * *
914010 CTCTCTTATTAAAAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTT
260 GTCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-G-GCATT
*
914075 TTT-TAATAAATGCCTTT-CATTACCATCGTGGTA
323 TTTCTAATAAATGCCTTTCCATTACCATCATGGTA
* * * *
914108 TATTGAAGGCGTGTCATAATAAAAGATGTCTTTAATAATCCGAGAAAATTTTTTTAGGAAAATTA
1 TATTGAAGGCATGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTTAGGAAAATTA
* * * *
914173 TTAAAGGTGTTGTTATCTACAACTGCCTTCAATAATTATCTACAAACTGTGATA-AGAATTATTA
66 TTGAAGGCGTTGTTATCTACAACTGCCTTCAGTAATTATATACAAACTGTGATAGA-AATTATTA
* *
914237 AAGGCATCTTTCTTGGATATACACCTTCAATAACAGTGTTAGAATTTTTGTGATGGTATATAGAA
130 AAGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAGAATTTGTGTGATGGTATATAGAA
* * * * * * *
914302 GGCATTTTACAGTAGAAGATGCCTTTAATAATTCCTAAAACTTTTAGTGAAAAAATTTTAAAGGT
195 GGTATTTTACAATAGAAGACGCCTTTAATAATTCCTAAAATTTTTAGTGAGAAAATTTTGAAGGC
* * *
914367 GTCTATTATTAACAAACATCGTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGC-CT
260 GTCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-G-GCATT
* *
914431 TTTCAAATAAATGCC-TTCCATAACCATCATGGTA
323 TTTCTAATAAATGCCTTTCCATTACCATCATGGTA
* * *
914465 TATTGAAGGCGTGTCATAATAAAAGACACCTTTACTAATCC-AAAAAATTTTTTTAGGAAAATTA
1 TATTGAAGGCATGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTTAGGAAAATTA
* *** * * * *
914529 TTGAAGGCGTTGTTTTCTACAACCATCTTCACTAATTATATACAAATTATGATAGGAATTATTAA
66 TTGAAGGCGTTGTTATCTACAACTGCCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAA
* * * *
914594 AGGCGTCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTGTGTG
131 AGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAGAATTTGTGTG
914645 GTGATATGTT
Statistics
Matches: 794, Mismatches: 88, Indels: 24
0.88 0.10 0.03
Matches are distributed among these distances:
356 185 0.23
357 553 0.70
358 53 0.07
359 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (357 bp):
TATTGAAGGCATGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTTAGGAAAATTA
TTGAAGGCGTTGTTATCTACAACTGCCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAA
AGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAGAATTTGTGTGATGGTATATAGAAG
GTATTTTACAATAGAAGACGCCTTTAATAATTCCTAAAATTTTTAGTGAGAAAATTTTGAAGGCG
TCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCATTTTT
CTAATAAATGCCTTTCCATTACCATCATGGTA
Found at i:916206 original size:6 final size:6
Alignment explanation
Indices: 916188--916223 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
916178 AATAAAATAT
* *
916188 TTCGAG TCCGAG TTTGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
916224 CATGAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
TTCGAG
Found at i:924506 original size:3 final size:3
Alignment explanation
Indices: 924498--924554 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
924488 ATTTATTCAA
*
924498 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
924546 AAC AAT AAT
1 AAT AAT AAT
924555 GTTTTTAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:925102 original size:31 final size:33
Alignment explanation
Indices: 925035--925104 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 33
925025 AACTTTAAAA
* *
925035 TAAATCTTAAAACCTAAACCCTAAATGAGACCC
1 TAAATCTTAAAACCAAAACCCTAAATGAAACCC
* *
925068 TAAATCTT-AAA-CAAAATCCTAAATGAAACGC
1 TAAATCTTAAAACCAAAACCCTAAATGAAACCC
925099 TAAATC
1 TAAATC
925105 CTATATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 22 0.67
32 3 0.09
33 8 0.24
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.23
Consensus pattern (33 bp):
TAAATCTTAAAACCAAAACCCTAAATGAAACCC
Found at i:925121 original size:20 final size:20
Alignment explanation
Indices: 925081--925141 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
925071 ATCTTAAACA
* *
925081 AAATCCTAAATG-AAACGCT
1 AAATCCTATATGTAAACCCT
925100 AAATCCTATATGTAAACCCT
1 AAATCCTATATGTAAACCCT
*
925120 AAA-CTTAATATGTAAA-CCT
1 AAATCCT-ATATGTAAACCCT
925139 AAA
1 AAA
925142 CACAAATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 19 0.51
20 18 0.49
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (20 bp):
AAATCCTATATGTAAACCCT
Found at i:926764 original size:19 final size:19
Alignment explanation
Indices: 926742--926780 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
926732 AGCAATCAAC
926742 TGAATTAAATTCAATTAAT
1 TGAATTAAATTCAATTAAT
*
926761 TGAATTAAATTCGATTAAT
1 TGAATTAAATTCAATTAAT
926780 T
1 T
926781 TTTAAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (19 bp):
TGAATTAAATTCAATTAAT
Found at i:936071 original size:3 final size:3
Alignment explanation
Indices: 936063--936100 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
936053 ACTTTAAATT
936063 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
936101 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:936105 original size:3 final size:3
Alignment explanation
Indices: 936099--936123 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
936089 ATAATAATAA
936099 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
936124 GATCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:936404 original size:14 final size:14
Alignment explanation
Indices: 936385--936418 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
936375 ATTCTTAATG
936385 TTATTTTATTATT-A
1 TTATTTT-TTATTCA
936399 TTATTTTTTATTCA
1 TTATTTTTTATTCA
936413 TTATTT
1 TTATTT
936419 ACTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTTATTCA
Found at i:938064 original size:24 final size:25
Alignment explanation
Indices: 938015--938060 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
938005 CTTTATTTTA
*
938015 GGCCAAATTTAAGCTTCATTTCTAG
1 GGCCAAATTTAAGCTTCATATCTAG
*
938040 GGCC-AATTTAGGC-TCATATCT
1 GGCCAAATTTAAGCTTCATATCT
938061 TAGGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 8 0.42
25 4 0.21
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (25 bp):
GGCCAAATTTAAGCTTCATATCTAG
Found at i:941866 original size:2 final size:2
Alignment explanation
Indices: 941859--941889 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
941849 TTGAACAAAT
941859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
941890 GAAGTAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:944493 original size:16 final size:16
Alignment explanation
Indices: 944472--944508 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
944462 TAGTATAACC
*
944472 TAAATTCAAAATGACT
1 TAAATTCAAAATGAAT
*
944488 TAAATTTAAAATGAAT
1 TAAATTCAAAATGAAT
944504 TAAAT
1 TAAAT
944509 CTAAACAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
TAAATTCAAAATGAAT
Found at i:944513 original size:16 final size:16
Alignment explanation
Indices: 944479--944513 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
944469 ACCTAAATTC
* *
944479 AAAATGACTTAAATTT
1 AAAATGAATTAAATCT
944495 AAAATGAATTAAATCT
1 AAAATGAATTAAATCT
944511 AAA
1 AAA
944514 CAACCCGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAATGAATTAAATCT
Found at i:946099 original size:15 final size:15
Alignment explanation
Indices: 946079--946115 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
946069 TGGTGTAATT
*
946079 TTTTATCTATGTTTG
1 TTTTATCGATGTTTG
946094 TTTTATCGATGTTTG
1 TTTTATCGATGTTTG
946109 TTTTATC
1 TTTTATC
946116 AAACTTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.65
Consensus pattern (15 bp):
TTTTATCGATGTTTG
Found at i:946477 original size:55 final size:53
Alignment explanation
Indices: 946400--946536 Score: 186
Period size: 55 Copynumber: 2.5 Consensus size: 53
946390 AATATAATAA
*
946400 AAAATTCAAACATATAAGTCTATACTGACAATCTCTAATCGTCGATATAGGTAAG
1 AAAATT-AAACATACAAGTCTATACTGACAATCTCTAATCGTCGA-ATAGGTAAG
* *
946455 AAAATTAAAGCATACAATTCTATACTGACAGTCTCTAATCGTCGAATAGGTAAG
1 AAAATTAAA-CATACAAGTCTATACTGACAATCTCTAATCGTCGAATAGGTAAG
* *
946509 -AAATTAAAAAGTACAAGTCTATATTGAC
1 AAAATTAAACA-TACAAGTCTATACTGAC
946537 GGATGCTAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.01
53 23 0.31
54 12 0.16
55 38 0.51
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (53 bp):
AAAATTAAACATACAAGTCTATACTGACAATCTCTAATCGTCGAATAGGTAAG
Found at i:946802 original size:56 final size:56
Alignment explanation
Indices: 946569--946800 Score: 206
Period size: 56 Copynumber: 4.2 Consensus size: 56
946559 TAAGAAAAAT
** *
946569 TACAAGTCTATACTGACAGGCATTAACCATCAGTATAGGTAAGAAAAATTAAAACA
1 TACAAGTCTATACTGACAGGCGCTAACCATCAGTATAAGTAAGAAAAATTAAAACA
* * * * ** * * *
946625 TATAAGTCTATACTGATAAGTGCTAGTCATCGGTACAAGTGAG-AAAATTAAAACA
1 TACAAGTCTATACTGACAGGCGCTAACCATCAGTATAAGTAAGAAAAATTAAAACA
* * * *** *
946680 TACAAATTTATACTGACAGGCCCTAAGTGTCAGTATAAGT-A-AAAAA--AAAA-T
1 TACAAGTCTATACTGACAGGCGCTAACCATCAGTATAAGTAAGAAAAATTAAAACA
* * * * *
946731 TACAAGTCTATACTAACAGGCGTTAACCATCGGTATAGGCAAGAAAAATTAAAACA
1 TACAAGTCTATACTGACAGGCGCTAACCATCAGTATAAGTAAGAAAAATTAAAACA
946787 TACAAGTCTATACT
1 TACAAGTCTATACT
946801 AATAGGTATT
Statistics
Matches: 132, Mismatches: 38, Indels: 12
0.73 0.21 0.07
Matches are distributed among these distances:
51 29 0.22
52 5 0.04
53 5 0.04
54 5 0.04
55 43 0.33
56 45 0.34
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (56 bp):
TACAAGTCTATACTGACAGGCGCTAACCATCAGTATAAGTAAGAAAAATTAAAACA
Found at i:970720 original size:120 final size:120
Alignment explanation
Indices: 970577--970814 Score: 374
Period size: 120 Copynumber: 2.0 Consensus size: 120
970567 TTTGGTTTAG
*
970577 TGTTAATTGTTTAAAACCTAGTTTTTGTTTTATTTTAAAGTTAATATTTAGT-TGAATTTTCTTC
1 TGTTAATTGTTTAAAACCTAGTTTCTGTTTTATTTTAAAGTTAATATTTAGTAT-AATTTTCTTC
*
970641 TATTTAATTTATATTCTATTCAATTCGA-GGTTTTTTAATTAGGGTTTGCATGTTAA
65 TATTTAATTTATATTCTATTCAATT-GAGGGTTCTTTAATTAGGGTTTGCATGTTAA
*
970697 TGTTAATTGTTTAAAAACC-AGTTTCTGTTTTATTTTGAAGTTAATATTTAGTATAATTTTCTTC
1 TGTTAATTGTTT-AAAACCTAGTTTCTGTTTTATTTTAAAGTTAATATTTAGTATAATTTTCTTC
* * *
970761 TATTTAATTTATATTTTATTCGATTTAGGGTTCTTTAATTAGGGTTTGCATGTT
65 TATTTAATTTATATTCTATTCAATTGAGGGTTCTTTAATTAGGGTTTGCATGTT
970815 TGCATAAATT
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
119 1 0.01
120 101 0.93
121 7 0.06
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (120 bp):
TGTTAATTGTTTAAAACCTAGTTTCTGTTTTATTTTAAAGTTAATATTTAGTATAATTTTCTTCT
ATTTAATTTATATTCTATTCAATTGAGGGTTCTTTAATTAGGGTTTGCATGTTAA
Found at i:974043 original size:24 final size:23
Alignment explanation
Indices: 974000--974049 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
973990 CACATTATCC
*
974000 AAACTATAAAGAAAATTAAAAGA
1 AAACTATAAAGAAAACTAAAAGA
*
974023 AAACTAATAAA-AAAACCTAAAATA
1 AAACT-ATAAAGAAAA-CTAAAAGA
974047 AAA
1 AAA
974050 TATGTGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (23 bp):
AAACTATAAAGAAAACTAAAAGA
Found at i:978140 original size:70 final size:70
Alignment explanation
Indices: 978027--978167 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
978017 AACAATTGTT
*
978027 AACAATTAGTATCAAAATTGCTAAAGAATTTTTAAACTTTCATGGATGCTTATTTATGTGCCTAT
1 AACAATTAGTATCAAAATTGCTAAAGAATTTTTAAACTTTCATGGATGCTTATTTATATGCCTAT
978092 CCTTG
66 CCTTG
978097 AACAATTAGTATCAAAATTGCTAAAGAATTTTTAAACTTTCATGGATGCTTATTTATATGCCTAT
1 AACAATTAGTATCAAAATTGCTAAAGAATTTTTAAACTTTCATGGATGCTTATTTATATGCCTAT
978162 CCTTG
66 CCTTG
978167 A
1 A
978168 TATAGCTTGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (70 bp):
AACAATTAGTATCAAAATTGCTAAAGAATTTTTAAACTTTCATGGATGCTTATTTATATGCCTAT
CCTTG
Found at i:979963 original size:21 final size:22
Alignment explanation
Indices: 979934--979975 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
979924 TGAGTAACAT
979934 TCAAGAACCAATCCATCCCTTA
1 TCAAGAACCAATCCATCCCTTA
**
979956 TCAA-AACCAATTGATCCCTT
1 TCAAGAACCAATCCATCCCTT
979976 CGTCCTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (22 bp):
TCAAGAACCAATCCATCCCTTA
Found at i:981703 original size:15 final size:15
Alignment explanation
Indices: 981683--981711 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
981673 ATAACTAAGG
981683 AAATGTAAAACTTAA
1 AAATGTAAAACTTAA
981698 AAATGTAAAACTTA
1 AAATGTAAAACTTA
981712 GGTTACATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATGTAAAACTTAA
Found at i:985037 original size:10 final size:11
Alignment explanation
Indices: 984993--985052 Score: 86
Period size: 11 Copynumber: 5.3 Consensus size: 11
984983 CACCTTAGCC
984993 AAACTATAAAGA
1 AAACTA-AAAGA
985005 AAACTAAAAGA
1 AAACTAAAAGA
985016 AAACTAAAAGA
1 AAACTAAAAGA
985027 AAACT-AAAGAA
1 AAACTAAAAG-A
985038 AAACCTAAAAGA
1 AAA-CTAAAAGA
985050 AAA
1 AAA
985053 GAGAAAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.09
11 25 0.56
12 12 0.27
13 4 0.09
ACGTcount: A:0.72, C:0.10, G:0.08, T:0.10
Consensus pattern (11 bp):
AAACTAAAAGA
Found at i:985049 original size:23 final size:22
Alignment explanation
Indices: 984993--985052 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 22
984983 CACCTTAGCC
984993 AAACTATAAAGAAAACTAAAAGA
1 AAACTA-AAAGAAAACTAAAAGA
985016 AAACTAAAAGAAAACT-AAAGAA
1 AAACTAAAAGAAAACTAAAAG-A
985038 AAACCTAAAAGAAAA
1 AAA-CTAAAAGAAAA
985053 GAGAAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.11
22 14 0.40
23 17 0.49
ACGTcount: A:0.72, C:0.10, G:0.08, T:0.10
Consensus pattern (22 bp):
AAACTAAAAGAAAACTAAAAGA
Found at i:992890 original size:24 final size:24
Alignment explanation
Indices: 992848--992895 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
992838 AGATAGAATT
*
992848 TAAAACAAAATTTAAAAATGAAAA
1 TAAAACAAAATTTAAAAATAAAAA
*
992872 TAAAATAAAA-TTAACAAATAAAAA
1 TAAAACAAAATTTAA-AAATAAAAA
992896 ATTCAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (24 bp):
TAAAACAAAATTTAAAAATAAAAA
Found at i:992919 original size:21 final size:19
Alignment explanation
Indices: 992887--992934 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
992877 TAAAATTAAC
992887 AAATAAAAAATTCA-AATAA
1 AAATAAAAAATT-AGAATAA
*
992906 AAATAAAACTAATTAGAGTAA
1 AAATAAAA--AATTAGAATAA
992927 AAATAAAA
1 AAATAAAA
992935 TAAAATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 16 0.64
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATAAAAAATTAGAATAA
Found at i:994045 original size:48 final size:48
Alignment explanation
Indices: 993964--994078 Score: 113
Period size: 48 Copynumber: 2.4 Consensus size: 48
993954 CTTATAATAG
* * * * ** * **
993964 AGGCATTGGAACTCTAAGAATCTTAATTGAAAAGCCCTTTTTTAACAA
1 AGGCATTGAAACTTTAAAAATATTAATAAAAAAGCCCATTCCTAACAA
* *
994012 TGGCATTGAAACTTTAAAAATATTAATAAAAAAGCTCATTCCTAACAA
1 AGGCATTGAAACTTTAAAAATATTAATAAAAAAGCCCATTCCTAACAA
* *
994060 AGGCCTTGAAACTTGAAAA
1 AGGCATTGAAACTTTAAAA
994079 TTTTTAACTG
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (48 bp):
AGGCATTGAAACTTTAAAAATATTAATAAAAAAGCCCATTCCTAACAA
Found at i:999729 original size:20 final size:21
Alignment explanation
Indices: 999701--999739 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
999691 GACTTAATTT
*
999701 TTTTTTAAAACAA-AAAAATG
1 TTTTATAAAACAAGAAAAATG
999721 TTTTATAAAACAAGAAAAA
1 TTTTATAAAACAAGAAAAA
999740 AAGTTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (21 bp):
TTTTATAAAACAAGAAAAATG
Found at i:999751 original size:22 final size:19
Alignment explanation
Indices: 999702--999751 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
999692 ACTTAATTTT
*
999702 TTTTTAAAACAAAAAAATG
1 TTTTTAAAACAAAAAAAAG
999721 TTTTATAAAACAAGAAAAAAAG
1 TTTT-TAAAAC-A-AAAAAAAG
999743 TTGTTTAAA
1 TT-TTTAAA
999752 GGGAGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 1 0.04
22 13 0.50
23 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTTTAAAACAAAAAAAAG
Found at i:1008219 original size:21 final size:21
Alignment explanation
Indices: 1008178--1008220 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1008168 TTTATGTGGG
* *
1008178 AAAATTTTGTGATTACTTTGA
1 AAAATTTTGAGATTACGTTGA
1008199 AAAATTTTGAAGATTA-GTTGA
1 AAAATTTTG-AGATTACGTTGA
1008220 A
1 A
1008221 CATTTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (21 bp):
AAAATTTTGAGATTACGTTGA
Found at i:1008406 original size:80 final size:80
Alignment explanation
Indices: 1008308--1008513 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
1008298 TTGCATCAAT
* * *
1008308 TACATCATAAGAAAGACATTTGATTTGCATGTTACAAAAA-CAAAAAGAGTCTACGCATTCGCAT
1 TACATCATAAGAAAGACATTTGATTTGTATGTTGCAAAAATAAAAAAG-GTCTACGCATTCGCAT
** *
1008372 CACTTGTGCTTACCTA
65 CACTTGCACTTACATA
** *
1008388 TACATCATAAGAAAGACATTTGATTTGTATGTTGCAAAAATAAAAAAGGTCTTTGCATTTGCATC
1 TACATCATAAGAAAGACATTTGATTTGTATGTTGCAAAAATAAAAAAGGTCTACGCATTCGCATC
*
1008453 ACTTGCACTTACATG
66 ACTTGCACTTACATA
* * * * *
1008468 TGCATCATCAGAAAAACATTTTATCTGTATGTTGCAAAAATAAAAA
1 TACATCATAAGAAAGACATTTGATTTGTATGTTGCAAAAATAAAAA
1008514 CAAAAAAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
80 104 0.95
81 6 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (80 bp):
TACATCATAAGAAAGACATTTGATTTGTATGTTGCAAAAATAAAAAAGGTCTACGCATTCGCATC
ACTTGCACTTACATA
Found at i:1009190 original size:36 final size:36
Alignment explanation
Indices: 1009092--1009918 Score: 241
Period size: 36 Copynumber: 23.4 Consensus size: 36
1009082 AGAAACTTTA
** * * *
1009092 ATCTTTATTTTTTTTACCTATAGTGTTGCCTC-GATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAG-TC
* * ** * **
1009128 ATCTTTA-TTTTTCAACTTACGATGTTGTCTTGGTC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAGTC
*
1009163 ATTTTTATTTTTTCGACCAT-TGGTGTTGTCTCAGTC
1 ATCTTTATTTTTTCGACC-TGTGGTGTTGTCTCAGTC
* * * *
1009199 ATCTTTATTTTTTTGACCTGTGGTGTTATCCCAATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAGTC
* * * *
1009235 ATTTTTATTTTTT-GACTTGTGGTGTTATCTCAATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAGTC
* * * * * *
1009270 ATCTTTGTTTCTTCAATC-GTTGGTGTTGCCCCAGTC
1 ATCTTTATTTTTTCGACCTG-TGGTGTTGTCTCAGTC
* * * *
1009306 ATTTTTATTTTTT-TAAC----GTGTTATCTC-GATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAG-TC
* * ** * *
1009337 ATATTTATTTTTTTGACCTACGATGTTGTC-CTAGTT
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTC-AGTC
* ***
1009373 ATCTTTATTTTTT-GACATGCAATGTTGTCTC-GATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAG-TC
* * *** *
1009408 ATCTTTA-TTTTTCAACTTACAGTGTTGTGC-CAATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGT-CTCAGTC
* * **
1009443 ATTTTTATTTTTTTGACCTACGGTGTTGTC-CAGATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAG-TC
* * * *** * *
1009479 AT-TTT-TATTTTCTAACTCACAGTGTTGTCCCAATC
1 ATCTTTATTTTTTCGACCT-GTGGTGTTGTCTCAGTC
* * * * * *
1009514 ATAC-TT-GTTTTCCTGACTTATAGTGTTGCCTC-GATC
1 AT-CTTTATTTTTTC-GACCTGTGGTGTTGTCTCAG-TC
*
1009550 ATCTTTATTTTTTCAACC-GTTGGTGTTGTC-CTAGTC
1 ATCTTTATTTTTTCGACCTG-TGGTGTTGTCTC-AGTC
* * * * * * *
1009586 ATTTTTATTTTTTTGACATATGATGTTGTCCCGGTC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAGTC
* **
1009622 ATCTTTATTTTTTTGACCTGCAGTGTTGTC-C-GATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAG-TC
* * *
1009657 ATCTTTATTTTTTCAACCATTTGGTGTTAT-TCTAGTC
1 ATCTTTATTTTTTCGACC-TGTGGTGTTGTCTC-AGTC
* * ** *
1009694 ATCTTTATTTTTTTGACCTGCGACGTTAT-TCTAGTC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTC-AGTC
* * * *
1009730 ATATTTATTTTTT-GACTTATGGTGTTGTCCCAGTC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAGTC
* * * * * *
1009765 ATATCTGTTTTCTCGACC-GTTGGTGTTGTCTTAATC
1 ATCTTTATTTTTTCGACCTG-TGGTGTTGTCTCAGTC
* * * * *
1009801 ATTTTTATTTTTTTGACCTATGATATTGTCT-AGGTC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCA-GTC
* * *
1009837 ATCTTTATTTTTT-GACTTATGGTGTTGTC-CTGATC
1 ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAG-TC
* * * * *
1009872 AT-ATT-TTTTTTC-AACTGTTAGTGTTATCTTAGTC
1 ATCTTTATTTTTTCGACCTG-TGGTGTTGTCTCAGTC
1009906 ATCTTTATTTTTT
1 ATCTTTATTTTTT
1009919 TTGACCTACA
Statistics
Matches: 590, Mismatches: 150, Indels: 102
0.70 0.18 0.12
Matches are distributed among these distances:
30 1 0.00
31 21 0.04
32 2 0.00
33 8 0.01
34 30 0.05
35 185 0.31
36 313 0.53
37 29 0.05
38 1 0.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (36 bp):
ATCTTTATTTTTTCGACCTGTGGTGTTGTCTCAGTC
Found at i:1009246 original size:71 final size:71
Alignment explanation
Indices: 1009161--1010353 Score: 366
Period size: 71 Copynumber: 16.8 Consensus size: 71
1009151 GTTGTCTTGG
*
1009161 TCATTTTTATTTTTTCGACCATTGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTGTGGTGTT
1 TCATTTTTATTTTTT-GACCATTGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTGCGGTGTT
*
1009226 ATCCCAA
65 GTCCCAA
* * * * * ** * *
1009233 TCATTTTTATTTTTTGA-CTTGTGGTGTTATCTCAATCATCTTTGTTTCTTCAATC-GTTGGTGT
1 TCATTTTTATTTTTTGACCAT-TGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTG-CGGTGT
* *
1009296 TGCCCCAG
64 TGTCCCAA
* * * * * *
1009304 TCATTTTTATTTTTTTA--A--CGTGTTATCTC-GATCATATTTATTTTTTTGACCTACGATGTT
1 TCATTTTTATTTTTTGACCATTGGTGTTGTCTCAG-TCATCTTTATTTTTTTGACCTGCGGTGTT
* *
1009364 GTCCTAG
65 GTCCCAA
* * * ** * * *
1009371 TTATCTTTATTTTTTGA-CA-TGCAATGTTGTCTC-GATCATCTTTA-TTTTTCAACTTACAGTG
1 TCATTTTTATTTTTTGACCATTG--GTGTTGTCTCAG-TCATCTTTATTTTTTTGACCTGCGGTG
*
1009432 TTGTGCCAA
63 TTGTCCCAA
* * * * * *
1009441 TCATTTTTATTTTTTTGACC-TACGGTGTTGTC-CAGATCATTTTTA-TTTTCT-AACTCACAGT
1 TCATTTTTA-TTTTTTGACCAT-TGGTGTTGTCTCAG-TCATCTTTATTTTTTTGACCT-GCGGT
1009502 GTTGTCCCAA
62 GTTGTCCCAA
** * * * * * ** *
1009512 TCATACTTGTTTTCCTGA-CTTATAGTGTTGCCTC-GATCATCTTTATTTTTTCAACC-GTTGGT
1 TCATTTTTATTTT-TTGACCAT-TGGTGTTGTCTCAG-TCATCTTTATTTTTTTGACCTG-CGGT
* *
1009574 GTTGTCCTAG
62 GTTGTCCCAA
* * * *
1009584 TCATTTTTATTTTTTTGA-CATATGATGTTGTCCCGGTCATCTTTATTTTTTTGACCTGCAGTGT
1 TCATTTTTA-TTTTTTGACCAT-TGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTGCGGTGT
*
1009648 TGT-CCGA
64 TGTCCCAA
* * * **
1009655 TCATCTTTATTTTTTCAACCATTTGGTGTTAT-TCTAGTCATCTTTATTTTTTTGACCTGCGACG
1 TCATTTTTATTTTTT-GACCA-TTGGTGTTGTCTC-AGTCATCTTTATTTTTTTGACCTGCGGTG
* * * *
1009719 TTATTCTAG
63 TTGTCCCAA
* * * * * * * * *
1009728 TCATATTTATTTTTTGA-CTTATGGTGTTGTCCCAGTCATATCTGTTTTCTCGACC-GTTGGTGT
1 TCATTTTTATTTTTTGACCAT-TGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTG-CGGTGT
**
1009791 TGTCTTAA
64 TGTCCCAA
* * * **
1009799 TCATTTTTATTTTTTTGACC-TATGATATTGTCT-AGGTCATCTTTA-TTTTTTGACTTATGGTG
1 TCATTTTTA-TTTTTTGACCAT-TGGTGTTGTCTCA-GTCATCTTTATTTTTTTGACCTGCGGTG
**
1009861 TTGTCCTGA
63 TTGTCCCAA
* ** ** * * * * * *
1009870 TCATATTT-TTTTTCAACTGTTAGTGTTATCTTAGTCATCTTTATTTTTTTTGACCTACAGTGCT
1 TCATTTTTATTTTTTGACCATTGGTGTTGTCTCAGTCATCTTTA-TTTTTTTGACCTGCGGTGTT
*
1009934 GTCCCTA
65 GTCCCAA
* * ** * * * * * * *
1009941 TCATCTTCATTTTTTGA-C-TTGCAACGTTATCCCAGTCATATTTGTTTTTTTTATCAT-TGGTG
1 TCATTTTTATTTTTTGACCATTG--GTGTTGTCTCAGTCATCTTTATTTTTTTGA-CCTGCGGTG
*
1010003 TCGTCCCAA
63 TTGTCCCAA
* * * * * * * ***
1010012 TCATCTTT-TTTTTTCACC-TGTGGTGTTGTCCCATTCATCTTCA-TTTTTTGACTTACGACATT
1 TCATTTTTATTTTTTGACCAT-TGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTGCGGTGTT
1010074 GTCCCAA
65 GTCCCAA
* * * * * * * ** *
1010081 TCATATTTGTTTTCTCGACCAATGGTATTGTC-CTGGTCATCTTTATGTTTTTGACCTATGGTTT
1 TCATTTTTATTTT-TTGACCATTGGTGTTGTCTC-AGTCATCTTTATTTTTTTGACCTGCGGTGT
* *
1010145 TATCCTAA
64 TGTCCCAA
* * * * * * *
1010153 TC-TTCTTTATTTTTT-AAC-TTGCAATGTTGTC-CCGATCATATTTATTTTTTCGATCAT-TGG
1 TCATT-TTTATTTTTTGACCATTG--GTGTTGTCTCAG-TCATCTTTATTTTTTTGA-CCTGCGG
*
1010213 TGTTGTCTCAA
61 TGTTGTCCCAA
* * * * * **
1010224 TCATTTTTATTTTTTTAACC--TGCAGTGTTATC-CTGGTCATTTTTA-TTTTTTGACTTGCATT
1 TCATTTTTA-TTTTTTGACCATTG--GTGTTGTCTC-AGTCATCTTTATTTTTTTGACCTGCGGT
*
1010285 GTTATCCCAA
62 GTTGTCCCAA
* * ** * * *
1010295 TCATATTAAGTTTCCTGACCATTGGTGTTGTCTTAATCATCTTTATTTTTTTAACCTGC
1 TCATTTTTA-TTTTTTGACCATTGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTGC
1010354 AATGTTACTC
Statistics
Matches: 824, Mismatches: 232, Indels: 130
0.69 0.20 0.11
Matches are distributed among these distances:
67 48 0.06
68 3 0.00
69 49 0.06
70 79 0.10
71 382 0.46
72 232 0.28
73 31 0.04
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (71 bp):
TCATTTTTATTTTTTGACCATTGGTGTTGTCTCAGTCATCTTTATTTTTTTGACCTGCGGTGTTG
TCCCAA
Found at i:1009409 original size:138 final size:136
Alignment explanation
Indices: 1009197--1009456 Score: 297
Period size: 138 Copynumber: 1.9 Consensus size: 136
1009187 GTTGTCTCAG
* ** * * * ***
1009197 TCATCTTTATTTTTTTGACCTGTGGTGTTATCCCAATCATTTTTATTTTTTGACTTGTGGTGTTA
1 TCATATTTATTTTTTTGACCTACGATGTTATCCCAATCATCTTTATTTTTTGACATGCAATGTTA
* * *
1009262 TCTCAATCATCTTTGTTTCTTCAATCGTT-GGTGTTGCCCCAGTCATTTTTATTTTTTTAACGTG
66 TCTCAATCATCTTTATTT-TTCAA-C-TTAAGTGTTGCCCCAATCATTTTTATTTTTTTAACGTG
1009326 TTATCTCGA
128 TTATCTCGA
* * * * *
1009335 TCATATTTATTTTTTTGACCTACGATGTTGTCCTAGTTATCTTTATTTTTTGACATGCAATGTTG
1 TCATATTTATTTTTTTGACCTACGATGTTATCCCAATCATCTTTATTTTTTGACATGCAATGTTA
* **
1009400 TCTCGATCATCTTTATTTTTCAACTTACAGTGTTGTGCCAATCATTTTTATTTTTTT
66 TCTCAATCATCTTTATTTTTCAACTTA-AGTGTTGCCCCAATCATTTTTATTTTTTT
1009457 GACCTACGGT
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
135 2 0.02
136 1 0.01
137 30 0.30
138 67 0.67
ACGTcount: A:0.18, C:0.17, G:0.13, T:0.53
Consensus pattern (136 bp):
TCATATTTATTTTTTTGACCTACGATGTTATCCCAATCATCTTTATTTTTTGACATGCAATGTTA
TCTCAATCATCTTTATTTTTCAACTTAAGTGTTGCCCCAATCATTTTTATTTTTTTAACGTGTTA
TCTCGA
Found at i:1009656 original size:107 final size:106
Alignment explanation
Indices: 1009092--1010455 Score: 459
Period size: 107 Copynumber: 12.8 Consensus size: 106
1009082 AGAAACTTTA
* * * *
1009092 ATCTTTATTTTTTTTACCTATAGTGTTGCCTCGATCATCTTTA-TTTTTCAA-CTTACGATGTTG
1 ATCTTTATTTTTTTGACTTATAGTGTTGTC-CGATCATCTTTATTTTTTCAACCTT--GGTGTTG
* * * * * *
1009155 TCTTGGTCATTTTTATTTTTTCGACCAT-TGGTGTTGTCTCAGTC
63 TCCTAGTCATCTTTATTTTTTTGA-CATATGATGTTGTCCCAGTC
* * * * * * * * *
1009199 ATCTTTATTTTTTTGACCTGTGGTGTTATCCCAATCATTTTTATTTTTT-GACTTGTGGTGTTAT
1 ATCTTTATTTTTTTGACTTATAGTGTTGT-CCGATCATCTTTATTTTTTCAACCT-TGGTGTTGT
* * * ** * * *
1009263 -CTCAATCATCTTTGTTTCTTCAATCGT-TGGTGTTGCCCCAGTC
64 CCT-AGTCATCTTTATTTTTTTGA-CATATGATGTTGTCCCAGTC
* * * * ** * *
1009306 ATTTTTATTTTTTT-A---A-CGTGTTATCTCGATCATATTTATTTTTTTGACCTACGATGTTGT
1 ATCTTTATTTTTTTGACTTATAGTGTTGTC-CGATCATCTTTATTTTTTCAACCT-TGGTGTTGT
* *** *
1009366 CCTAGTTATCTTTA-TTTTTTGACATGCAATGTTGTCTC-GATC
64 CCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAG-TC
** * * * ** *
1009408 ATCTTTA-TTTTTCAACTTACAGTGTTGTGCCAATCATTTTTATTTTTTTGACCTACGGTGTTGT
1 ATCTTTATTTTTTTGACTTATAGTGTTGT-CCGATCATCTTTATTTTTTCAACCT-TGGTGTTGT
* * * * *
1009472 CC-AGATCATTTTTA-TTTTCTAAC-TCA-CAGTGTTGTCCCAATC
64 CCTAG-TCATCTTTATTTTTTTGACAT-ATGA-TGTTGTCCCAGTC
* ** *
1009514 ATAC-TTGTTTTCCTGACTTATAGTGTTGCCTCGATCATCTTTATTTTTTCAACCGTTGGTGTTG
1 AT-CTTTATTTTTTTGACTTATAGTGTTGTC-CGATCATCTTTATTTTTTCAACC-TTGGTGTTG
* *
1009578 TCCTAGTCATTTTTATTTTTTTGACATATGATGTTGTCCCGGTC
63 TCCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAGTC
* ** *
1009622 ATCTTTATTTTTTTGACCTGCAGTGTTGTCCGATCATCTTTATTTTTTCAACCATTTGGTGTTAT
1 ATCTTTATTTTTTTGACTTATAGTGTTGTCCGATCATCTTTATTTTTTCAACC--TTGGTGTTGT
* * ** * * * *
1009687 TCTAGTCATCTTTATTTTTTTGACCTGCGACGTTATTCTAGTC
64 CCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAGTC
* * * * * * * *
1009730 ATATTTA-TTTTTTGACTTATGGTGTTGTCCCAGTCATATCTGTTTTCTCGACCGTTGGTGTTGT
1 ATCTTTATTTTTTTGACTTATAGTGTTGTCCGA-TCATCTTTATTTTTTCAACC-TTGGTGTTGT
* * * * * *
1009794 CTTAATCATTTTTATTTTTTTGACCTATGATATTGT-CTAGGTC
64 CCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCA-GTC
* * * * *
1009837 ATCTTTA-TTTTTTGACTTATGGTGTTGTCCTGATCAT-ATT-TTTTTTCAACTGTTAGTGTTAT
1 ATCTTTATTTTTTTGACTTATAGTGTTGTCC-GATCATCTTTATTTTTTCAAC-CTTGGTGTTGT
* * * *
1009899 CTTAGTCATCTTTATTTTTTTTGACCTA-CAGTGCTGTCCCTA-TC
64 CCTAGTCATCTTTA-TTTTTTTGACATATGA-TGTTGTCCC-AGTC
* ** ** * * * * * * * *
1009943 ATCTTCA-TTTTTTGACTTGCAACGTTATCCCAGTCATATTTGTTTTTTTTATCATTGGTGTCGT
1 ATCTTTATTTTTTTGACTTATAGTGTTGTCCGA-TCATCTTT-ATTTTTTCAACCTTGGTGTTGT
* * * * * * *
1010007 CCCAATCATC-TT-TTTTTTTCACCTGTGGTGTTGTCCCATTC
64 CCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAGTC
* * ** * * * * * * *
1010048 ATCTTCA-TTTTTTGACTTA-CGACATTGTCCCAATCATATTTGTTTTCTCGACCAATGGTATTG
1 ATCTTTATTTTTTTGACTTATAG-TGTTGT-CCGATCATCTTTATTTTTTCAACC-TTGGTGTTG
* * * * * * * *
1010111 TCCTGGTCATCTTTATGTTTTTGACCTATGGTTTTATCCTAATC
63 TCCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAGTC
* * ** * * * *
1010155 TTCTTTA-TTTTTTAACTTGCAATGTTGTCCCGATCATATTTATTTTTTCGATCATTGGTGTTGT
1 ATCTTTATTTTTTTGACTTATAGTGTTGT-CCGATCATCTTTATTTTTTC-AACCTTGGTGTTGT
* * ** * **
1010219 -CTCAATCATTTTTATTTTTTT-A-ACCTGCAGTGTTATCCTGGTC
64 CCT-AGTCATCTTTATTTTTTTGACATATG-A-TGTTGTCCCAGTC
* ** * * * * ** * *
1010262 ATTTTTA-TTTTTTGACTTGCATTGTTATCCCAATCAT-ATTAAGTTTCCTGACCATTGGTGTTG
1 ATCTTTATTTTTTTGACTTATAGTGTTGT-CCGATCATCTTTATTTTTTC-AACC-TTGGTGTTG
* * * * *** * * *
1010325 TCTTAATCATCTTTATTTTTTTAACCTGCAATGTT-ACTCGGTC
63 TCCTAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAGTC
* * * * * *
1010368 ATCTTTA-TTTTTTGACTTATAGTGTTGTCTCGATAATATTTATTTTCTCGATCGTTGGCGTTGT
1 ATCTTTATTTTTTTGACTTATAGTGTTGTC-CGATCATCTTTATTTTTTC-AACCTTGGTGTTGT
*
1010432 CC-AGTGATCTTTATTTATTTTGAC
64 CCTAGTCATCTTTATTT-TTTTGAC
1010456 CTCCCAGTGA
Statistics
Matches: 944, Mismatches: 252, Indels: 123
0.72 0.19 0.09
Matches are distributed among these distances:
101 9 0.01
102 44 0.05
103 18 0.02
104 9 0.01
105 115 0.12
106 185 0.20
107 420 0.44
108 133 0.14
109 11 0.01
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.51
Consensus pattern (106 bp):
ATCTTTATTTTTTTGACTTATAGTGTTGTCCGATCATCTTTATTTTTTCAACCTTGGTGTTGTCC
TAGTCATCTTTATTTTTTTGACATATGATGTTGTCCCAGTC
Found at i:1010022 original size:31 final size:33
Alignment explanation
Indices: 1009986--1010052 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
1009976 TCATATTTGT
1009986 TTTTTTTATCA-T-TGGTGTCGTCCCAATCATC
1 TTTTTTTATCACTGTGGTGTCGTCCCAATCATC
* * *
1010017 TTTTTTTTTCACCTGTGGTGTTGTCCCATTCATC
1 TTTTTTTATCA-CTGTGGTGTCGTCCCAATCATC
1010051 TT
1 TT
1010053 CATTTTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 10 0.33
33 1 0.03
34 19 0.63
ACGTcount: A:0.12, C:0.22, G:0.13, T:0.52
Consensus pattern (33 bp):
TTTTTTTATCACTGTGGTGTCGTCCCAATCATC
Found at i:1010197 original size:35 final size:35
Alignment explanation
Indices: 1010144--1010301 Score: 113
Period size: 35 Copynumber: 4.5 Consensus size: 35
1010134 ACCTATGGTT
* * * *
1010144 TTATCCTAATCTTCTTTATTTTTTAACTTGCAATG
1 TTATCCCAATCATATTTATTTTTTAACTTGCAGTG
* * *
1010179 TTGTCCCGATCATATTTATTTTTTCGATCATTG--GTG
1 TTATCCCAATCATATTTATTTTTT--AAC-TTGCAGTG
* * * *
1010215 TTGTCTCAATCATTTTTATTTTTTTAACCTGCAGTG
1 TTATCCCAATCATATTTA-TTTTTTAACTTGCAGTG
*** * * *
1010251 TTATCCTGGTCATTTTTATTTTTTGACTTGCATTG
1 TTATCCCAATCATATTTATTTTTTAACTTGCAGTG
1010286 TTATCCCAATCATATT
1 TTATCCCAATCATATT
1010302 AAGTTTCCTG
Statistics
Matches: 93, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
34 2 0.02
35 47 0.51
36 33 0.35
37 8 0.09
38 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.53
Consensus pattern (35 bp):
TTATCCCAATCATATTTATTTTTTAACTTGCAGTG
Found at i:1010252 original size:36 final size:36
Alignment explanation
Indices: 1010212--1010380 Score: 96
Period size: 36 Copynumber: 4.8 Consensus size: 36
1010202 TCGATCATTG
*
1010212 GTGTTGTCTCAATCATTTTTATTTTTTTAACCTGCA
1 GTGTTATCTCAATCATTTTTATTTTTTTAACCTGCA
** * *
1010248 GTGTTATC-CTGGTCATTTTTA-TTTTTTGACTTGCA
1 GTGTTATCTC-AATCATTTTTATTTTTTTAACCTGCA
* * * * * ** *
1010283 TTGTTATCCCAATCATATTAAGTTTCCTGACCATTG--
1 GTGTTATCTCAATCATTTTTATTTTTTTAACC--TGCA
* * *
1010319 GTGTTGTCTTAATCATCTTTATTTTTTTAACCTGCA
1 GTGTTATCTCAATCATTTTTATTTTTTTAACCTGCA
* ** *
1010355 ATGTTA-CTCGGTCATCTTTATTTTTT
1 GTGTTATCTCAATCATTTTTATTTTTT
1010381 GACTTATAGT
Statistics
Matches: 98, Mismatches: 28, Indels: 15
0.70 0.20 0.11
Matches are distributed among these distances:
34 2 0.02
35 44 0.45
36 50 0.51
38 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.51
Consensus pattern (36 bp):
GTGTTATCTCAATCATTTTTATTTTTTTAACCTGCA
Found at i:1010470 original size:27 final size:26
Alignment explanation
Indices: 1010432--1010483 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
1010422 TTGGCGTTGT
*
1010432 CCAGTGATCTTTATTTATTTTGACCTC
1 CCAGTGATCTTTATCT-TTTTGACCTC
1010459 CCAGTGATCTTTATCTTTTTGACCT
1 CCAGTGATCTTTATCTTTTTGACCT
1010484 ATGGTGCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (26 bp):
CCAGTGATCTTTATCTTTTTGACCTC
Found at i:1010625 original size:35 final size:35
Alignment explanation
Indices: 1010556--1010731 Score: 156
Period size: 35 Copynumber: 5.0 Consensus size: 35
1010546 TTTAACCGTT
* * *
1010556 GGTGTTGTTCCAATCATCTTTATTTTTTTGACTTGC
1 GGTGTTCTCCCAATCATATTTA-TTTTTTGACTTGC
**
1010592 GGTGTTCTCCCAATCATATTTATTTTTCAACTTGC
1 GGTGTTCTCCCAATCATATTTATTTTTTGACTTGC
* * *
1010627 TGTGTTCTCTCAGTCATATTTATTTTTTGACTTGC
1 GGTGTTCTCCCAATCATATTTATTTTTTGACTTGC
* * * * * *
1010662 AGTGTTATCCCAGTCATCTTTATTTTTTTTGAC-CGT
1 GGTGTTCTCCCAATCATATTTA--TTTTTTGACTTGC
* * * *
1010698 GTTGTTATCCGAATCATTTTTATTTTTTGACTTG
1 GGTGTTCTCCCAATCATATTTATTTTTTGACTTG
1010732 GGACATTATC
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
34 9 0.08
35 60 0.52
36 37 0.32
37 9 0.08
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.52
Consensus pattern (35 bp):
GGTGTTCTCCCAATCATATTTATTTTTTGACTTGC
Found at i:1010859 original size:35 final size:35
Alignment explanation
Indices: 1010569--1010860 Score: 140
Period size: 35 Copynumber: 8.2 Consensus size: 35
1010559 GTTGTTCCAA
* * * *
1010569 TCATCTTTATTTTTTTGACTTGCGGTGTTCTCCCAA
1 TCATTTTTA-TTTTTTGACTTGCGATGTTATCCCAG
* ** * *
1010605 TCATATTTATTTTTCAACTTGCTG-TGTTCTCTCAG
1 TCATTTTTATTTTTTGACTTGC-GATGTTATCCCAG
*
1010640 TCATATTTATTTTTTGACTTGC-AGTGTTATCCCAG
1 TCATTTTTATTTTTTGACTTGCGA-TGTTATCCCAG
* * * * * *
1010675 TCATCTTTATTTTTTTTGAC-CGTGTTGTTATCCGAA
1 TCAT-TTT-TATTTTTTGACTTGCGATGTTATCCCAG
* ** **
1010711 TCATTTTTATTTTTTGACTTGGGACATTATCCTGG
1 TCATTTTTATTTTTTGACTTGCGATGTTATCCCAG
** * * * * * *
1010746 TCATCCTTGTTTGTCTGACCTGCGATTTTGTCTCAG
1 TCATTTTTATTT-TTTGACTTGCGATGTTATCCCAG
* * * * * * *
1010782 TCATCTTTATTTTTTAGACCTGTGGTGTTGTCTCAA
1 TCATTTTTATTTTTT-GACTTGCGATGTTATCCCAG
* * **
1010818 TTATTTTTATTTTTTGACTTGCGATGTTCTCTTAG
1 TCATTTTTATTTTTTGACTTGCGATGTTATCCCAG
1010853 TCATTTTT
1 TCATTTTT
1010861 GTTTCTCTGA
Statistics
Matches: 194, Mismatches: 53, Indels: 19
0.73 0.20 0.07
Matches are distributed among these distances:
34 10 0.05
35 96 0.49
36 78 0.40
37 10 0.05
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.52
Consensus pattern (35 bp):
TCATTTTTATTTTTTGACTTGCGATGTTATCCCAG
Found at i:1010863 original size:107 final size:103
Alignment explanation
Indices: 1010564--1010903 Score: 288
Period size: 107 Copynumber: 3.2 Consensus size: 103
1010554 TTGGTGTTGT
* * * * * **
1010564 TCCAATCATCTTTATTTTTTTGACTTGCGGTGTTCTCCCAATCATATTTATTTTTCAACTTGCTG
1 TCCAGTCATCTTTATTTTTTTGACCTGTGGTGTTAT-CCAATCATTTTTATTTTTTGACTTGC-G
* * * * * *
1010629 -TGTTCTCTCAGTCATATTTATTTTTTGACTTGCAGTGTTA
64 ATGTTCTCTTAGTCATATTTGTTTTCTGACCTGCA-TTTTG
* *
1010669 TCCCAGTCATCTTTATTTTTTTTGACC-GTGTTGTTATCCGAATCATTTTTATTTTTTGACTTGG
1 T-CCAGTCATCTTTA-TTTTTTTGACCTGTGGTGTTATCC-AATCATTTTTATTTTTTGACTTGC
** * * * **
1010733 GACATTATCCTGGTCATCCTTGTTTGTCTGACCTGCGATTTTG
63 GATGTTCTCTTAGTCATATTTGTTT-TCTGACCTGC-ATTTTG
* * *
1010776 TCTCAGTCATCTTTATTTTTTAGACCTGTGGTGTTGTCTCAATTATTTTTATTTTTTGACTTGCG
1 TC-CAGTCATCTTTATTTTTTTGACCTGTGGTGTTATC-CAATCATTTTTATTTTTTGACTTGCG
* * *
1010841 ATGTTCTCTTAGTCATTTTTGTTTCTCTGACCTACCTTATTG
64 ATGTTCTCTTAGTCATATTTGTTT-TCTGACCTGCATT-TTG
*
1010883 TCCTAGTCATATTTATTTTTT
1 TCC-AGTCATCTTTATTTTTT
1010904 CAATTTACGA
Statistics
Matches: 186, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
105 4 0.02
106 67 0.36
107 113 0.61
108 2 0.01
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (103 bp):
TCCAGTCATCTTTATTTTTTTGACCTGTGGTGTTATCCAATCATTTTTATTTTTTGACTTGCGAT
GTTCTCTTAGTCATATTTGTTTTCTGACCTGCATTTTG
Found at i:1011043 original size:24 final size:21
Alignment explanation
Indices: 1011012--1011067 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 21
1011002 TATTTTTCAA
1011012 AAAAAAAAAAAACAAACAAAAC
1 AAAAAAAAAAAAC-AACAAAAC
*
1011034 AAATAGAAAAACTAACAACAAAAC
1 AAA-A-AAAAA-AAACAACAAAAC
1011058 AAAAAAAAAA
1 AAAAAAAAAA
1011068 GGGGAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 8 0.28
23 2 0.07
24 16 0.55
25 3 0.10
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAAACAACAAAAC
Found at i:1011441 original size:20 final size:21
Alignment explanation
Indices: 1011402--1011442 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1011392 AGTCAAACAA
*
1011402 AGTCAAAATTGTACAAAACTT
1 AGTCAAAATTGGACAAAACTT
*
1011423 AGTCAAAA-TGGATAAAACTT
1 AGTCAAAATTGGACAAAACTT
1011443 GGGTTAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (21 bp):
AGTCAAAATTGGACAAAACTT
Found at i:1012312 original size:25 final size:26
Alignment explanation
Indices: 1012264--1012317 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
1012254 ACAAGTATGA
*
1012264 AAAAATAGAAGTGGAAAAACT-AAAG
1 AAAAATAGAAGAGGAAAAACTAAAAG
* * *
1012289 AAAAATAGGAGAGGAAAGAGTAAAAG
1 AAAAATAGAAGAGGAAAAACTAAAAG
1012315 AAA
1 AAA
1012318 GGCTACTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.09
Consensus pattern (26 bp):
AAAAATAGAAGAGGAAAAACTAAAAG
Found at i:1017095 original size:24 final size:24
Alignment explanation
Indices: 1017067--1017114 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1017057 AAATTCAAAA
*
1017067 CCATACCCATCCCCATCCTCATTC
1 CCATACCCATCCCCATCCCCATTC
*
1017091 CCATACCCATCTCCATCCCCATTC
1 CCATACCCATCCCCATCCCCATTC
1017115 AGATAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.54, G:0.00, T:0.25
Consensus pattern (24 bp):
CCATACCCATCCCCATCCCCATTC
Found at i:1026837 original size:29 final size:29
Alignment explanation
Indices: 1026770--1026839 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
1026760 ATTTTTGTAC
* * *
1026770 ATATTCATGTTAGTTGTTTCTAGTCATAT
1 ATATTCGTATTAGTTGTGTCTAGTCATAT
* * *
1026799 ATCTAT-GTATTAGTTGTGTCTATTCATTT
1 ATAT-TCGTATTAGTTGTGTCTAGTCATAT
1026828 ATATTCGTATTA
1 ATATTCGTATTA
1026840 TTCATATTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
28 1 0.03
29 30 0.94
30 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.53
Consensus pattern (29 bp):
ATATTCGTATTAGTTGTGTCTAGTCATAT
Found at i:1029462 original size:2 final size:2
Alignment explanation
Indices: 1029455--1029488 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1029445 CATGAGCCTG
*
1029455 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1029489 AACAATGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1039700 original size:190 final size:189
Alignment explanation
Indices: 1039341--1039710 Score: 569
Period size: 190 Copynumber: 2.0 Consensus size: 189
1039331 ACCTAAATCT
* *
1039341 AAATGAAAATTGAAATAACATTTAAAAGAATAACTAAAAAATAAATAAAATGCAACAAAAAACTT
1 AAATGAAAATTGAAAGAACATTCAAAAGAATAACTAAAAAATAAATAAAATGCAACAAAAAACTT
*
1039406 GCACAATAAAAAAATGTACCAACTATGATCAACAAAAGCAAAAGAAATTCAACTGAGCTAACAAC
66 GCACAATAAAAAAATGTACCAACTATGATCAACAAAAGCAAAAGAAATTCAACTGAGATAACAAC
* *
1039471 ATCTTCAGTGATAACTGTTTCCCAAAAATCAACAAGGAAATCATAGAGTTTATGTGGAA
131 ATCTTCAGTGATAACTGTTTCACAAAAATCAACAAGGAAATCACAGAGTTTATGTGGAA
*
1039530 AAATGGAAATTGAAAGAACATTCAAAAGAATAACTAAAAAATAAATAAAATGCAACAAAAAACTT
1 AAATGAAAATTGAAAGAACATTCAAAAGAATAACTAAAAAATAAATAAAATGCAACAAAAAACTT
* *** * * * * * **
1039595 GTATGCTAAAAAATATTTACCAATTATGATTAGCAAATGCAAAAGAAATTCAACTGAGATAACTT
66 GCACAATAAAAAA-ATGTACCAACTATGATCAACAAAAGCAAAAGAAATTCAACTGAGATAACAA
*
1039660 CATCTTCATTGATAACTGTTTCACAAAAATCAACAAGGAAATCACAGAGTT
130 CATCTTCAGTGATAACTGTTTCACAAAAATCAACAAGGAAATCACAGAGTT
1039711 ACGTAGAAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
189 71 0.44
190 91 0.56
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (189 bp):
AAATGAAAATTGAAAGAACATTCAAAAGAATAACTAAAAAATAAATAAAATGCAACAAAAAACTT
GCACAATAAAAAAATGTACCAACTATGATCAACAAAAGCAAAAGAAATTCAACTGAGATAACAAC
ATCTTCAGTGATAACTGTTTCACAAAAATCAACAAGGAAATCACAGAGTTTATGTGGAA
Found at i:1040552 original size:25 final size:25
Alignment explanation
Indices: 1040521--1040597 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 25
1040511 ACTGCCTTGA
*
1040521 TGTTGCATGGCTGGGTTGCTAAATG
1 TGTTGCACGGCTGGGTTGCTAAATG
1040546 TGTTGCACGGCTGGGTTGCTAAATG
1 TGTTGCACGGCTGGGTTGCTAAATG
** * *
1040571 TGTTGCACAACTAGGTTTCTAAATG
1 TGTTGCACGGCTGGGTTGCTAAATG
1040596 TG
1 TG
1040598 GACCCCCTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.35
Consensus pattern (25 bp):
TGTTGCACGGCTGGGTTGCTAAATG
Found at i:1044216 original size:17 final size:18
Alignment explanation
Indices: 1044180--1044218 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
1044170 ATTGAACAAG
1044180 AATTAAAAAGCTAAAAGTGC
1 AATTAAAAAGC--AAAGTGC
1044200 AATTAAAAAGC-AAGTGC
1 AATTAAAAAGCAAAGTGC
1044217 AA
1 AA
1044219 AGATGGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
20 11 0.58
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.18
Consensus pattern (18 bp):
AATTAAAAAGCAAAGTGC
Found at i:1052216 original size:42 final size:42
Alignment explanation
Indices: 1052169--1052251 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
1052159 CCTTCCTTTG
* *
1052169 ATCTTTTTAAGCTCTAAAAAGTCAAAATTATAACCAATTAGA
1 ATCTTTTTAAGCTCCAAAAAGCCAAAATTATAACCAATTAGA
**
1052211 ATCTTTTTAAGCTCCAAAAAGCCGGAATTATAACCAATTAG
1 ATCTTTTTAAGCTCCAAAAAGCCAAAATTATAACCAATTAG
1052252 GATCCTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (42 bp):
ATCTTTTTAAGCTCCAAAAAGCCAAAATTATAACCAATTAGA
Found at i:1053402 original size:20 final size:20
Alignment explanation
Indices: 1053377--1053416 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1053367 AATACCTTTA
1053377 TCAAAATTGGATATCATATT
1 TCAAAATTGGATATCATATT
1053397 TCAAAATTGGATATCATATT
1 TCAAAATTGGATATCATATT
1053417 CTAATGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TCAAAATTGGATATCATATT
Found at i:1053449 original size:26 final size:26
Alignment explanation
Indices: 1053420--1053472 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1053410 TCATATTCTA
1053420 ATGTTTAGCATTGTTTAATTTAGAGG
1 ATGTTTAGCATTGTTTAATTTAGAGG
*
1053446 ATGTTTAGCATTGTTTGATTTAGAGG
1 ATGTTTAGCATTGTTTAATTTAGAGG
1053472 A
1 A
1053473 CTCATCCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.45
Consensus pattern (26 bp):
ATGTTTAGCATTGTTTAATTTAGAGG
Found at i:1057981 original size:20 final size:20
Alignment explanation
Indices: 1057946--1058000 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
1057936 TTAATTTGTA
1057946 TTTTACAATCATTAAGATAAGG
1 TTTTA-AAT-ATTAAGATAAGG
1057968 TTTTAAATATTAAGATAAGG
1 TTTTAAATATTAAGATAAGG
*
1057988 TTTTAAATCTTAA
1 TTTTAAATATTAA
1058001 TGATGGTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 24 0.75
21 3 0.09
22 5 0.16
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTTAAATATTAAGATAAGG
Found at i:1060632 original size:17 final size:18
Alignment explanation
Indices: 1060597--1060636 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1060587 ACATTTTCAT
* *
1060597 TTTTGGAAACTTTATCCA
1 TTTTGAAAACTTTAACCA
1060615 TTTTGAAAAC-TTAACCA
1 TTTTGAAAACTTTAACCA
1060632 TTTTG
1 TTTTG
1060637 GTTCTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (18 bp):
TTTTGAAAACTTTAACCA
Found at i:1062119 original size:21 final size:20
Alignment explanation
Indices: 1062090--1062139 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1062080 AAATTGCTTG
1062090 AAAACTTAAATTAAACTTGTA
1 AAAACTTAAATT-AACTTGTA
* *
1062111 AAAATTTAAATTAACTTGAA
1 AAAACTTAAATTAACTTGTA
1062131 AGAAACTTA
1 A-AAACTTA
1062140 TTTGAATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (20 bp):
AAAACTTAAATTAACTTGTA
Found at i:1062830 original size:19 final size:19
Alignment explanation
Indices: 1062802--1062851 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
1062792 ATTGCAACTC
1062802 CTAA-TCAAAGTAGGAATT
1 CTAAGTCAAAGTAGGAATT
* *
1062820 CTAAGTCAAAGTGGGATTT
1 CTAAGTCAAAGTAGGAATT
*
1062839 CAAAGTCAAAGTA
1 CTAAGTCAAAGTA
1062852 AGAAAACCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (19 bp):
CTAAGTCAAAGTAGGAATT
Found at i:1077286 original size:40 final size:40
Alignment explanation
Indices: 1077231--1077307 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
1077221 CATCAGCTGA
1077231 TGTGAATTTCAACCAAAGGATTACCTGCTGAGTTTTTTTT
1 TGTGAATTTCAACCAAAGGATTACCTGCTGAGTTTTTTTT
*
1077271 TGTGAAGTTT-AACCAAAGGATTACCTGTTGAGTTTTT
1 TGTGAA-TTTCAACCAAAGGATTACCTGCTGAGTTTTT
1077308 AGCTATGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 32 0.91
41 3 0.09
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (40 bp):
TGTGAATTTCAACCAAAGGATTACCTGCTGAGTTTTTTTT
Found at i:1079673 original size:36 final size:36
Alignment explanation
Indices: 1079611--1079679 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
1079601 ACAAACTCAA
*
1079611 TTAATACTTTTAAATATGTTGATCTAAGTCTCTCTT
1 TTAATACTTTTAAATATATTGATCTAAGTCTCTCTT
1079647 TTAATACTTTTGAAA-ATATT-ATTCTAAGTCTCT
1 TTAATACTTTT-AAATATATTGA-TCTAAGTCTCT
1079680 AATTACTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 1 0.03
36 26 0.87
37 3 0.10
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.49
Consensus pattern (36 bp):
TTAATACTTTTAAATATATTGATCTAAGTCTCTCTT
Found at i:1084097 original size:15 final size:16
Alignment explanation
Indices: 1084077--1084110 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1084067 AATTTGAGGG
*
1084077 AAAAAATGAAAAA-AA
1 AAAAAAAGAAAAAGAA
1084092 AAAAAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
1084108 AAA
1 AAA
1084111 GCGAGTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:1085893 original size:17 final size:17
Alignment explanation
Indices: 1085873--1085905 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1085863 ATTTTCAAGA
1085873 ATTATAAAAAT-TTTTTC
1 ATTA-AAAAATATTTTTC
1085890 ATTAAAAAATATTTTT
1 ATTAAAAAATATTTTT
1085906 TTCAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTAAAAAATATTTTTC
Found at i:1089342 original size:18 final size:18
Alignment explanation
Indices: 1089319--1089355 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1089309 CTTCTTTTTT
*
1089319 AATTATTATTATTATTAA
1 AATTATTATTAATATTAA
1089337 AATTATTATTAATATTAA
1 AATTATTATTAATATTAA
1089355 A
1 A
1089356 CTAAAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTATTATTAATATTAA
Found at i:1089524 original size:7 final size:7
Alignment explanation
Indices: 1089503--1089550 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
1089493 TTTTTCTGTC
1089503 TTTTT-T
1 TTTTTAT
*
1089509 TTGTTAT
1 TTTTTAT
1089516 TTTTTAT
1 TTTTTAT
1089523 TTTTTATT
1 TTTTTA-T
1089531 TATTATTAT
1 T-TT-TTAT
1089540 TTTTTAT
1 TTTTTAT
1089547 TTTT
1 TTTT
1089551 GAAAAGCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 4 0.11
7 21 0.58
8 4 0.11
9 4 0.11
10 3 0.08
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:1089527 original size:17 final size:16
Alignment explanation
Indices: 1089505--1089550 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1089495 TTTCTGTCTT
*
1089505 TTTTTTGTTATTTTTTA
1 TTTTTTATT-TTTTTTA
*
1089522 TTTTTTATTTATTATTA
1 TTTTTTATTT-TTTTTA
1089539 TTTTTTATTTTT
1 TTTTTTATTTTT
1089551 GAAAAGCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 3 0.12
17 23 0.88
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTTTTTTA
Found at i:1089617 original size:46 final size:47
Alignment explanation
Indices: 1089551--1089825 Score: 244
Period size: 49 Copynumber: 5.8 Consensus size: 47
1089541 TTTTATTTTT
**
1089551 GAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTC-TCTTG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
* * * *
1089597 AAAAAGCTCTTCTCAGTAGAGGCTCAATAACTTTAAAATTCTTATCTTG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC--ATCTTG
* * *
1089646 GAAAAGCTCGTCTTAGCAGAGGCTGAACAACTTTAAAAAAATCTCTCATCTTG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT---AAAA--T-TCATCTTG
* *
1089699 GAAGAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAATTCTCATCTTG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-T-TCATCTTG
* *
1089748 GAAAAGCTCATCTCAGCAGAGGCTCAA-AA---T---A-TCATTTTG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
* * *
1089787 AAAAAAGCTCCTCTCAGTAGAGGGTCAACAACTTTAAAA
1 -GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
1089826 AATTTTCATC
Statistics
Matches: 189, Mismatches: 23, Indels: 33
0.77 0.09 0.13
Matches are distributed among these distances:
39 7 0.04
40 23 0.12
41 2 0.01
42 1 0.01
44 1 0.01
45 1 0.01
46 37 0.20
47 1 0.01
48 2 0.01
49 67 0.35
50 4 0.02
52 4 0.02
53 36 0.19
54 1 0.01
55 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (47 bp):
GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
Found at i:1089717 original size:53 final size:49
Alignment explanation
Indices: 1089551--1089774 Score: 265
Period size: 49 Copynumber: 4.6 Consensus size: 49
1089541 TTTTATTTTT
* **
1089551 GAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAA-T-TC-TCTTG
1 GAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTG
* * * * *
1089597 AAAAAGCTCTTCTCAGTAGAGGCTCAATAACTTTAAAATTCTTATCTTG
1 GAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTG
* * *
1089646 GAAAAGCTCGTCTTAGCAGAGGCTGAACAACTTTAAAAAAATCTCTCATCTTG
1 GAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT---AAAAT-TCTCATCTTG
* * *
1089699 GAAGAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAATTCTCATCTTG
1 GAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTG
1089748 GAAAAGCTCATCTCAGCAGAGGCTCAA
1 GAAAAGCTCATCTCAGCAGAGGCTCAA
1089775 AATATCATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
46 34 0.22
47 1 0.01
48 1 0.01
49 67 0.44
50 5 0.03
52 5 0.03
53 39 0.26
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (49 bp):
GAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTG
Done.