Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 61 of 161
Found at i:19188551 original size:15 final size:15
Alignment explanation
Indices: 19188505--19188552 Score: 73
Period size: 14 Copynumber: 3.3 Consensus size: 15
19188495 AATTAAGTTA
19188505 TTTTCTAGAAATTAT
1 TTTTCTAGAAATTAT
*
19188520 TTTTCGA-AAATTA-
1 TTTTCTAGAAATTAT
19188533 TTTTCTAGAAATTAT
1 TTTTCTAGAAATTAT
19188548 TTTTC
1 TTTTC
19188553 GAAAGTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 12 0.41
15 11 0.38
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.54
Consensus pattern (15 bp):
TTTTCTAGAAATTAT
Found at i:19189796 original size:5 final size:5
Alignment explanation
Indices: 19189786--19189823 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
19189776 AATACTAATA
19189786 ATTAT ATTAT ATTAT ATTTAT ATGT-T ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT A-TTAT AT-TAT ATTAT ATTAT AT
19189824 AAATAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 23 0.77
6 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:19189808 original size:16 final size:15
Alignment explanation
Indices: 19189786--19189823 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19189776 AATACTAATA
19189786 ATTATAT-TATATTAT
1 ATTATATGT-TATTAT
19189801 ATTTATATGTTATTAT
1 A-TTATATGTTATTAT
19189817 ATTATAT
1 ATTATAT
19189824 AAATAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTATATGTTATTAT
Found at i:19195380 original size:102 final size:102
Alignment explanation
Indices: 19195215--19195572 Score: 547
Period size: 102 Copynumber: 3.5 Consensus size: 102
19195205 GGTGGATTCC
* * **
19195215 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTCAGGGGAATCAGCACT
19195280 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATTA
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATTA
**
19195317 GCACTTAGCAACCACCAATGAATAGGGGAATCAACACTTAGCAACCCCTCAGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTCAGGGGAATCAGCACT
* * *
19195382 TAGCAACCCCCTTTCACATTTAAAATAG-GGTGGAATCA
66 TAGCAACCCCC-TTCACATTTCAGAT-GCGGTGGAATTA
* * **
19195420 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTCAGGGGAATCAGCACT
19195485 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATTA
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATTA
* **
19195522 GCACTTAGCAACCACTAATGAATAGGGGAATCAACACTTAGCAACCCCTCA
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTCA
19195573 TTTCGCTTAA
Statistics
Matches: 228, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.00
102 135 0.59
103 91 0.40
104 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.19
Consensus pattern (102 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTCAGGGGAATCAGCACT
TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATTA
Found at i:19195381 original size:27 final size:27
Alignment explanation
Indices: 19195340--19195391 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
19195330 ACCAATGAAT
19195340 AGGGGAATCAACACTTAGCAACCCCTC
1 AGGGGAATCAACACTTAGCAACCCCTC
*
19195367 AGGGGAATCAGCACTTAGCAACCCC
1 AGGGGAATCAACACTTAGCAACCCC
19195392 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.13
Consensus pattern (27 bp):
AGGGGAATCAACACTTAGCAACCCCTC
Found at i:19196544 original size:21 final size:21
Alignment explanation
Indices: 19196520--19196569 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
19196510 GAAATAGCTC
19196520 GCCCGACGTATGTGACACCCT
1 GCCCGACGTATGTGACACCCT
*
19196541 GCCCAACGTATGTGACACCCT
1 GCCCGACGTATGTGACACCCT
*
19196562 GCTCGACG
1 GCCCGACG
19196570 AAGCCTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (21 bp):
GCCCGACGTATGTGACACCCT
Found at i:19201007 original size:26 final size:28
Alignment explanation
Indices: 19200941--19201012 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
19200931 GTTTCTGTTA
19200941 AAGGAATGCCTTTGTGGTAAATCTCTAAT
1 AAGGAATGCCTTTGTGGTAAA-CTCTAAT
*
19200970 AAGGAATACCTTTGTGGT-AA-TCT-AT
1 AAGGAATGCCTTTGTGGTAAACTCTAAT
19200995 AAGGAGATGCCTTTGTGG
1 AAGGA-ATGCCTTTGTGG
19201013 CACAACGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.17
26 14 0.35
28 2 0.05
29 17 0.43
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
AAGGAATGCCTTTGTGGTAAACTCTAAT
Found at i:19201090 original size:29 final size:29
Alignment explanation
Indices: 19201048--19201188 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 29
19201038 TTAATTTTCA
* * **
19201048 TAAAACAATGCCTTTGTGGTGATCTCTAT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
* *
19201077 TAAAAGGAAGCCTTTGTGACAATCTCTAT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
* * * *
19201106 TAAAAGGAAGCCTTTGTGACGATCTCTGT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
* * * *
19201135 TAAAATAAAGCCTTTGTGGTAATATCTTT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
19201164 TAAAAGAAAGCCTTTGTGGCAATCT
1 TAAAAGAAAGCCTTTGTGGCAATCT
19201189 TTGTCAAAGG
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
TAAAAGAAAGCCTTTGTGGCAATCTCTAT
Found at i:19201138 original size:58 final size:58
Alignment explanation
Indices: 19201048--19201209 Score: 173
Period size: 58 Copynumber: 2.8 Consensus size: 58
19201038 TTAATTTTCA
* * * * *
19201048 TAAAACAATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCCTTTGTGACAATCTCTAT
1 TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTGACAATATCTAT
* * ** ** *
19201106 TAAAAGGAAGCCTTTGTGACGATCTCTGTTAAAATAAAGCCTTTGTGGTAATATCTTT
1 TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTGACAATATCTAT
* * * *
19201164 TAAAAGAAAGCCTTTGTGGCAATCTTTG-TCAAAGGATGCCTTTGTG
1 TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTG
19201210 GCGAGACTCT
Statistics
Matches: 84, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
57 14 0.17
58 70 0.83
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (58 bp):
TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTGACAATATCTAT
Found at i:19201151 original size:87 final size:86
Alignment explanation
Indices: 19201048--19201209 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 86
19201038 TTAATTTTCA
* * * *
19201048 TAAAACAATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCCTTTGTGACAATCTCTAT-TAAAAG
1 TAAAACAAAGCCTTTGTGGTAATATCTATTAAAAGAAAGCCTTTGTGACAATCT-T-TGTAAAAG
19201112 GAAGCCTTTGTGACGATCTCTGT
64 GAAGCCTTTGTGACGATCTCTGT
* * * *
19201135 TAAAATAAAGCCTTTGTGGTAATATCTTTTAAAAGAAAGCCTTTGTGGCAATCTTTGTCAAAGGA
1 TAAAACAAAGCCTTTGTGGTAATATCTATTAAAAGAAAGCCTTTGTGACAATCTTTGTAAAAGGA
*
19201200 TGCCTTTGTG
66 AGCCTTTGTG
19201210 GCGAGACTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.02
86 17 0.26
87 47 0.72
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (86 bp):
TAAAACAAAGCCTTTGTGGTAATATCTATTAAAAGAAAGCCTTTGTGACAATCTTTGTAAAAGGA
AGCCTTTGTGACGATCTCTGT
Found at i:19215379 original size:21 final size:20
Alignment explanation
Indices: 19215350--19215391 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
19215340 GTGTCTTAAT
19215350 GGTGTGGTGCGA-TAGGCAAG
1 GGTGTGGTGCGAGTA-GCAAG
19215370 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
19215391 G
1 G
19215392 CAGCAGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.19, C:0.10, G:0.50, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:19215973 original size:16 final size:15
Alignment explanation
Indices: 19215948--19215981 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19215938 AAAGTTGATA
*
19215948 ATAATTAATATATATT
1 ATAATAAATATA-ATT
19215964 ATAATAAATATAATT
1 ATAATAAATATAATT
19215979 ATA
1 ATA
19215982 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:19218478 original size:164 final size:164
Alignment explanation
Indices: 19218207--19218535 Score: 658
Period size: 164 Copynumber: 2.0 Consensus size: 164
19218197 CTTATCAAAT
19218207 TTGAACGTCGTGTCCTTCTCCAATAATTTGCATAAGGGTTTAGCAATTTTGGAGAAATCCTTAAT
1 TTGAACGTCGTGTCCTTCTCCAATAATTTGCATAAGGGTTTAGCAATTTTGGAGAAATCCTTAAT
19218272 AAATCTTCGATAGAAACCGGTGTGGCCCAAAAAGCTCCTAACACTCTTTACATATTTTGGAGGTA
66 AAATCTTCGATAGAAACCGGTGTGGCCCAAAAAGCTCCTAACACTCTTTACATATTTTGGAGGTA
19218337 GGAGTTTCTCAATAATGTCTACCTTTGCTTTATC
131 GGAGTTTCTCAATAATGTCTACCTTTGCTTTATC
19218371 TTGAACGTCGTGTCCTTCTCCAATAATTTGCATAAGGGTTTAGCAATTTTGGAGAAATCCTTAAT
1 TTGAACGTCGTGTCCTTCTCCAATAATTTGCATAAGGGTTTAGCAATTTTGGAGAAATCCTTAAT
19218436 AAATCTTCGATAGAAACCGGTGTGGCCCAAAAAGCTCCTAACACTCTTTACATATTTTGGAGGTA
66 AAATCTTCGATAGAAACCGGTGTGGCCCAAAAAGCTCCTAACACTCTTTACATATTTTGGAGGTA
19218501 GGAGTTTCTCAATAATGTCTACCTTTGCTTTATC
131 GGAGTTTCTCAATAATGTCTACCTTTGCTTTATC
19218535 T
1 T
19218536 ACTGGAAACA
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 165 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (164 bp):
TTGAACGTCGTGTCCTTCTCCAATAATTTGCATAAGGGTTTAGCAATTTTGGAGAAATCCTTAAT
AAATCTTCGATAGAAACCGGTGTGGCCCAAAAAGCTCCTAACACTCTTTACATATTTTGGAGGTA
GGAGTTTCTCAATAATGTCTACCTTTGCTTTATC
Found at i:19225799 original size:22 final size:23
Alignment explanation
Indices: 19225765--19225810 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
19225755 TCTGTCAAAA
19225765 ATTATAAAAATTAATCAAAATTT
1 ATTATAAAAATTAATCAAAATTT
*
19225788 ATTAT-AAAATTAATGAAAATTT
1 ATTATAAAAATTAATCAAAATTT
19225810 A
1 A
19225811 AAACGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTATAAAAATTAATCAAAATTT
Found at i:19228458 original size:18 final size:18
Alignment explanation
Indices: 19228435--19228470 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19228425 TGTTAACACG
*
19228435 AAAGTGTTATTGCAGTCA
1 AAAGTGTTATTACAGTCA
19228453 AAAGTGTTATTACAGTCA
1 AAAGTGTTATTACAGTCA
19228471 TTGACACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (18 bp):
AAAGTGTTATTACAGTCA
Found at i:19236367 original size:18 final size:18
Alignment explanation
Indices: 19236346--19236380 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19236336 TGCAGAAGCA
19236346 GAAGTTGTTGTAGAAGAG
1 GAAGTTGTTGTAGAAGAG
*
19236364 GAAGTTGTTGTTGAAGA
1 GAAGTTGTTGTAGAAGA
19236381 AAAGAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.37, T:0.31
Consensus pattern (18 bp):
GAAGTTGTTGTAGAAGAG
Found at i:19236375 original size:21 final size:21
Alignment explanation
Indices: 19236349--19236390 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19236339 AGAAGCAGAA
* * *
19236349 GTTGTTGTAGAAGAGGAAGTT
1 GTTGTTGAAGAAAAGAAAGTT
19236370 GTTGTTGAAGAAAAGAAAGTT
1 GTTGTTGAAGAAAAGAAAGTT
19236391 ATTGAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
GTTGTTGAAGAAAAGAAAGTT
Found at i:19236817 original size:17 final size:17
Alignment explanation
Indices: 19236792--19236825 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19236782 GATAAGTATA
* *
19236792 CATTTTCATTGCATTTT
1 CATTGTCATTACATTTT
19236809 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
19236826 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:19243812 original size:144 final size:144
Alignment explanation
Indices: 19243553--19243983 Score: 740
Period size: 144 Copynumber: 3.0 Consensus size: 144
19243543 GAGACCTTTC
* * *
19243553 CTATTGCTGAAAGATTGGTAAGTCAAAC-AAAAAGATGAGGATGAGGAAGAAGGATTTTGAGAAG
1 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
*
19243617 CCTTTTCCTTGGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
66 CCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
19243682 CTTCCATCAAACAT
131 CTTCCATCAAACAT
* *
19243696 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGACGAAGGAGGATTTTGAGAAG
1 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
* *
19243761 CCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTTATCTTACTTATGTTGTTAA
66 CCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
19243826 CTTCCATCAAACAT
131 CTTCCATCAAACAT
* *
19243840 CTATTGCTAAAGGATTGGTACA-TCAAACAAAAGAGAGGAAGATGAGGAAGAAGGATTTTGAGAA
1 CTATTGCTGAAGGATTGGTA-AGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAA
*
19243904 GTCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTA
65 GCCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTA
19243969 ACTTCCATCAAACAT
130 ACTTCCATCAAACAT
19243984 TTATGAGGAA
Statistics
Matches: 271, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
143 27 0.10
144 243 0.90
145 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (144 bp):
CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
CCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
CTTCCATCAAACAT
Found at i:19247187 original size:25 final size:25
Alignment explanation
Indices: 19247159--19247206 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
19247149 AGGCATTCTG
*
19247159 GATAACACACCACATAGGCTCTTAT
1 GATAACACACCACAAAGGCTCTTAT
***
19247184 GATAGTTCACCACAAAGGCTCTT
1 GATAACACACCACAAAGGCTCTT
19247207 CGAATAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
GATAACACACCACAAAGGCTCTTAT
Found at i:19247217 original size:25 final size:25
Alignment explanation
Indices: 19247166--19247253 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
19247156 CTGGATAACA
* * *
19247166 CACCACATAGGCTCTTATG-ATAGTT
1 CACCACAAAGGCTCTT-CGAATAATT
19247191 CACCACAAAGGCTCTTCGAATAATT
1 CACCACAAAGGCTCTTCGAATAATT
*
19247216 CACCATAAAGGCTCTTC-AGATAATT
1 CACCACAAAGGCTCTTCGA-ATAATT
*
19247241 CGCCACAAAGGCT
1 CACCACAAAGGCT
19247254 TGACTTGGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.04
25 53 0.96
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
CACCACAAAGGCTCTTCGAATAATT
Found at i:19248994 original size:25 final size:25
Alignment explanation
Indices: 19248966--19249018 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19248956 CTCCTGTGAC
* *
19248966 CATTCTGATTTACAGCTCATGTAAG
1 CATTCTGATTCACAACTCATGTAAG
* *
19248991 CATTCTGATTCACAACTCGTGTGAG
1 CATTCTGATTCACAACTCATGTAAG
19249016 CAT
1 CAT
19249019 ACATGTATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
CATTCTGATTCACAACTCATGTAAG
Found at i:19265190 original size:22 final size:21
Alignment explanation
Indices: 19265159--19265200 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19265149 ATAAACTAAA
19265159 ACTAAATAAAAACCCTAAAACT
1 ACTAAAT-AAAACCCTAAAACT
*
19265181 ACTAACTAAAACCCTAAAAC
1 ACTAAATAAAACCCTAAAAC
19265201 GAATTGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (21 bp):
ACTAAATAAAACCCTAAAACT
Found at i:19267427 original size:18 final size:18
Alignment explanation
Indices: 19267402--19267464 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
19267392 AGGAAGGCAA
19267402 AATAATTGTAAGAATCTT
1 AATAATTGTAAGAATCTT
* * **
19267420 ATTAATTGT-AGAAGCAA
1 AATAATTGTAAGAATCTT
*
19267437 AATGATTGTAAGAATCTT
1 AATAATTGTAAGAATCTT
*
19267455 AGTAATTGTA
1 AATAATTGTA
19267465 GAAGGTTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGTAAGAATCTT
Found at i:19267445 original size:35 final size:35
Alignment explanation
Indices: 19267398--19267468 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
19267388 GAGTAGGAAG
*
19267398 GCAAAATAATTGTAAGAATCTTATTAATTGTAGAA
1 GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
*
19267433 GCAAAATGATTGTAAGAATCTTAGTAATTGTAGAA
1 GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
19267468 G
1 G
19267469 GTTTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (35 bp):
GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
Found at i:19277650 original size:7 final size:7
Alignment explanation
Indices: 19277638--19277693 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
19277628 GTTTTTTTTA
19277638 AAATTAT
1 AAATTAT
19277645 AAATTAT
1 AAATTAT
*
19277652 AAATTTAA
1 AAA-TTAT
*
19277660 AAATTTT
1 AAATTAT
* *
19277667 AAATAAAA
1 AAAT-TAT
19277675 AAATTAT
1 AAATTAT
19277682 AAATTAT
1 AAATTAT
19277689 AAATT
1 AAATT
19277694 TCAGGCAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 29 0.74
8 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATTAT
Found at i:19277663 original size:15 final size:15
Alignment explanation
Indices: 19277645--19277691 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
19277635 TTAAAATTAT
19277645 AAATTATAAATTTAA
1 AAATTATAAATTTAA
* **
19277660 AAATTTTAAATAAAA
1 AAATTATAAATTTAA
19277675 AAATTATAAATTATAA
1 AAATTATAAATT-TAA
19277691 A
1 A
19277692 TTTCAGGCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTATAAATTTAA
Found at i:19279264 original size:30 final size:28
Alignment explanation
Indices: 19279225--19279291 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 28
19279215 ATTAATATTT
*
19279225 AATTAATTTTTAAAAAATTAAAAATTCAAAA
1 AATT-ATTTTTAAAAAA-TAAAAAAT-AAAA
19279256 AATTATTTTTAAAAAATAAAAAATAAAA
1 AATTATTTTTAAAAAATAAAAAATAAAA
19279284 AA-TATTTT
1 AATTATTTT
19279292 GGTTATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 6 0.17
28 6 0.17
29 7 0.20
30 12 0.34
31 4 0.11
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTATTTTTAAAAAATAAAAAATAAAA
Found at i:19287378 original size:46 final size:46
Alignment explanation
Indices: 19287319--19287494 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
19287309 GCTATTTGGT
* * * *
19287319 GTGTAGGTCCAACCCTAACGGGTGACCAGACACTATTATTTGATTC
1 GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
* * * *
19287365 GTGTATGTTCAACCCTAATGGGTAACGAAATACTATTATTTGATTT
1 GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
* * * *
19287411 TTGTAGGTTCAACCCTAATGGGTGACGAAACACTATTATTCGATTC
1 GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
* *
19287457 GTGTAGGTTTAA-CCTAAATGGGTAACCAGACACTATTA
1 GTGTAGGTTCAACCCT-AATGGGTAACCAAACACTATTA
19287495 CTTTCACCTG
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
45 3 0.03
46 107 0.97
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (46 bp):
GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
Found at i:19287492 original size:92 final size:92
Alignment explanation
Indices: 19287320--19287494 Score: 244
Period size: 92 Copynumber: 1.9 Consensus size: 92
19287310 CTATTTGGTG
* * *
19287320 TGTAGGTCCAACCCTAACGGGTGACCAGACACTATTATTTGATTCGTGTATGTTCAACCCTAATG
1 TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCTAATG
* *
19287385 GGTAACGAAATACTATTATTTGATTTT
66 GGTAACCAAACACTATTATTTGATTTT
* * * *
19287412 TGTAGGTTCAACCCTAATGGGTGACGAAACACTATTATTCGATTCGTGTAGGTTTAA-CCTAAAT
1 TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCT-AAT
*
19287476 GGGTAACCAGACACTATTA
65 GGGTAACCAAACACTATTA
19287495 CTTTCACCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 3 0.04
92 69 0.96
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (92 bp):
TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCTAATG
GGTAACCAAACACTATTATTTGATTTT
Found at i:19289300 original size:28 final size:28
Alignment explanation
Indices: 19289260--19289315 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
19289250 ATGCCAATTG
19289260 TATCCCACCAATTTTGCTAATAATATTT
1 TATCCCACCAATTTTGCTAATAATATTT
* *
19289288 TATCCCACCAATTTTTCTAATCATATTT
1 TATCCCACCAATTTTGCTAATAATATTT
19289316 AAAGTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (28 bp):
TATCCCACCAATTTTGCTAATAATATTT
Found at i:19291807 original size:16 final size:16
Alignment explanation
Indices: 19291786--19291817 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19291776 GTTTTGTTGC
*
19291786 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
19291802 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
19291818 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:19292103 original size:51 final size:50
Alignment explanation
Indices: 19292045--19292235 Score: 231
Period size: 51 Copynumber: 3.8 Consensus size: 50
19292035 TCGGTTCACA
* *
19292045 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCG-TACACG
* ** * *
19292096 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCC-GTACACG
* * * * **
19292147 TAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGTACACG
19292197 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
19292236 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
49 4 0.03
50 36 0.31
51 73 0.63
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGTACACG
Found at i:19292224 original size:101 final size:102
Alignment explanation
Indices: 19292043--19292227 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
19292033 TATCGGTTCA
* * *
19292043 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
19292108 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * *
19292145 CATAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGTAGCCTGC
19292208 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
19292228 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 36 0.47
102 36 0.47
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:19292250 original size:101 final size:102
Alignment explanation
Indices: 19292036--19292261 Score: 278
Period size: 101 Copynumber: 2.2 Consensus size: 102
19292026 TTAATGATAT
* * * *
19292036 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTA
1 CGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTA
*
19292101 GCCTGCACATAGTACTACACACGTGATCAAAACTATC
66 GCCTGCACATAGTACTACACACGTGACCAAAACTATC
* * * * *
19292138 CGGTACGCATAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAG-TACACGTAGT
1 CGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGT
** *
19292201 AGCCTGCACATAGTACTACACACGTGACCATCACTTTC
65 AGCCTGCACATAGTACTACACACGTGACCAAAACTATC
* *
19292239 AC-TTTCACATAGTGGCCTACACA
1 -CGGTTCACATAGTAGCCTACACA
19292262 CAGTCCATGC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 59 0.56
102 42 0.40
103 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (102 bp):
CGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTA
GCCTGCACATAGTACTACACACGTGACCAAAACTATC
Found at i:19300405 original size:17 final size:17
Alignment explanation
Indices: 19300374--19300406 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19300364 TTTTTTTTAA
19300374 TTTATATTTCTTATTTC
1 TTTATATTTCTTATTTC
19300391 TTTATGATTTC-TATTT
1 TTTAT-ATTTCTTATTT
19300407 GTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATATTTCTTATTTC
Found at i:19303183 original size:35 final size:35
Alignment explanation
Indices: 19303117--19303206 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
19303107 ATCACTATGA
*
19303117 CATGTTTAACATGCGAGA-CAGAATCTAAATAAT-G
1 CATGCTTAACATGCGA-ATCAGAATCTAAATAATAG
*
19303151 TCATGCTTAACATGCGAATCATAAT-TAGAATAATAG
1 -CATGCTTAACATGCGAATCAGAATCTA-AATAATAG
*
19303187 CATGCTCAACATGCGAATCA
1 CATGCTTAACATGCGAATCA
19303207 AAATATCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 3 0.06
35 45 0.92
36 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (35 bp):
CATGCTTAACATGCGAATCAGAATCTAAATAATAG
Found at i:19303218 original size:35 final size:35
Alignment explanation
Indices: 19303144--19303218 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
19303134 ACAGAATCTA
* * *
19303144 AATAATGTCATGCTTAACATGCGAATCATAATTAG
1 AATAATGTCATGCTCAACATGCGAATCAAAATTAC
19303179 AATAATAG-CATGCTCAACATGCGAATCAAAA-TATC
1 AATAAT-GTCATGCTCAACATGCGAATCAAAATTA-C
19303214 AATAA
1 AATAA
19303219 ATCAATATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 2 0.06
35 32 0.91
36 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (35 bp):
AATAATGTCATGCTCAACATGCGAATCAAAATTAC
Found at i:19318835 original size:19 final size:19
Alignment explanation
Indices: 19318796--19318835 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19318786 TTAACAATGC
* **
19318796 TTTTATCTCAAACGTGTTT
1 TTTTATCTCAAAAGTCATT
19318815 TTTTATCTCAAAAGTCATT
1 TTTTATCTCAAAAGTCATT
19318834 TT
1 TT
19318836 GAAAAGCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (19 bp):
TTTTATCTCAAAAGTCATT
Found at i:19322941 original size:18 final size:18
Alignment explanation
Indices: 19322898--19322941 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19322888 ACCCACTTCA
* * *
19322898 AACCCAAGTATTCAATCC
1 AACCCAATTACTCAACCC
19322916 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
19322934 AACCCAAT
1 AACCCAAT
19322942 CATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.18
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:19323051 original size:9 final size:8
Alignment explanation
Indices: 19323037--19323113 Score: 64
Period size: 9 Copynumber: 8.6 Consensus size: 8
19323027 ATGTATGATT
19323037 TAATTCGAG
1 TAATTCG-G
19323046 TAATTCGG
1 TAATTCGG
19323054 TTAATTCGAG
1 -TAATTCG-G
19323064 TAATTCGG
1 TAATTCGG
19323072 TTAATTCGGG
1 -TAATTC-GG
*
19323082 TAATTTGG
1 TAATTCGG
*
19323090 TTAATTTGG
1 -TAATTCGG
19323099 TTAATTCGG
1 -TAATTCGG
19323108 TTAATT
1 -TAATT
19323114 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
8 4 0.07
9 54 0.89
10 3 0.05
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (8 bp):
TAATTCGG
Found at i:19323059 original size:18 final size:18
Alignment explanation
Indices: 19323036--19323113 Score: 113
Period size: 18 Copynumber: 4.3 Consensus size: 18
19323026 TATGTATGAT
19323036 TTAATTCGAGTAATTCGG
1 TTAATTCGAGTAATTCGG
19323054 TTAATTCGAGTAATTCGG
1 TTAATTCGAGTAATTCGG
* *
19323072 TTAATTCGGGTAATTTGG
1 TTAATTCGAGTAATTCGG
*
19323090 TTAATTTG-GTTAATTCGG
1 TTAATTCGAG-TAATTCGG
19323108 TTAATT
1 TTAATT
19323114 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 1 0.02
18 54 0.98
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (18 bp):
TTAATTCGAGTAATTCGG
Found at i:19323114 original size:27 final size:27
Alignment explanation
Indices: 19323037--19323114 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
19323027 ATGTATGATT
*
19323037 TAATTCGAG-TAATTCGGTTAATTCGAG
1 TAATTCG-GTTAATTCGGTTAATTTGAG
*
19323064 TAATTCGGTTAATTCGGGTAATTTG-G
1 TAATTCGGTTAATTCGGTTAATTTGAG
*
19323090 TTAATTTGGTTAATTCGGTTAATTT
1 -TAATTCGGTTAATTCGGTTAATTT
19323115 TTAACCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTTGAG
Found at i:19323332 original size:16 final size:16
Alignment explanation
Indices: 19323311--19323343 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19323301 GAACACCCCT
19323311 ACTTCTACCTTATTAA
1 ACTTCTACCTTATTAA
19323327 ACTTCTACCTTATTAA
1 ACTTCTACCTTATTAA
19323343 A
1 A
19323344 TGAACAAGAG
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:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
ACTTCTACCTTATTAA
Found at i:19325730 original size:39 final size:38
Alignment explanation
Indices: 19325676--19325771 Score: 90
Period size: 39 Copynumber: 2.5 Consensus size: 38
19325666 TAAAATATAT
* *
19325676 AAAAATATAAAAAAATTATAA-AATTTTATAAA-GTCGTAA
1 AAAAAT-TATAAAAATTATAAGAA--ATATAAATGTCGTAA
* *
19325715 GAAAATTATACAAAATGTA-AAGAAATATAAATTTCGTAA
1 AAAAATTATA-AAAAT-TATAAGAAATATAAATGTCGTAA
19325754 AAAAATTATAAAAATTAT
1 AAAAATTATAAAAATTAT
19325772 CGTATCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
37 2 0.04
38 14 0.30
39 27 0.57
40 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (38 bp):
AAAAATTATAAAAATTATAAGAAATATAAATGTCGTAA
Found at i:19325765 original size:20 final size:20
Alignment explanation
Indices: 19325695--19325768 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
19325685 AAAAAATTAT
* * *
19325695 AAAATTTTATAAAGTCGTAAG
1 AAAATTATA-AAAATCGTAAA
19325716 AAAATTATACAAAAT-GTAAA
1 AAAATTATA-AAAATCGTAAA
* **
19325736 GAAA-TATAAATTTCGTAAA
1 AAAATTATAAAAATCGTAAA
19325755 AAAATTATAAAAAT
1 AAAATTATAAAAAT
19325769 TATCGTATCA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 3 0.07
19 12 0.29
20 14 0.34
21 12 0.29
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAAATCGTAAA
Found at i:19326077 original size:21 final size:21
Alignment explanation
Indices: 19326043--19326101 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
19326033 CTACAGTTCT
*
19326043 TTTTCTTTCT-TTTTTTTGCTG
1 TTTTCTTT-TATTTTTTTGCTA
*
19326064 TTTT-TTATTATTTTGTTGCTA
1 TTTTCTT-TTATTTTTTTGCTA
*
19326085 TTTTCTTTTCTTTTTTT
1 TTTTCTTTTATTTTTTT
19326102 TTTTGACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTATTTTTTTGCTA
Found at i:19327797 original size:26 final size:27
Alignment explanation
Indices: 19327767--19327825 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
19327757 ATATTAAAAT
*
19327767 TATTTATATAATTT-TATTATATATTA
1 TATTTATAAAATTTGTATTATATATTA
* * *
19327793 TATTTTTAAAATTTGTATTTTCTATTA
1 TATTTATAAAATTTGTATTATATATTA
*
19327820 TTTTTA
1 TATTTA
19327826 ATGGTGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTATAAAATTTGTATTATATATTA
Found at i:19332316 original size:41 final size:41
Alignment explanation
Indices: 19332257--19332338 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
19332247 TGTGATAAGT
*
19332257 CTCACTCTGTGTATTCCTTTGA-AACATGAGCATTTGTGAGC
1 CTCACTCTGTGTACTCC-TTGAGAACATGAGCATTTGTGAGC
* * * * *
19332298 CTCACTTTGTGTGCTCCTTGAGAGCATGTGCTTTTGTGAGC
1 CTCACTCTGTGTACTCCTTGAGAACATGAGCATTTGTGAGC
19332339 GAGTCTTGCG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (41 bp):
CTCACTCTGTGTACTCCTTGAGAACATGAGCATTTGTGAGC
Found at i:19346451 original size:18 final size:18
Alignment explanation
Indices: 19346425--19346459 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19346415 ATGATGTGCC
*
19346425 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
19346443 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
19346460 CTTGTTCCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:19347347 original size:17 final size:17
Alignment explanation
Indices: 19347325--19347358 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19347315 TAGGTTTGAG
*
19347325 GACAACGGCAACCCTAA
1 GACAACGACAACCCTAA
19347342 GACAACGACAACCCTAA
1 GACAACGACAACCCTAA
19347359 CTCTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.35, G:0.15, T:0.06
Consensus pattern (17 bp):
GACAACGACAACCCTAA
Found at i:19351413 original size:24 final size:24
Alignment explanation
Indices: 19351383--19351428 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
19351373 ATATCTTAAC
19351383 ATATATGTGTATAAAACCTTCAAT
1 ATATATGTGTATAAAACCTTCAAT
19351407 ATATATGTGTATAAAACCTTCA
1 ATATATGTGTATAAAACCTTCA
19351429 CCTTGGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (24 bp):
ATATATGTGTATAAAACCTTCAAT
Found at i:19353147 original size:54 final size:54
Alignment explanation
Indices: 19353032--19353148 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
19353022 GTGTCTCAGG
* * * *
19353032 CCATGTAACAATTGAAATAGGGACACATAACTGTGTCTCAGCCCGTGTCCTTAC
1 CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCTTAC
* * * *
19353086 TCGTGTAACATTTGAACTAGAGACACACAACTGTGTCCCAGCCCGTAT-CTCTAC
1 CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCT-TAC
19353140 CCATGTAAC
1 CCATGTAAC
19353149 TCACTGAGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (54 bp):
CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCTTAC
Found at i:19378844 original size:21 final size:22
Alignment explanation
Indices: 19378820--19378860 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19378810 GCTCTATACT
19378820 TATAA-ACCATAAA-CAAATCTA
1 TATAATACCA-AAACCAAATCTA
19378841 TATAATACCAAAACCAAATC
1 TATAATACCAAAACCAAATC
19378861 ACACCATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (22 bp):
TATAATACCAAAACCAAATCTA
Found at i:19381211 original size:11 final size:11
Alignment explanation
Indices: 19381195--19381225 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19381185 AGCTTTGTCG
*
19381195 TCCCTTGCTAT
1 TCCCTTGCCAT
19381206 TCCCTTGCCAT
1 TCCCTTGCCAT
19381217 TCCCTTGCC
1 TCCCTTGCC
19381226 CCTTCCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.45, G:0.10, T:0.39
Consensus pattern (11 bp):
TCCCTTGCCAT
Found at i:19400590 original size:51 final size:51
Alignment explanation
Indices: 19400529--19400699 Score: 245
Period size: 51 Copynumber: 3.4 Consensus size: 51
19400519 TTTGGGGGTT
* * * * * *
19400529 TTCACATAGTACCACCCATGTTACTATTA-TCATTCGGTACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTA-TCGATACACGTAGTAGCC
* *
19400580 TTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
*
19400631 TTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
19400682 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
19400700 CGTGTTCATC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 107 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
Found at i:19400672 original size:25 final size:25
Alignment explanation
Indices: 19400595--19400672 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 25
19400585 TTAGTACTAT
19400595 ACATGTGACCATTATTTATCGATAC
1 ACATGTGACCATTATTTATCGATAC
* *
19400620 ACGTAGT-AGCC-TTCACTTA--GTACTAC
1 ACAT-GTGA-CCATT-ATTTATCG-A-TAC
19400646 ACATGTGACCATTATTTATCGATAC
1 ACATGTGACCATTATTTATCGATAC
19400671 AC
1 AC
19400673 GTAGTAGCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 18 0.45
27 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (25 bp):
ACATGTGACCATTATTTATCGATAC
Found at i:19408134 original size:51 final size:50
Alignment explanation
Indices: 19408075--19408397 Score: 339
Period size: 51 Copynumber: 6.4 Consensus size: 50
19408065 TTTGGGGGTT
* * * * *
19408075 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTAT-TTTCGATACACGTAGTAGCC
* * *
19408126 TTCACATAGTACTACACATGTGATCA--AGTTTTACGGTTCACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA-TTTT-CGATACACGTAGTAGCC
* * * * *
19408176 TTCACATAGTACTACACACGTGACCA-AAGCTTTTTGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA--TTTTCGATACACGTAGTAGCC
* *
19408227 TTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTT-TCGATACACGTAGTAGCC
* * * *
19408278 TTCACATAGTACTACACACGTGACCA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA--TTTTCGATACACGTAGTAGCC
* * *
19408329 TTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTT-TCGATACACGTAGTAGCC
19408380 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
19408398 CGTGTTCATC
Statistics
Matches: 226, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.01
50 47 0.21
51 167 0.74
52 9 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (50 bp):
TTCACATAGTACTACACATGTGACCATTATTTTCGATACACGTAGTAGCC
Found at i:19408299 original size:102 final size:102
Alignment explanation
Indices: 19408107--19408401 Score: 486
Period size: 102 Copynumber: 2.9 Consensus size: 102
19408097 ACTATTATCA
* * * * * * *
19408107 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGT-TTTA-CGGTTCACGTA
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGA-CAATTATTTATCGATACACGTA
19408170 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
65 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* *
19408208 TTTGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
19408273 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
19408310 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
19408375 TAGCCTTCACATAGTACTACACACGTG
66 TAGCCTTCACATAGTACTACACACGTG
19408402 TTCATCGGTA
Statistics
Matches: 181, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
100 3 0.02
101 41 0.23
102 137 0.76
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:19408390 original size:153 final size:152
Alignment explanation
Indices: 19408108--19408393 Score: 405
Period size: 153 Copynumber: 1.9 Consensus size: 152
19408098 CTATTATCAT
* * * *
19408108 TCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
* * * *
19408173 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAAGATTTTCGATACACATAGTAGCCTTCACATAGTA
19408238 CTATACATGTGACCATTATTTA
131 CTATACATGTGACCATTATTTA
19408260 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTACACATAG
* * * ** *
19408324 TAGCCTTCACTTAGTACTATACATGTGA-CAATTATTTATCGATACACGTAGTAGCCTTCACATA
64 TAGCCTTCACATAGTACTACACACGTGACCAAAGATTT-TCGATACACATAGTAGCCTTCACATA
19408388 GTACTA
128 GTACTA
19408394 CACACGTGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
152 47 0.40
153 66 0.56
154 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (152 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAAGATTTTCGATACACATAGTAGCCTTCACATAGTA
CTATACATGTGACCATTATTTA
Found at i:19411153 original size:20 final size:20
Alignment explanation
Indices: 19411128--19411212 Score: 53
Period size: 20 Copynumber: 4.2 Consensus size: 20
19411118 ACACTAGTGG
19411128 CTTGTCCACATTACTGGCAA
1 CTTGTCCACATTACTGGCAA
** ** ***
19411148 CTTGTCTGCAACACTGGTGG
1 CTTGTCCACATTACTGGCAA
* *
19411168 CCTGTCCACATTACTGGCAG
1 CTTGTCCACATTACTGGCAA
* * * *
19411188 TTTATCTACGTTACTGGCAA
1 CTTGTCCACATTACTGGCAA
19411208 CTTGT
1 CTTGT
19411213 TTGGATTATT
Statistics
Matches: 43, Mismatches: 22, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (20 bp):
CTTGTCCACATTACTGGCAA
Found at i:19411204 original size:40 final size:40
Alignment explanation
Indices: 19411117--19411196 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
19411107 GCTTTTCTGT
* * * *
19411117 AACACTAGTGGCTTGTCCACATTACTGGCAACTTGTCTGC
1 AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
**
19411157 AACACTGGTGGCCTGTCCACATTACTGGCAGTTTATCTAC
1 AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
19411197 GTTACTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
Found at i:19433906 original size:19 final size:19
Alignment explanation
Indices: 19433882--19433932 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
19433872 TTCCATTAGC
19433882 TTAGATTTTTTCTTTAGGT
1 TTAGATTTTTTCTTTAGGT
* *
19433901 TTAGATTCTATCTTTAGGT
1 TTAGATTTTTTCTTTAGGT
*
19433920 TTAGATTTGTTCT
1 TTAGATTTTTTCT
19433933 CTTGTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (19 bp):
TTAGATTTTTTCTTTAGGT
Found at i:19442086 original size:12 final size:12
Alignment explanation
Indices: 19442071--19442098 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19442061 TGACAGTAAA
19442071 ATTTAAAAACCT
1 ATTTAAAAACCT
19442083 ATTTAAAAACCT
1 ATTTAAAAACCT
19442095 ATTT
1 ATTT
19442099 CTTTTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAAAAACCT
Found at i:19456643 original size:31 final size:31
Alignment explanation
Indices: 19456608--19456666 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
19456598 CAAGCCGTAG
19456608 CAGCCACTGTTTTTGCTAGGATACTAGGTCC
1 CAGCCACTGTTTTTGCTAGGATACTAGGTCC
19456639 CAGCCACTGTTTTTGCTAGGATACTAGG
1 CAGCCACTGTTTTTGCTAGGATACTAGG
19456667 GATAGCACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (31 bp):
CAGCCACTGTTTTTGCTAGGATACTAGGTCC
Found at i:19457279 original size:12 final size:12
Alignment explanation
Indices: 19457267--19457306 Score: 66
Period size: 11 Copynumber: 3.5 Consensus size: 12
19457257 TTTCTTCAAT
19457267 TTTCTCTCT-AA
1 TTTCTCTCTAAA
19457278 TTTCTCTC-AAA
1 TTTCTCTCTAAA
19457289 TTTCTCTCTAAA
1 TTTCTCTCTAAA
19457301 TTTCTC
1 TTTCTC
19457307 AAAACTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTCTCTCTAAA
Found at i:19457287 original size:22 final size:23
Alignment explanation
Indices: 19457256--19457306 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
19457246 TTCGTACATT
*
19457256 ATTTCT-TCAATTTTCTCTCT-A
1 ATTTCTCTCAAATTTCTCTCTAA
19457277 ATTTCTCTCAAATTTCTCTCTAA
1 ATTTCTCTCAAATTTCTCTCTAA
19457300 ATTTCTC
1 ATTTCTC
19457307 AAAACTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 8 0.30
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTCTCTCAAATTTCTCTCTAA
Found at i:19457511 original size:18 final size:21
Alignment explanation
Indices: 19457471--19457511 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
19457461 TAAGGGTTAA
19457471 TTTTTCAATATTATTTAATTT
1 TTTTTCAATATTATTTAATTT
19457492 TTTTTC-AT-TTATTTAATTT
1 TTTTTCAATATTATTTAATTT
19457511 T
1 T
19457512 AATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTCAATATTATTTAATTT
Found at i:19457512 original size:10 final size:10
Alignment explanation
Indices: 19457481--19457526 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
19457471 TTTTTCAATA
19457481 TTATTTAATT
1 TTATTTAATT
* *
19457491 TTTTTTCA-T
1 TTATTTAATT
19457500 TTATTTAATT
1 TTATTTAATT
19457510 TTAATTTAATT
1 TT-ATTTAATT
19457521 TTATTT
1 TTATTT
19457527 TATAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 13 0.43
11 10 0.33
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTAATT
Found at i:19459070 original size:18 final size:18
Alignment explanation
Indices: 19459047--19459089 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19459037 TGCCAGGTCC
*
19459047 GTATCCTAGCCCATATAT
1 GTATCCTAACCCATATAT
*
19459065 GTATCCTAACCCTTATAT
1 GTATCCTAACCCATATAT
*
19459083 GTTTCCT
1 GTATCCT
19459090 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCATATAT
Found at i:19459587 original size:93 final size:92
Alignment explanation
Indices: 19459428--19459621 Score: 361
Period size: 93 Copynumber: 2.1 Consensus size: 92
19459418 AACATTGATT
**
19459428 TTTTTAATATATTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
19459493 ATATTTTAATAGTAATTTATTTTTTATA
66 ATATTTTAATAGTAATTTA-TTTTTATA
19459521 TTTTTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
19459586 ATATTTTAATAGTAATTTATTTTTATA
66 ATATTTTAATAGTAATTTATTTTTATA
19459613 TTTTTAATA
1 TTTTTAATA
19459622 AAGTAGAAGT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 17 0.17
93 82 0.83
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (92 bp):
TTTTTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
ATATTTTAATAGTAATTTATTTTTATA
Found at i:19459596 original size:24 final size:24
Alignment explanation
Indices: 19459569--19459623 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
19459559 CATTTAATAA
*
19459569 AATAAAAGTTGTTTTTA-ATATTTT
1 AATAAAAGTTATTTTTATAT-TTTT
* *
19459593 AATAGTAATTTATTTTTATATTTTT
1 AATA-AAAGTTATTTTTATATTTTT
19459618 AATAAA
1 AATAAA
19459624 GTAGAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 5 0.20
25 18 0.72
26 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
AATAAAAGTTATTTTTATATTTTT
Found at i:19463076 original size:127 final size:125
Alignment explanation
Indices: 19462678--19463075 Score: 593
Period size: 126 Copynumber: 3.2 Consensus size: 125
19462668 TAAGGCCAAA
* * *
19462678 CAGGAACTACTGTAGAAAAAGAACATCCACGTGAGAGCCTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
19462743 ATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
65 ATCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
* * * *
19462804 CAGGAATTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTT-TGTAATTTTGCTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
*
19462868 ATCTTGCTTGAAGCGTTTTTTTACACTATTTGTTTAGAACCGTCTTCTTAAAATTATTTTTT
65 ATCTTGCTTGAAGCG-TTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
* *
19462930 CAGGAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGT
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
19462995 ATCTTGCTTGAAGCGTTTTTTACATTATCTT-TTCAGAACCGTCTTCTCAAAATTATTTTTT
65 ATCTTGCTTGAAGCGTTTTTTACACTAT-TTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
*
19463056 CAGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
19463076 AAAACAAAAT
Statistics
Matches: 245, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
125 31 0.13
126 179 0.73
127 35 0.14
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
Found at i:19463187 original size:33 final size:32
Alignment explanation
Indices: 19463125--19463237 Score: 129
Period size: 33 Copynumber: 3.5 Consensus size: 32
19463115 CTAAACACAA
* ** *
19463125 AATT-ATTTTTAAAAAAACTAAACCATAATTT
1 AATTAATTTTTTAAAACCCTAAACCCTAATTT
19463156 AATTAATTTTCTTAAAACCCTAAACCCTAATTT
1 AATTAATTTT-TTAAAACCCTAAACCCTAATTT
* * * *
19463189 AATTTATTTATTTAAAACCCAAAAACCTAGTTT
1 AATTAATTT-TTTAAAACCCTAAACCCTAATTT
19463222 AATTAATTTTTTAAAA
1 AATTAATTTTTTAAAA
19463238 AAACTCTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.06
32 12 0.17
33 53 0.76
34 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (32 bp):
AATTAATTTTTTAAAACCCTAAACCCTAATTT
Found at i:19465550 original size:14 final size:13
Alignment explanation
Indices: 19465495--19465556 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
19465485 TAGCTTCTCC
*
19465495 TTTTCAGAAGTGT
1 TTTTCAAAAGTGT
*
19465508 TTTTCAAAAGTAT
1 TTTTCAAAAGTGT
19465521 TTTTCAAAAGTGT
1 TTTTCAAAAGTGT
* *
19465534 TTTTCAAAAATGC
1 TTTTCAAAAGTGT
*
19465547 TTTTGAAAAG
1 TTTTCAAAAG
19465557 CCAAAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAGTGT
Found at i:19471055 original size:41 final size:41
Alignment explanation
Indices: 19470993--19471088 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
19470983 ACAACTTACT
* ** * * * *
19470993 TGATATAATACATCGGTACAAATACTACCATGCTCGAAGCC
1 TGATATAATACACCGACACAAAGACTACCAGGCACAAAGCC
* *
19471034 TGATATAATACACCGACACAAAGCCTACTAGGCACAAAGCC
1 TGATATAATACACCGACACAAAGACTACCAGGCACAAAGCC
*
19471075 TGTTATAATACACC
1 TGATATAATACACC
19471089 AGCACGAAGC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (41 bp):
TGATATAATACACCGACACAAAGACTACCAGGCACAAAGCC
Found at i:19471098 original size:66 final size:66
Alignment explanation
Indices: 19471013--19471167 Score: 186
Period size: 66 Copynumber: 2.3 Consensus size: 66
19471003 CATCGGTACA
* * *
19471013 AATACTACCATGCTCGAAGCCTGATATAATACACCGACACAAAGCCTACTAG-GCACAAAGCCTG
1 AATAC-ACCA-GCACGAAGCCTGATATAATACACCGACACAAAGCCGACT-GTACACAAAGCCTG
*
19471077 TTAT
63 ATAT
* * * *
19471081 AATACACCAGCACGAAGCCTGATATAATACACCGGCACGAAGCCGGCTGTACACAGAGCCTGATA
1 AATACACCAGCACGAAGCCTGATATAATACACCGACACAAAGCCGACTGTACACAAAGCCTGATA
19471146 T
66 T
* *
19471147 AATACACTAGCACAAAGCCTG
1 AATACACCAGCACGAAGCCTG
19471168 TTAGGCACAG
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 66 0.87
67 4 0.05
68 5 0.07
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (66 bp):
AATACACCAGCACGAAGCCTGATATAATACACCGACACAAAGCCGACTGTACACAAAGCCTGATA
T
Found at i:19471099 original size:25 final size:25
Alignment explanation
Indices: 19471065--19471124 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
19471055 AGCCTACTAG
* *
19471065 GCACAAAGCCTGTTATAATACACCA
1 GCACGAAGCCTGATATAATACACCA
*
19471090 GCACGAAGCCTGATATAATACACCG
1 GCACGAAGCCTGATATAATACACCA
19471115 GCACGAAGCC
1 GCACGAAGCC
19471125 GGCTGTACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (25 bp):
GCACGAAGCCTGATATAATACACCA
Found at i:19471153 original size:41 final size:40
Alignment explanation
Indices: 19471096--19471202 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 40
19471086 ACCAGCACGA
*
19471096 AGCCTGATATAATACACCGGCACGAAGCCGGCTGTA-CACAG
1 AGCCTGATATAATACACCGGCACAAAGCCGG-T-TAGCACAG
** *
19471137 AGCCTGATATAATACACTAGCACAAAGCCTGTTAGGCACAG
1 AGCCTGATATAATACACCGGCACAAAGCCGGTTA-GCACAG
19471178 AGCCTGA-AT-AT-CACCGGCACAAAGC
1 AGCCTGATATAATACACCGGCACAAAGC
19471203 TTGCTAGGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.21
39 4 0.07
40 3 0.05
41 39 0.67
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (40 bp):
AGCCTGATATAATACACCGGCACAAAGCCGGTTAGCACAG
Found at i:19471211 original size:38 final size:38
Alignment explanation
Indices: 19471132--19471229 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
19471122 GCCGGCTGTA
* *
19471132 CACAGAGCCTGATATAATACACTAGCACAAAGCCTGTTAGG
1 CACAGAGCCTGA-AT-AT-CACCAGCACAAAGCCTGCTAGG
* *
19471173 CACAGAGCCTGAATATCACCGGCACAAAGCTTGCTAGG
1 CACAGAGCCTGAATATCACCAGCACAAAGCCTGCTAGG
**
19471211 CACAGAGCCCAAATATCAC
1 CACAGAGCCTGAATATCAC
19471230 TGGAGCCCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 35 0.69
39 2 0.04
40 2 0.04
41 12 0.24
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (38 bp):
CACAGAGCCTGAATATCACCAGCACAAAGCCTGCTAGG
Found at i:19475596 original size:26 final size:26
Alignment explanation
Indices: 19475566--19475618 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19475556 GCCTTAAAGG
19475566 CACCTCAAACACATACATTAAACATA
1 CACCTCAAACACATACATTAAACATA
19475592 CACCTCAAACACATACATTAAACATA
1 CACCTCAAACACATACATTAAACATA
19475618 C
1 C
19475619 CTAAATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (26 bp):
CACCTCAAACACATACATTAAACATA
Found at i:19475614 original size:13 final size:13
Alignment explanation
Indices: 19475572--19475615 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
19475562 AAGGCACCTC
19475572 AAACACATACATT
1 AAACACATACATT
* * * *
19475585 AAACATACACCTC
1 AAACACATACATT
19475598 AAACACATACATT
1 AAACACATACATT
19475611 AAACA
1 AAACA
19475616 TACCTAAATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACACATACATT
Found at i:19476802 original size:41 final size:41
Alignment explanation
Indices: 19476757--19476991 Score: 212
Period size: 41 Copynumber: 5.9 Consensus size: 41
19476747 GGCATACTCG
* * * *
19476757 AAGCCTGATATAATACACCGGCACAAAGCTTACTAGGCATA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* *
19476798 AAGCCTGATATAATACATCGGCACGAAGCCTGCTAAGCACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * * *
19476839 AATCCTGATATACTACACCGACACGAAGCCTGCTAGACACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * *
19476880 GAGCCTGATATAATACACTGGCACGAAGCTTGCTAGGCACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * * * * * * *
19476921 GAGCC-CAAAT-AT-CACTGACACAAAGCTTGTTAGGCACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * *
19476959 GAGCCCGA-AT-AT-CACCGGCACAAAGCCTGCTAG
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAG
19476992 ACACGGAGCT
Statistics
Matches: 164, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
38 49 0.30
39 3 0.02
40 3 0.02
41 109 0.66
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
Found at i:19476947 original size:38 final size:38
Alignment explanation
Indices: 19476854--19477045 Score: 186
Period size: 38 Copynumber: 5.0 Consensus size: 38
19476844 TGATATACTA
* * * *
19476854 CACCGACACGAAGCCTGCTAGACACAGAGCCTGATATAAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCC-CAAAT-AT
* * * *
19476894 ACACTGGCACGAAGCTTGCTAGGCACAGAGCCCAAATAT
1 -CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * * *
19476933 CACTGACACAAAGCTTGTTAGGCACAGAGCCCGAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * * *
19476971 CACCGGCACAAAGCCTGCTAGACACGGAGCTCAAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * *
19477009 CACCAACACAAAGCCTGCTAGGCACGGAGCCCGAATA
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATA
19477046 ACATTACGTT
Statistics
Matches: 128, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 96 0.75
39 2 0.02
40 3 0.02
41 27 0.21
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.14
Consensus pattern (38 bp):
CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
Found at i:19477006 original size:76 final size:77
Alignment explanation
Indices: 19476854--19477045 Score: 233
Period size: 76 Copynumber: 2.5 Consensus size: 77
19476844 TGATATACTA
* * * * * * *
19476854 CACCGACACGAAGCCTGCTAGACACAGAGCCTGATATAATACACTGGCACGAAGCTTGCTAGGCA
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCGA-AT-ATACACCGGCACAAAGCCTGCTAGACA
19476919 CAGAGCCCAAATAT
64 CAGAGCCCAAATAT
* * * *
19476933 CACTGACACAAAGCTTGTTAGGCACAGAGCCCGAATAT-CACCGGCACAAAGCCTGCTAGACACG
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCGAATATACACCGGCACAAAGCCTGCTAGACACA
*
19476997 GAGCTCAAATAT
66 GAGCCCAAATAT
* *
19477009 CACCAACACAAAGCCTGCTAGGCACGGAGCCCGAATA
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCGAATA
19477046 ACATTACGTT
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
76 64 0.67
77 2 0.02
78 2 0.02
79 28 0.29
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.14
Consensus pattern (77 bp):
CACCGACACAAAGCCTGCTAGGCACAGAGCCCGAATATACACCGGCACAAAGCCTGCTAGACACA
GAGCCCAAATAT
Found at i:19483049 original size:147 final size:147
Alignment explanation
Indices: 19482851--19483123 Score: 467
Period size: 147 Copynumber: 1.9 Consensus size: 147
19482841 TCTCTATAAA
* *
19482851 ACTTTTTTAAGATTGTCAAAACATTCTTGAAATGAATCTCATATACTGAGAAATCATCCATAAAT
1 ACTTTTTTAAGATAGTCAAAACATTCTTGAAATAAATCTCATATACTGAGAAATCATCCATAAAT
*
19482916 ACATCCAAGCCTTCTTCTAACATGTCAGCAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
66 ACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
19482981 TTTTGCATCTCTGCAAG
131 TTTTGCATCTCTGCAAG
*
19482998 ACTTTTTTAAGATAGTCCAAA-ATTCTTGAAATAAATCTCCATATACTGAGAAATCATCCATAAA
1 ACTTTTTTAAGATAGTCAAAACATTCTTGAAATAAATCT-CATATACTGAGAAATCATCCATAAA
** *
19483062 TACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCTGTCATACATCTCATAGAGGTTG
65 TACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCCATCATACATCTCATAAAGGTTG
19483124 CTGGGGCATT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
146 16 0.14
147 102 0.86
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (147 bp):
ACTTTTTTAAGATAGTCAAAACATTCTTGAAATAAATCTCATATACTGAGAAATCATCCATAAAT
ACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
TTTTGCATCTCTGCAAG
Found at i:19486736 original size:38 final size:40
Alignment explanation
Indices: 19486674--19486762 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 40
19486664 TAAAAAGTAT
* *
19486674 TTATATTTAAAAACACTACTATAAATATAATATATGTTTTA
1 TTATA-TTAAAAACACTACAATAAATATAATAAATGTTTTA
19486715 TTATATTAAAAACAC-A-AATAAATATAATAAATGTTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATGTTTTA
*
19486753 TTGTATTAAA
1 TTATATTAAA
19486763 TATAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.64
39 1 0.02
40 10 0.22
41 5 0.11
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAATGTTTTA
Found at i:19487817 original size:21 final size:19
Alignment explanation
Indices: 19487791--19487829 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
19487781 ATATTTCTCA
19487791 TTTATAAATTTAAATAATTTG
1 TTTATAAA-TT-AATAATTTG
*
19487812 TTTATATATTAATAATTT
1 TTTATAAATTAATAATTT
19487830 ATTTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATAAATTAATAATTTG
Found at i:19489469 original size:20 final size:19
Alignment explanation
Indices: 19489444--19489483 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
19489434 TTAAACTATT
19489444 AAAAAACTATTATTTTGAAA
1 AAAAAACTATTATTTT-AAA
* *
19489464 AAAAAATTCTTATTTTAAA
1 AAAAAACTATTATTTTAAA
19489483 A
1 A
19489484 TTATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAAACTATTATTTTAAA
Found at i:19494762 original size:24 final size:24
Alignment explanation
Indices: 19494734--19494781 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19494724 AAGTTTCTCG
19494734 ATTTT-CTTCTCTCAATTAAACTCT
1 ATTTTGCTT-TCTCAATTAAACTCT
* *
19494758 ATTTTGGTTTCTCACTTAAACTCT
1 ATTTTGCTTTCTCAATTAAACTCT
19494782 TATTAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTTGCTTTCTCAATTAAACTCT
Found at i:19495658 original size:22 final size:22
Alignment explanation
Indices: 19495633--19495676 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19495623 TAGTCATATA
19495633 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
19495655 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
19495677 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:19497458 original size:32 final size:32
Alignment explanation
Indices: 19497394--19497458 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
19497384 CAAATTAGAA
* ** *
19497394 TTTCGAGTTAATCAAATCAAGTTTTTCGAGTT
1 TTTCGAGTCAATCAAATCAAGTAATTCAAGTT
19497426 TTTCGAGTCAACTCAAA-CAAGTAATTCAAGTT
1 TTTCGAGTCAA-TCAAATCAAGTAATTCAAGTT
19497458 T
1 T
19497459 CAAGTTCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
TTTCGAGTCAATCAAATCAAGTAATTCAAGTT
Found at i:19498143 original size:19 final size:19
Alignment explanation
Indices: 19498107--19498145 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19498097 AATTCGAAAC
*
19498107 AAAATAGAAAAGTAAGGTT
1 AAAATAGAAAAGCAAGGTT
19498126 AAAATAGAAAA-CAGAGGTT
1 AAAATAGAAAAGCA-AGGTT
19498145 A
1 A
19498146 CACAACTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.59, C:0.03, G:0.21, T:0.18
Consensus pattern (19 bp):
AAAATAGAAAAGCAAGGTT
Found at i:19501754 original size:30 final size:30
Alignment explanation
Indices: 19501692--19501754 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
19501682 ACTTATTTTA
*
19501692 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
19501722 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
19501752 TTG
1 TTG
19501755 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:19501858 original size:18 final size:20
Alignment explanation
Indices: 19501837--19501877 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
19501827 GAAATATTTA
*
19501837 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
19501855 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
19501875 TTT
1 TTT
19501878 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:19501908 original size:12 final size:12
Alignment explanation
Indices: 19501878--19501910 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
19501868 TATATATTTT
19501878 AAAATT-ATATA
1 AAAATTAATATA
19501889 AAAA-TAATATA
1 AAAATTAATATA
19501900 AAAATTAATAT
1 AAAATTAATAT
19501911 GGACAGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:19510842 original size:48 final size:48
Alignment explanation
Indices: 19510729--19510844 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
19510719 TTGTGGAACT
* *
19510729 AAGTGCAGGCCAGAATTATGGGCATTCATGTGGGCCGTGGTTTAGAGC
1 AAGTGCAGGCCAGAATTTTGGGCATTCATGTGGGCCGTGGTTTAGACC
* *
19510777 AAGTGCAAGCCAGAATTTTGGGCA-TCTGTGTGGGCCGTGGTTTAGACC
1 AAGTGCAGGCCAGAATTTTGGGCATTC-ATGTGGGCCGTGGTTTAGACC
*
19510825 AAGTGCAGGCCAAAATTTTG
1 AAGTGCAGGCCAGAATTTTG
19510845 AATTTGTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.03
48 59 0.97
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (48 bp):
AAGTGCAGGCCAGAATTTTGGGCATTCATGTGGGCCGTGGTTTAGACC
Found at i:19515392 original size:27 final size:27
Alignment explanation
Indices: 19515361--19515538 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19515351 TAAATTGTAC
19515361 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19515388 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19515414 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19515442 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19515470 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19515497 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19515524 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19515539 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19515475 original size:82 final size:81
Alignment explanation
Indices: 19515362--19515517 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19515352 AAATTGTACA
* *
19515362 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19515426 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19515443 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19515508 TGCGAGTTGA
65 TGCGAATTGA
19515518 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19515529 original size:82 final size:81
Alignment explanation
Indices: 19515358--19515538 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19515348 GATTAAATTG
* *
19515358 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19515423 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19515439 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19515503 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19515521 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19515539 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19523582 original size:27 final size:27
Alignment explanation
Indices: 19523551--19523728 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19523541 TAAATTGTAC
19523551 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19523578 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19523604 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19523632 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19523660 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19523687 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19523714 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19523729 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19523665 original size:82 final size:81
Alignment explanation
Indices: 19523552--19523707 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19523542 AAATTGTACA
* *
19523552 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19523616 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19523633 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19523698 TGCGAGTTGA
65 TGCGAATTGA
19523708 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19523719 original size:82 final size:81
Alignment explanation
Indices: 19523548--19523728 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19523538 GATTAAATTG
* *
19523548 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19523613 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19523629 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19523693 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19523711 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19523729 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19531207 original size:16 final size:16
Alignment explanation
Indices: 19531176--19531217 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
19531166 TAATAATAAC
19531176 TAATATATAA-ATATAT
1 TAAT-TATAATATATAT
*
19531192 TTATTATAATATATAT
1 TAATTATAATATATAT
19531208 TAATTATAAT
1 TAATTATAAT
19531218 CAACTTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATAATATATAT
Found at i:19532675 original size:3 final size:3
Alignment explanation
Indices: 19532667--19532737 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
19532657 AGAGGATCTC
19532667 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
19532715 GAA GAA GAA GAA GAA GAC GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
19532738 TCCCATAGAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19534031 original size:6 final size:5
Alignment explanation
Indices: 19534006--19534072 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
19533996 AAATGCTCGT
19534006 GAAAA -AAAA GAAAA GAAAA GACAAA G-AAA G-AAA -AAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA GAAAA GAAAA
19534053 GAAAAA GAAGAA GAAGAA GA
1 G-AAAA GAA-AA GAA-AA GA
19534073 GAATAGCATA
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
4 14 0.25
5 23 0.41
6 19 0.34
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:19534072 original size:28 final size:28
Alignment explanation
Indices: 19534008--19534061 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
19533998 ATGCTCGTGA
*
19534008 AAAAAAAGAAAAGAAAAGACAAAGAAAG
1 AAAAAAAGAAAAGAAAAGAAAAAGAAAG
19534036 AAAAAAAGAAAAGAAAAGAAAAAGAA
1 AAAAAAAGAAAAGAAAAGAAAAAGAA
19534062 GAAGAAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAGAAAAGAAAAAGAAAG
Found at i:19537917 original size:31 final size:31
Alignment explanation
Indices: 19537392--19537906 Score: 644
Period size: 31 Copynumber: 16.7 Consensus size: 31
19537382 ATCCAATGCT
* * * *
19537392 CAAATC-AATTTGGCAATATATATCCACATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
19537422 CGAATCAAATTCGGTAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
19537453 CAAATC-AATTTGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
19537483 CAAATCAAATTTGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
19537514 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
19537545 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
19537575 CAAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
19537606 CAAATCAAATTCAGCAATGTATAT-TAATATA
1 CAAATCAAATTCGGCAATGTATATCT-ATATA
*
19537637 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
19537668 CAAATCAATTTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
19537699 GAAACCAAATTTGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
19537730 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
19537761 CAATTCTAATTCAGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
19537792 CAATTCAACTTCGGCAATATATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
19537823 CAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
19537854 CAAATCAAATTCGCCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
19537885 CAAATC-AATTAGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
19537907 AAACATATAC
Statistics
Matches: 425, Mismatches: 55, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
30 74 0.17
31 350 0.82
32 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:19550120 original size:78 final size:77
Alignment explanation
Indices: 19550008--19550433 Score: 519
Period size: 78 Copynumber: 5.5 Consensus size: 77
19549998 TAGAAATACA
* * * * *
19550008 GTGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGATGATTATTCAGGTTTTGTACCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
*
19550073 AGGCTGGGTGCG
66 AGGCTGTGTGCG
* * * * * *
19550085 AATGATTATTCGGGTTATGAGCCTATCAGGCTGTGTGCCGGTGATTATTCAGTCTATGTGCCTAG
1 -GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAG
* * ***
19550150 CAAGATGCAAGCAG
65 CAGGCTGTGTGC-G
* *
19550164 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGAGTGCCGATGATTATTCAGGCTATGTGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
19550229 AGGCTGTGTGCCG
66 AGGCTGTGTG-CG
* * *
19550242 GTGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGATGATTATTCAAGCTATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
19550307 AGGCTGTGTGCTG
66 AGGCTGTGTGC-G
* * * *
19550320 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
* *
19550385 AAGTTGTGTGTCG
66 AGGCTGTGTG-CG
* * * *
19550398 ATGATTATTCGGGCTATATGCCTAGCAAGTTGTGTG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
19550434 TCGGTGTATT
Statistics
Matches: 297, Mismatches: 47, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
77 1 0.00
78 293 0.99
79 3 0.01
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (77 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
AGGCTGTGTGCG
Found at i:19550432 original size:117 final size:116
Alignment explanation
Indices: 19550008--19550433 Score: 505
Period size: 117 Copynumber: 3.6 Consensus size: 116
19549998 TAGAAATACA
* * * * * *
19550008 GTGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGATGATTATTCAGGTTTTGTACCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* * *
19550073 AGGCTGGGTGCGAATGATTATTCGGG-TTATGAGCCTATCAGGCTGTGTGCCG
66 AGGCTGTGTGCG-ATGATTATTCGGGCTT-TGTGCCTAGCAGGCTGTGTGCCG
* * *** * *
19550125 GTGATTATTCAGTCTATGTGCCTAGCAAGATGCAAG-CAGGTGATTATTCGGGCTATGTGCCTAG
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTC-GATGATTATTCAGGCTATGTGCCTAG
* * * *
19550189 CAGGTTGAGTGCCGATGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGCCG
65 CAGGCTGTGTG-CGATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * * * *
19550242 GTGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGATGATTATTCAAGCTATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* *
19550307 AGGCTGTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTG
66 AGGCTGTGTGC-GATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * *
19550359 GTGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTCGATGATTATTCGGGCTATATGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* *
19550424 AAGTTGTGTG
66 AGGCTGTGTG
19550434 TCGGTGTATT
Statistics
Matches: 259, Mismatches: 45, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
116 2 0.01
117 253 0.98
118 4 0.02
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (116 bp):
GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
AGGCTGTGTGCGATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
Found at i:19550436 original size:39 final size:38
Alignment explanation
Indices: 19550009--19550433 Score: 454
Period size: 39 Copynumber: 10.9 Consensus size: 38
19549999 AGAAATACAG
*
19550009 TGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * * * *
19550048 TGATTATTCAGGTTTTGTACCTAGCAGGCTGGGTGCGAA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCG-A
* * * *
19550087 TGATTATTCGGGTTATGAGCCTATCAGGCTGTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * * * *** *
19550126 TGATTATTCAGTCTATGTGCCTAGCAAGATGCAAGCAGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
19550165 TGATTATTCGGGCTATGTGCCTAGCAGGTTGAGTGCCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* *
19550204 TGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
*
19550243 TGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
** * *
19550282 TGATTATTCAAGCTATGTGCCTAGTAGGCTGTGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
19550321 TGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
19550360 TGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * *
19550399 TGATTATTCGGGCTATATGCCTAGCAAGTTGTGTG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
19550434 TCGGTGTATT
Statistics
Matches: 328, Mismatches: 52, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
38 4 0.01
39 320 0.98
40 4 0.01
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (38 bp):
TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCGA
Found at i:19555982 original size:299 final size:299
Alignment explanation
Indices: 19555429--19556325 Score: 1234
Period size: 299 Copynumber: 3.0 Consensus size: 299
19555419 AGTCACGATA
* *
19555429 GATTTCATATCTGG--T--CTGTAACTCCGAGAAAGAAAGATTCAATCT-GAGGGATTGTTGACA
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGA-TGATTGTTGATA
* * * * * *
19555489 GATTGACGAAAACGAAACATTTTATTCTAATCAGAACATACTATACCCTTGAGAGATTAGTAGAA
65 GATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAA
* * * ** * *
19555554 CTATATGGGTCTGAGATTGTGACATTACACGAAG-TTCTGACATCTATTATTTCTAATCAAGATA
130 CTATATGTGTCTGAGATTGTGAGATTACACGAAGTTTC-AACATCTATTATTTCGGATCGAGATC
* ** *
19555618 TGAGATTTATATCGAGATTTTATAGCAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGC
194 TGAGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGC
* * *
19555683 ACCACGATTCATCCTCAGACTGACGGGTAATCAAAACGAGT
259 ACCGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
*
19555724 GATTTCGTATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
** *
19555789 ATTGAAGAAATCGGCACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAACAGAAC
66 ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
*
19555854 TATATGTGCCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
131 TATATGTGTCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
* * * * *
19555919 AGATTTACATTGAGATTTTGGAACAAAATTCATGAGGCTTTACGTACTAAGCTTAATTTCAGCAT
196 AGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGCAC
*
19555984 CGCGATTCATCCTCAGACTGACAGGCAATCAGAACGAGT
261 CGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
* * *
19556023 GATTTCATATTTGGTTTACCTGTAACTCCGAGAAATAAAGATTGAATCTGGATGATTGTTGATAG
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
* * * *
19556088 ATTGATGAAATCGAAACATTTTACTCCAATCAGAATAGACTACACCCTTGAGAGATTAGCAAAAC
66 ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
* * * * **
19556153 TATATGTGTCTGAGATTGTGAGATTACACGGAGTTCCAGCATCTATTATTTTGGATCGAGATCCA
131 TATATGTGTCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
* *
19556218 AGATTTACATCGAGATTTTGGAGA-AAACTTCACT-AGGCTTTAGGCATTAAGCTTAATTTCAAC
196 AGATTTACATCGAGATTTTGGA-ACAAACTTCA-TGAGGCTTTAGGCACTAAGCTTAATTTCAGC
* * * *
19556281 ACTGCGTTTCATCCTCAGATTGACGAGCAATCAGAACGAGT
259 ACCGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
19556322 GATT
1 GATT
19556326 CAAATTTTGG
Statistics
Matches: 531, Mismatches: 63, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
295 13 0.02
297 1 0.00
299 510 0.96
300 7 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (299 bp):
GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
TATATGTGTCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
AGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGCAC
CGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
Found at i:19558332 original size:23 final size:23
Alignment explanation
Indices: 19558302--19558345 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
19558292 GTGCCTAGCA
19558302 GGCTGTGTGC-GGATGATTATTTG
1 GGCTGTGTGCTGG-TGATTATTTG
19558325 GGCTGTGTGCTGGTGATTATT
1 GGCTGTGTGCTGGTGATTATT
19558346 CAGGCTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.11, C:0.09, G:0.39, T:0.41
Consensus pattern (23 bp):
GGCTGTGTGCTGGTGATTATTTG
Found at i:19558351 original size:23 final size:23
Alignment explanation
Indices: 19558300--19558351 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
19558290 ATGTGCCTAG
19558300 CAGGCTGTGTGCGGATGATTATT
1 CAGGCTGTGTGCGGATGATTATT
**
19558323 TGGGCTGTGTGCTGG-TGATTATT
1 CAGGCTGTGTGC-GGATGATTATT
19558346 CAGGCT
1 CAGGCT
19558352 ACGTTCCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.13, C:0.13, G:0.37, T:0.37
Consensus pattern (23 bp):
CAGGCTGTGTGCGGATGATTATT
Found at i:19558368 original size:39 final size:39
Alignment explanation
Indices: 19558325--19558612 Score: 254
Period size: 39 Copynumber: 7.4 Consensus size: 39
19558315 TGATTATTTG
* * *
19558325 GGCTGTGTGCTGGTGATTATTCAGGCTACGTTCCTAGTA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
** * * *
19558364 GGCTGCATG-TAGGTGATTATTCAGGCGATGTGCCAAGCC
1 GGCTGTGTGCT-GGTGATTATTCAGGCTATGTGCCTAGCA
** * * * *
19558403 GGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* * * * *
19558442 GGCTGTGTGCTAGTGAATATTCGGGTTATGTGCCTAGCT
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* ** *
19558481 GGCTGTATGCTGGTGATTATTCAGGCTATGTATCTTGCA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* * *
19558520 GGCTGTGTGCCGGTGATTATTCGGGCTATGTGCCTAGTA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* * * * * *
19558559 GTCTGTGTTCCGATGATTATTCAGGCTATATGCTTAGCA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* *
19558598 GGATGTGTGCCGGTG
1 GGCTGTGTGCTGGTG
19558613 TATGAAAAAT
Statistics
Matches: 196, Mismatches: 51, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
38 1 0.01
39 195 0.99
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (39 bp):
GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
Found at i:19558531 original size:117 final size:117
Alignment explanation
Indices: 19558325--19558566 Score: 281
Period size: 117 Copynumber: 2.1 Consensus size: 117
19558315 TGATTATTTG
* * *
19558325 GGCTGTGTGCTGGTGATTATTCAGGCTACGTTCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
1 GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
* *
19558390 GATGTGCCAAGCCGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
66 GATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
* * * *
19558442 GGCTGTGTGCTAGTGAATATTCGGGTTATGTGCCTAGCT-GGCTGTATGCT-GGTGATTATTCAG
1 GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAG-TAGGCTGCATG-TAGGTGATTATTCAG
* * ** ** * * *
19558505 GCTATGTATCTTGCAGGCTGTGTGCCGGTGATTATTCGGGCTATGTGCCTAGTA
64 GCGATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
*
19558559 GTCTGTGT
1 GGCTGTGT
19558567 TCCGATGATT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
117 102 0.98
118 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (117 bp):
GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
GATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
Found at i:19561002 original size:440 final size:440
Alignment explanation
Indices: 19560176--19561056 Score: 1564
Period size: 440 Copynumber: 2.0 Consensus size: 440
19560166 GAATGAACCT
* *
19560176 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTTCGTATGATGCATGACTAATATGT
1 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
* *
19560241 TGCGTACTTAAAGGTAAACTCTACAGTTCCATAACCTTAATCTTCTCACCCTTAAGGTTGAAGTA
66 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
*
19560306 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTGCTGAATTTTGTGGT
131 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
19560371 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
196 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
19560436 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
261 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
* **
19560501 AATGGTGTTCCACATTAATGGCAATGGTGTAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
326 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
* ** *
19560566 TAATTTTGAAAGAAGTAGGTTAGCAAACTCTATTTGGAGTGGAAGAAGGA
391 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
* * *
19560616 AGACTGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGTATAACTTATATGT
1 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
19560681 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
66 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
* *
19560746 AGCAACATGTTTATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTATTGAATTTTGTGGT
131 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
* * *
19560811 AATGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAGAGGGTGCTAGATGA
196 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
*
19560876 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTATCATTTTTAAAAGAGGAAGCATTCC
261 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
*
19560941 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTGGGACTTCTTTAAGTCC
326 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
19561006 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
391 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
19561056 A
1 A
19561057 TTTCTTGAGT
Statistics
Matches: 419, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
440 419 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (440 bp):
AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
Found at i:19564640 original size:299 final size:299
Alignment explanation
Indices: 19564102--19564694 Score: 904
Period size: 299 Copynumber: 2.0 Consensus size: 299
19564092 GGATTTCGTA
* *
19564102 TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAGATTGATGAA
1 TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAAATTGATCAA
* *
19564167 ATCGATACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAATTATATGTAT
66 ATCGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGTAT
* * * *
19564232 CTTAGATTGTGAGATTACATGGAGTTCCGACATCTATTATTTTGAATTGAGATCCGATATTTACA
131 CTGAGATTGTGAGATTACACGGAGTTCCGACATCTATTATTTTGAATCGAGATCCGAGATTTACA
* * * *
19564297 TCGAGATTTTGGAGCAAACTTAATGAGGCTTTAAGCACTAAGCTTAATTTCAGCACTGCATTTCA
196 TCAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCA
* *
19564362 TCTTCAGACTGACGGGCAATCAGAATGAATGATTTTTTT
261 TCCTCAGACTGACGGGCAATCAGAACGAATGATTTTTTT
* * *
19564401 TCTGGTTTACTTGTAACTCCGAGAAAGAAAGATTCAATAC-GGGTGATTGTTGACAAATTGA-CA
1 TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAAT-CTGGGTGATTGTTGACAAATTGATCA
* * * *
19564464 AAGTCGGCACATTTTATTCCAATTAGAATATACTACACCCTTGAGAGATTAGCAGAACTATATGT
65 AA-TCGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGT
* *
19564529 GTCTGAGATTGTGAGATTACACGGAGTTTCGACATCTATTATTTT-AGATCGAGATCCGAGATTT
129 ATCTGAGATTGTGAGATTACACGGAGTTCCGACATCTATTATTTTGA-ATCGAGATCCGAGATTT
*
19564593 ACATCAAGATTTTGGAGCAAACTTTACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATT
193 ACATCAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATT
* *
19564658 TCATCCTCAGACTGACGGGGAATCAGAACGAGTGATT
258 TCATCCTCAGACTGACGGGCAATCAGAACGAATGATT
19564695 CTGTAACAGC
Statistics
Matches: 265, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
298 4 0.02
299 260 0.98
300 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (299 bp):
TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAAATTGATCAA
ATCGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGTAT
CTGAGATTGTGAGATTACACGGAGTTCCGACATCTATTATTTTGAATCGAGATCCGAGATTTACA
TCAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCA
TCCTCAGACTGACGGGCAATCAGAACGAATGATTTTTTT
Found at i:19565940 original size:50 final size:50
Alignment explanation
Indices: 19565881--19566167 Score: 361
Period size: 50 Copynumber: 5.8 Consensus size: 50
19565871 GGCAGTGAGT
* * *
19565881 GTGCCAGTGTAAGACCATGTCTGGCACATGGCATCGGCACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
*
19565931 GTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * *
19565981 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCA-ATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CAGAGGA
* *
19566031 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACAGATGAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-G-GA
* * * *
19566083 GT-C-AGTGTAAGATCATGTCTGGGACATGGCATCGGCTC---TAGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * *
19566128 GTGCCAATGTAAGACCATGTCCGGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
19566168 CGATATACGA
Statistics
Matches: 209, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
45 4 0.02
46 1 0.00
47 34 0.16
49 2 0.01
50 161 0.77
51 3 0.01
52 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
Found at i:19566033 original size:100 final size:99
Alignment explanation
Indices: 19565885--19566167 Score: 410
Period size: 100 Copynumber: 2.9 Consensus size: 99
19565875 GTGAGTGTGC
* *
19565885 CAGTGTAAGACCATGTCTGGCACATGGCATCGGCACAGACCGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACC-ATGAGTGCTAGTGTAAGACCATG
*
19565950 TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACAGACAGAGGAGAGT
*
19565985 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAATGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACC-ATGAGTGCTAGTGTAAGACCATG
* * *
19566050 TCTGGGACATGGCATTGGCACGGACAGATGAGAGT
65 TCTGGGACATGGCATCGGCACAGACAGAGGAGAGT
* * * *
19566085 CAGTGTAAGATCATGTCTGGGACATGGCATCGGCTCTAG---ATGAGTGCCAATGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGACCATGAGTGCTAGTGTAAGACCATG
*
19566147 TCCGGGACATGGCATCGGCAC
65 TCTGGGACATGGCATCGGCAC
19566168 CGATATACGA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
97 40 0.24
100 125 0.75
101 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCATGAGTGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACAGACAGAGGAGAGT
Done.