Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 101 of 153
Found at i:31772377 original size:16 final size:16
Alignment explanation
Indices: 31772356--31772390 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31772346 TTGTGTTTTG
31772356 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
* *
31772372 TTTTGACTGCATGGCA
1 TTTTGAATGCATGACA
31772388 TTT
1 TTT
31772391 CATTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:31775636 original size:22 final size:25
Alignment explanation
Indices: 31775611--31775667 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
31775601 AAGAAAAACT
31775611 AAAAAACAAAAT-AAAA-AAAATCA
1 AAAAAACAAAATCAAAACAAAATCA
31775634 AAAATCAACAAAATCAAAATCAAAATCA
1 AAAA--AACAAAATCAAAA-CAAAATCA
31775662 AAAAAA
1 AAAAAA
31775668 TTAGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.14
25 8 0.28
26 6 0.21
28 11 0.38
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.11
Consensus pattern (25 bp):
AAAAAACAAAATCAAAACAAAATCA
Found at i:31775667 original size:21 final size:22
Alignment explanation
Indices: 31775627--31775668 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
31775617 CAAAATAAAA
*
31775627 AAAATCAAAAATCAACAAAATC
1 AAAATCAAAAATCAAAAAAATC
31775649 AAAATC-AAAATCAAAAAAAT
1 AAAATCAAAAATCAAAAAAAT
31775669 TAGAAAATAA
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:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAATCAAAAATCAAAAAAATC
Found at i:31775668 original size:15 final size:15
Alignment explanation
Indices: 31775611--31775658 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
31775601 AAGAAAAACT
*
31775611 AAAAAA-CAAAATAA
1 AAAAAATCAAAATCA
31775625 AAAAAATCAAAAATCA
1 AAAAAATC-AAAATCA
*
31775641 ACAAAATCAAAATCA
1 AAAAAATCAAAATCA
31775656 AAA
1 AAA
31775659 TCAAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 10 0.34
16 13 0.45
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAATCAAAATCA
Found at i:31775705 original size:16 final size:17
Alignment explanation
Indices: 31775686--31775719 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31775676 TAAGAATGAT
31775686 GAAAAAAAAGAA-AAAA
1 GAAAAAAAAGAAGAAAA
*
31775702 GAAAAGAAAGAAGAAAA
1 GAAAAAAAAGAAGAAAA
31775719 G
1 G
31775720 GAGAGGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAGAAGAAAA
Found at i:31775708 original size:12 final size:12
Alignment explanation
Indices: 31775687--31775719 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
31775677 AAGAATGATG
31775687 AAAA-AAAAGAA
1 AAAAGAAAAGAA
31775698 AAAAGAAAAGAA
1 AAAAGAAAAGAA
*
31775710 AGAAGAAAAG
1 AAAAGAAAAG
31775720 GAGAGGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:31777086 original size:88 final size:88
Alignment explanation
Indices: 31776974--31777141 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
31776964 TTCAGCCTTA
* *
31776974 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAAT-AGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGA-CAGATCTTGCCTTCCTGTACTGGCAGCGA
*
31777038 AGTAGATCGAAGATACGAGTATTT
65 AGCAGATCGAAGATACGAGTATTT
* * * *
31777062 TCTCCCTGGGTAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTTCTGTACTGGCGGCGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGGCAGCGAA
31777127 GCAGATCGAAGATAC
66 GCAGATCGAAGATAC
31777142 CCGTCTTATC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 71 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGGCAGCGAA
GCAGATCGAAGATACGAGTATTT
Found at i:31777394 original size:50 final size:50
Alignment explanation
Indices: 31777332--31777667 Score: 210
Period size: 50 Copynumber: 6.7 Consensus size: 50
31777322 TTAGCATTAT
* ** *
31777332 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGT
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTGC
* * * * *** *
31777382 AGTGGAATAGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGACATTGAA
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTG-C
* ** * * * *
31777433 AATTAAAAAGATTTAAGCCACAATGGCGGATCTTACTTCCCTGGCGA-TGT
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGAC-ATTGC
* ** * *** * *
31777483 AGTGGAACAGATTGAAGCTTCGACGGCGGATCTGGTTTCCCCGATATTGC
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTGC
* * * ** **
31777533 AAT-TAAAAGGATTGAAGCCACAATGGTAGATCTTACTTCCCT-AGCGGTGC
1 AGTGGAAAA-GATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CATTGC
* * * * ** *
31777583 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCAGACATTGC
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTGC
* **
31777633 AATTAAAAAGATTGAAGCCACAACGGCGGATCTTA
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTA
31777668 ACATTAATAA
Statistics
Matches: 200, Mismatches: 79, Indels: 14
0.68 0.27 0.05
Matches are distributed among these distances:
49 5 0.03
50 156 0.78
51 38 0.19
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTGC
Found at i:31777587 original size:100 final size:100
Alignment explanation
Indices: 31777337--31777667 Score: 491
Period size: 100 Copynumber: 3.3 Consensus size: 100
31777327 ATTATAGTGG
* *
31777337 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAATGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
31777402 CGACAGCGGATCTGGTTTCCCTGACATTGAAAATTA
66 CGACGGCGGATCTGGTTTCCCAGACATTG-CAATTA
* * *
31777438 AAAAGATTTAAGCCACAATGGCGGATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTT
1 AAAAGATTGAAGCCACAATGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31777503 CGACGGCGGATCTGGTTTCCCCGATATTGCAATTA
66 CGACGGCGGATCTGGTTTCCCAGACATTGCAATTA
* ** * *
31777538 AAAGGATTGAAGCCACAATGGTAGATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAATGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31777603 CGACGGCGAATCTTGTTTCCCAGACATTGCAATTA
66 CGACGGCGGATCTGGTTTCCCAGACATTGCAATTA
*
31777638 AAAAGATTGAAGCCACAACGGCGGATCTTA
1 AAAAGATTGAAGCCACAATGGCGGATCTTA
31777668 ACATTAATAA
Statistics
Matches: 205, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
100 119 0.58
101 86 0.42
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAATGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGGATCTGGTTTCCCAGACATTGCAATTA
Found at i:31777942 original size:26 final size:26
Alignment explanation
Indices: 31777894--31777948 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
31777884 TTTGAAATTT
* * *
31777894 ATTCGAATCGAATCAAGTGGAATGAA
1 ATTCGAATCGAATCAAATCGAATAAA
* *
31777920 ATTCGAGTCGAGTCAAATCGAATAAA
1 ATTCGAATCGAATCAAATCGAATAAA
31777946 ATT
1 ATT
31777949 GTTTAAGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (26 bp):
ATTCGAATCGAATCAAATCGAATAAA
Found at i:31778199 original size:17 final size:18
Alignment explanation
Indices: 31778177--31778216 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
31778167 TTTTTTAGAT
*
31778177 TTTTTTAAAAATTAT-AA
1 TTTTTTAAAAAATATAAA
31778194 TTTTTTAAAAAATATAAA
1 TTTTTTAAAAAATATAAA
31778212 TTTTT
1 TTTTT
31778217 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTTAAAAAATATAAA
Found at i:31778243 original size:20 final size:19
Alignment explanation
Indices: 31778206--31778260 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
31778196 TTTTAAAAAA
31778206 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
31778224 TATAAATATTTTGATTTTT
1 TATAAATATTTTGAATTTT
*
31778243 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
31778261 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 7 0.22
19 15 0.47
20 10 0.31
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:31779817 original size:88 final size:88
Alignment explanation
Indices: 31779705--31779872 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
31779695 TTCAGCCTTA
* *
31779705 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAAT-AGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGA-CAGATCTTGCCTTCCTGTACTGGCAGCGA
*
31779769 AGTAGATCGAAGATACGAGTATTT
65 AGCAGATCGAAGATACGAGTATTT
* * * *
31779793 TCTCCCTGGGTAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTTCTGTACTGGCGGCGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGGCAGCGAA
31779858 GCAGATCGAAGATAC
66 GCAGATCGAAGATAC
31779873 CCGTCTTATC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 71 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGGCAGCGAA
GCAGATCGAAGATACGAGTATTT
Found at i:31780175 original size:167 final size:167
Alignment explanation
Indices: 31779892--31780312 Score: 601
Period size: 167 Copynumber: 2.5 Consensus size: 167
31779882 CGCCTTGACG
* *
31779892 TTGCAATGGAAAAGACTGAAGCCACAACGGCGGATCTTATTTTCCTGGTGTCT-TAGCGGAGTAG
1 TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGT-TGTAGCGGAGTAG
* *
31779956 ATTGAAGCCACGACGGCGGATCTTATCTTCCTGGTGTTAAGACTTGGATTAGCTGAAGTGGAGCG
65 ATTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGACTTCGATTAGCTGAAGTGGAGCG
* *
31780021 GATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTTGCA
130 GATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCA
** * * *
31780059 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCATTGCAGCGGAGCAGA
1 TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTTGTAGCGGAGTAGA
* *
31780124 TTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGGCTTCGATTAGCTGAAGTGGAGTGG
66 TTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGACTTCGATTAGCTGAAGTGGAGCGG
* *
31780189 ATTGAAGCTGTGGGCAGCAAATTCTATCTCTTTAGCA
131 ATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCA
** * * * * * *
31780226 TTATAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGA
1 TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTTGTAGCGGAGTAGA
* *
31780291 TTGAAGCTACGACAGCGGATCT
66 TTGAAGCCACGACGGCGGATCT
31780313 GGTTTCCCTG
Statistics
Matches: 223, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
166 1 0.00
167 222 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (167 bp):
TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTTGTAGCGGAGTAGA
TTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGACTTCGATTAGCTGAAGTGGAGCGG
ATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCA
Found at i:31780292 original size:50 final size:50
Alignment explanation
Indices: 31780229--31780607 Score: 238
Period size: 50 Copynumber: 7.6 Consensus size: 50
31780219 TTTAGCATTA
31780229 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * * * *** * **
31780279 TAGTGGAATAGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGACATTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * ** * * *
31780329 AAAATTAAAAAGATTTAAGCCACAATGGCGGATCTTACTTCCCTGGCGATG
1 -TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* ** * *** * ****
31780380 TAGTGGAACAGATTGAAGCTTCGACGGCGGATCTGGTTTCCCCGATATTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * * * ** *
31780430 CAAT-TAAAAGGATTGAAGCCACAATGGTAGATCTTACTTCCCTAGCGGTG
1 TAGTGGAAAA-GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * * * * ** * * **
31780480 CAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCAGACATTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * ** *
31780530 CAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * *
31780580 TAGTGGAATAGATTGAAGTCACGACGGC
1 TAGTGGAAAAGATTGAAGCCACAACGGC
31780608 TAATCTTGTT
Statistics
Matches: 225, Mismatches: 101, Indels: 6
0.68 0.30 0.02
Matches are distributed among these distances:
49 3 0.01
50 185 0.82
51 37 0.16
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (50 bp):
TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
Found at i:31780485 original size:100 final size:100
Alignment explanation
Indices: 31780235--31780637 Score: 556
Period size: 100 Copynumber: 4.0 Consensus size: 100
31780225 ATTATAGTGG
*
31780235 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * *
31780300 CGACAGCGGATCTGGTTTCCCTGACATTGAAAATTA
66 CGACGGCGAATCTGGTTTCCCCGACATTG-CAATTA
* * * *
31780336 AAAAGATTTAAGCCACAATGGCGGATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTT
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31780401 CGACGGCGGATCTGGTTTCCCCGATATTGCAATTA
66 CGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
* * ** * *
31780436 AAAGGATTGAAGCCACAATGGTAGATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
31780501 CGACGGCGAATCTTGTTTCCCAGACATTGCAATTA
66 CGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
* *
31780536 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAG-TC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-
* * * *
31780600 ACGACGGCTAATCTTGTTTCCTCGACATTGCAGTTA
65 ACGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
31780636 AA
1 AA
31780638 CAATTTGAAA
Statistics
Matches: 270, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 183 0.68
101 86 0.32
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
Found at i:31781984 original size:46 final size:46
Alignment explanation
Indices: 31781917--31782009 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
31781907 ATACATAGAT
31781917 GGGCACATGAGTCTAGTTTCTGGTAAAAATTACGAAACTGATTTTC
1 GGGCACATGAGTCTAGTTTCTGGTAAAAATTACGAAACTGATTTTC
31781963 GGGCACATGAGTCTAGTTTCTGGTAAAAATTACGAAACTGATTTTC
1 GGGCACATGAGTCTAGTTTCTGGTAAAAATTACGAAACTGATTTTC
31782009 G
1 G
31782010 AGTTACGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (46 bp):
GGGCACATGAGTCTAGTTTCTGGTAAAAATTACGAAACTGATTTTC
Found at i:31795107 original size:20 final size:21
Alignment explanation
Indices: 31795065--31795107 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31795055 ATTTTAGTGA
*
31795065 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
31795086 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
31795106 TT
1 TT
31795108 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:31798770 original size:16 final size:16
Alignment explanation
Indices: 31798749--31798779 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31798739 ATAAATTTGA
31798749 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
31798765 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
31798780 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:31809417 original size:107 final size:107
Alignment explanation
Indices: 31809280--31809481 Score: 386
Period size: 107 Copynumber: 1.9 Consensus size: 107
31809270 GAGTTGGCCT
31809280 GTTTAGGTTGAGGTGGTTATGTATACATCAATGTGCATATGGCTTGGTTATGTGATTAAATATAA
1 GTTTAGGTTGAGGTGGTTATGTATACATCAATGTGCATATGGCTTGGTTATGTGATTAAATATAA
31809345 ACATGTTATGCTTGTTGATATTTGGCAATTACGGGGTTGTGA
66 ACATGTTATGCTTGTTGATATTTGGCAATTACGGGGTTGTGA
* *
31809387 GTTTAGGTTGATGTGGTTATGTATATATCAATGTGCATATGGCTTGGTTATGTGATTAAATATAA
1 GTTTAGGTTGAGGTGGTTATGTATACATCAATGTGCATATGGCTTGGTTATGTGATTAAATATAA
31809452 ACATGTTATGCTTGTTGATATTTGGCAATT
66 ACATGTTATGCTTGTTGATATTTGGCAATT
31809482 TTGGGGACTA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (107 bp):
GTTTAGGTTGAGGTGGTTATGTATACATCAATGTGCATATGGCTTGGTTATGTGATTAAATATAA
ACATGTTATGCTTGTTGATATTTGGCAATTACGGGGTTGTGA
Found at i:31820427 original size:30 final size:30
Alignment explanation
Indices: 31820393--31820450 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
31820383 ATGTGTTTGG
31820393 AAATTTTGTTACATTGATGATTAATTCTGA
1 AAATTTTGTTACATTGATGATTAATTCTGA
31820423 AAATTTTGTTACATTGATGATTAATTCT
1 AAATTTTGTTACATTGATGATTAATTCT
31820451 TGAATCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (30 bp):
AAATTTTGTTACATTGATGATTAATTCTGA
Found at i:31824814 original size:201 final size:201
Alignment explanation
Indices: 31824444--31824816 Score: 503
Period size: 201 Copynumber: 1.9 Consensus size: 201
31824434 ACGAACTCAG
* * *
31824444 TAGACTCAACAGGTAGAGTCTTACTGGATGCTAAGGTTTCACATACATATGAATGAGTAGAGCCA
1 TAGACTCAACAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATACATAAGAATGAGTAGAACCA
* * * * * * *
31824509 GGGTCAATCAATGCAATCACATTAGTATCAAAGAGAGTGAAGGTACCAGTGATGACGTCAGGGGA
66 GGGTCAATCAAAGCAATCACATTAGTATCAAAGAGAGTAAAAGTACCAGTAATAACATCAGGCGA
* * * * * * * *
31824574 GGATGCCTCCTCTCGTGCGCGAATGGCATATGCTCTAGCAGGAGTACGGTTCTCGGCTCGAACAG
131 AGAAGCATCCTCGCGGGCACGAATAGCATAAGCTCTAGCAGGAGTACGGTTCTCGGCTCGAACAG
31824639 CCGTAA
196 CCGTAA
* ** **
31824645 TAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACTG
1 TAGACTCAACAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATACATAAGAATGAGTAGAACCA
* *
31824710 GGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGTAAAAGTACCGGTAATAACATCAGGCGA
66 GGGTCAATCAAAGCAATCACATTAGTATCAAAGAGAGTAAAAGTACCAGTAATAACATCAGGCGA
* *
31824775 AGAAGCATCCTCGCGGGCACGTATAGCATAAGTTCTAGCAGG
131 AGAAGCATCCTCGCGGGCACGAATAGCATAAGCTCTAGCAGG
31824817 CGCACGAGCC
Statistics
Matches: 145, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
201 145 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (201 bp):
TAGACTCAACAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATACATAAGAATGAGTAGAACCA
GGGTCAATCAAAGCAATCACATTAGTATCAAAGAGAGTAAAAGTACCAGTAATAACATCAGGCGA
AGAAGCATCCTCGCGGGCACGAATAGCATAAGCTCTAGCAGGAGTACGGTTCTCGGCTCGAACAG
CCGTAA
Found at i:31827603 original size:40 final size:40
Alignment explanation
Indices: 31827566--31827711 Score: 206
Period size: 40 Copynumber: 3.6 Consensus size: 40
31827556 GCTACTCGTT
* *
31827566 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
31827606 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
31827646 CAAATGCCTTCGGGACTTAACCCGGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
31827687 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31827712 CATCATTCAA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
40 88 0.90
41 10 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31834048 original size:27 final size:27
Alignment explanation
Indices: 31834018--31834195 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31834008 ATATTGAGTC
* * * *
31834018 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31834045 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31834072 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31834100 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31834127 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31834154 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31834181 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31834196 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31834157 original size:82 final size:81
Alignment explanation
Indices: 31834039--31834194 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31834029 TGCTATATAA
* *
31834039 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31834104 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31834121 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31834185 CACTTAGTGC
65 CACTTAGTGC
31834195 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31834691 original size:12 final size:12
Alignment explanation
Indices: 31834674--31834702 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
31834664 CACGAATGGC
31834674 ATATATGTATAT
1 ATATATGTATAT
31834686 ATATATGTATAT
1 ATATATGTATAT
31834698 ATATA
1 ATATA
31834703 CTTCGGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:31838443 original size:40 final size:40
Alignment explanation
Indices: 31838259--31838444 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
31838249 GCTACTCGTT
*
31838259 CAAATGCCTTCGGGACATT-GCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TTAACCCGGATT-TAGTAACTCGCA
*
31838299 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
31838339 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
31838379 CAAATGCCTTCGGGACTTAACCCGGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
31838420 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31838445 CATCATTCAA
Statistics
Matches: 134, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 120 0.90
41 12 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31843645 original size:19 final size:19
Alignment explanation
Indices: 31843621--31843663 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
31843611 AATGTTTGAA
*
31843621 TGTTGCATCACATACCCTG
1 TGTTGCAACACATACCCTG
31843640 TGTTGCAACACATACCCTG
1 TGTTGCAACACATACCCTG
31843659 TGTTG
1 TGTTG
31843664 ATCCATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (19 bp):
TGTTGCAACACATACCCTG
Found at i:31845630 original size:8 final size:8
Alignment explanation
Indices: 31845614--31845656 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
31845604 TTAGATTGGC
*
31845614 AAATCCCG
1 AAATACCG
31845622 AAATACCG
1 AAATACCG
*
31845630 AAATGCCG
1 AAATACCG
*
31845638 AAATGCCG
1 AAATACCG
*
31845646 AAATATCG
1 AAATACCG
31845654 AAA
1 AAA
31845657 AGCCAAAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (8 bp):
AAATACCG
Found at i:31845933 original size:29 final size:29
Alignment explanation
Indices: 31845898--31846029 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
31845888 TTCAGGCCGG
*
31845898 ATGGGCCATATGAACGTGATTTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
* *
31845927 ATAGGCCATACGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
31845956 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
**
31845985 ATGGGCCATATGAATAAGA-TTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
* *
31846013 GTGGGCCATATGCATGT
1 ATGGGCCATATGAATGT
31846030 ATGTAGACTT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 22 0.24
29 70 0.76
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGTGATTTGGGCCTA
Found at i:31849568 original size:11 final size:11
Alignment explanation
Indices: 31849552--31849577 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31849542 ATTGCATGTA
31849552 TGATATTATTG
1 TGATATTATTG
31849563 TGATATTATTG
1 TGATATTATTG
31849574 TGAT
1 TGAT
31849578 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:31857057 original size:17 final size:19
Alignment explanation
Indices: 31857031--31857076 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
31857021 ATATTATGCG
31857031 AAAAACTAAA-T-AAAACA
1 AAAAACTAAATTAAAAACA
*
31857048 AAAAATTAAATTAAAAACA
1 AAAAACTAAATTAAAAACA
*
31857067 AATAACTAAA
1 AAAAACTAAA
31857077 CATATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 1 0.04
19 14 0.58
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAACTAAATTAAAAACA
Found at i:31858626 original size:16 final size:16
Alignment explanation
Indices: 31858605--31858645 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
31858595 CAATACATAC
*
31858605 ATTTAATATAATAATT
1 ATTTAATATAATAATA
*
31858621 ATTTAATATTATAATA
1 ATTTAATATAATAATA
*
31858637 ATTAAATAT
1 ATTTAATAT
31858646 TTAAATTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTAATATAATAATA
Found at i:31860858 original size:2 final size:2
Alignment explanation
Indices: 31860851--31860877 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31860841 CATGTTTTGA
31860851 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
31860878 AACACTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31865975 original size:20 final size:20
Alignment explanation
Indices: 31865950--31865995 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
31865940 TATATAAAAG
31865950 ATTTTTTTAAAAAAATTTA-A
1 ATTTTTTT-AAAAAATTTATA
*
31865970 ATTTTTTTATAAAATTTATA
1 ATTTTTTTAAAAAATTTATA
31865990 ATTTTT
1 ATTTTT
31865996 ATGATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTTTAAAAAATTTATA
Found at i:31865976 original size:19 final size:20
Alignment explanation
Indices: 31865952--31865995 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
31865942 TATAAAAGAT
31865952 TTTTTTAAAAAAATTTA-AA
1 TTTTTTAAAAAAATTTATAA
* *
31865971 TTTTTTTATAAAATTTATAA
1 TTTTTTAAAAAAATTTATAA
31865991 TTTTT
1 TTTTT
31865996 ATGATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTAAAAAAATTTATAA
Found at i:31866002 original size:21 final size:19
Alignment explanation
Indices: 31865961--31866004 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
31865951 TTTTTTTAAA
*
31865961 AAAATTTAAATTTTTTTAT
1 AAAATTTAAATTTTTTGAT
31865980 AAAATTTATAATTTTTATGAT
1 AAAATTTA-AATTTTT-TGAT
31866001 AAAA
1 AAAA
31866005 ATATCTCGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 7 0.32
21 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAAATTTAAATTTTTTGAT
Found at i:31868612 original size:17 final size:17
Alignment explanation
Indices: 31868590--31868650 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
31868580 ATTGAATCAA
31868590 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
31868607 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
31868627 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
31868644 TACATAA
1 TACATAA
31868651 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:31868623 original size:37 final size:36
Alignment explanation
Indices: 31868581--31868672 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 36
31868571 ATTAACCGAA
31868581 TTGAATCAATACATAATTAAAAACATTACATAAGTC
1 TTGAATCAATACATAATTAAAAACATTACATAAGTC
*
31868617 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
1 -TTGAATCAATACATAATTAAAAACATTACATAAGTC
* *
31868654 TTGAAATTAACACATAATT
1 TTG-AATCAATACATAATT
31868673 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 3 0.06
37 47 0.94
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (36 bp):
TTGAATCAATACATAATTAAAAACATTACATAAGTC
Found at i:31874248 original size:28 final size:30
Alignment explanation
Indices: 31874199--31874277 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 30
31874189 AGAAACAAAC
* *
31874199 TATATACAT-AAATAGATTTAAAA-GAA-AA
1 TATATACATAAAATA-ATATAAAATCAATAA
*
31874227 TATTTACATAAAATAATATAAAATCAATAA
1 TATATACATAAAATAATATAAAATCAATAA
*
31874257 TATATACAAAAAAATAATATA
1 TATATAC-ATAAAATAATATA
31874278 CAACATAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 15 0.36
29 7 0.17
30 8 0.19
31 12 0.29
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (30 bp):
TATATACATAAAATAATATAAAATCAATAA
Found at i:31874287 original size:15 final size:15
Alignment explanation
Indices: 31874238--31874289 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
31874228 ATTTACATAA
*
31874238 AATAATATAAAATCAAT
1 AATAATATACAA-C-AT
* *
31874255 AAT-ATATACAAAAA
1 AATAATATACAACAT
31874269 AATAATATACAACAT
1 AATAATATACAACAT
31874284 AATAAT
1 AATAAT
31874290 GTGTAAAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.14
15 15 0.52
16 7 0.24
17 3 0.10
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATATACAACAT
Found at i:31877042 original size:33 final size:33
Alignment explanation
Indices: 31877005--31877087 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
31876995 ACTACCACAA
*
31877005 CAATATTCCACTCCTCCTAGCCCATTACCACCG
1 CAATACTCCACTCCTCCTAGCCCATTACCACCG
* *
31877038 CAATACTCTACTCCTCCTAGCCCATTACCACTG
1 CAATACTCCACTCCTCCTAGCCCATTACCACCG
31877071 CAATACTCCACTCCTCC
1 CAATACTCCACTCCTCC
31877088 CGGCCTAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.24, C:0.46, G:0.05, T:0.25
Consensus pattern (33 bp):
CAATACTCCACTCCTCCTAGCCCATTACCACCG
Found at i:31880601 original size:30 final size:30
Alignment explanation
Indices: 31880549--31880607 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31880539 ATTTATCTTT
*
31880549 TTTCTTTCTTTTCTTTTCTTTTTCTTCTCA
1 TTTCTTTCTTTTCTTTTCTTTTTCCTCTCA
*
31880579 TTTCTTTC-TTTCTTTCTTTTTTTCCTCTC
1 TTTCTTTCTTTTCTTT-TCTTTTTCCTCTC
31880608 CTTCTCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTCTTTCTTTTCTTTTCTTTTTCCTCTCA
Found at i:31880618 original size:30 final size:29
Alignment explanation
Indices: 31880550--31880622 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
31880540 TTTATCTTTT
*
31880550 TTCT-TTCTTTTCTTTTCTTTTTCTTCTCA
1 TTCTCTTC-TTTCTTTTCTTTTTCCTCTCA
* *
31880579 TT-TCTTTCTTTCTTTCTTTTTTTCCTCTCC
1 TTCTC-TTCTTTCTTT-TCTTTTTCCTCTCA
31880609 TTCTCTTC-TTCTTT
1 TTCTCTTCTTTCTTT
31880623 ACTGCTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 1 0.03
29 15 0.41
30 19 0.51
31 2 0.05
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.71
Consensus pattern (29 bp):
TTCTCTTCTTTCTTTTCTTTTTCCTCTCA
Found at i:31880640 original size:25 final size:26
Alignment explanation
Indices: 31880608--31880665 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
31880598 TTTTCCTCTC
*
31880608 CTTC-TCTTCTTC-TTTACTGCTT-T
1 CTTCTTCTTCTTCTTTTACTACTTCT
31880631 CTTTCTTCTTCTTCTTTTACTACTTCT
1 C-TTCTTCTTCTTCTTTTACTACTTCT
31880658 CTTCTTCT
1 CTTCTTCT
31880666 CTACAAGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 8 0.27
26 16 0.53
27 2 0.07
ACGTcount: A:0.05, C:0.31, G:0.02, T:0.62
Consensus pattern (26 bp):
CTTCTTCTTCTTCTTTTACTACTTCT
Found at i:31880645 original size:33 final size:35
Alignment explanation
Indices: 31880544--31880645 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 35
31880534 AATAGATTTA
* *
31880544 TCTTT-TTTCTTTCTTTTCTTTTCTTTTTCTTCTCATT
1 TCTTTCTTTCTTGC-TTTC-TTTCTTCTTCTTCTCA-T
* * * *
31880581 TCTTTCTTTCTTTCTTTTTTTCCTCTCCTTCTC-T
1 TCTTTCTTTCTTGCTTTCTTTCTTCTTCTTCTCAT
31880615 TC-TTCTTTAC-TGCTTTCTTTCTTCTTCTTCT
1 TCTTTCTTT-CTTGCTTTCTTTCTTCTTCTTCT
31880646 TTTACTACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
33 23 0.42
34 4 0.07
36 12 0.22
37 8 0.15
38 8 0.15
ACGTcount: A:0.02, C:0.27, G:0.01, T:0.70
Consensus pattern (35 bp):
TCTTTCTTTCTTGCTTTCTTTCTTCTTCTTCTCAT
Found at i:31882973 original size:16 final size:16
Alignment explanation
Indices: 31882919--31882973 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
31882909 CCATGGCCTC
31882919 TTAGTAAAATTTTAAT
1 TTAGTAAAATTTTAAT
***
31882935 TTAG-GCCATTTATAAT
1 TTAGTAAAATTT-TAAT
*
31882951 TTA-TAAAATTTTAAA
1 TTAGTAAAATTTTAAT
31882966 TTAGTAAA
1 TTAGTAAA
31882974 GATAATATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (16 bp):
TTAGTAAAATTTTAAT
Found at i:31889989 original size:26 final size:25
Alignment explanation
Indices: 31889942--31889991 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
31889932 TTAGTGTTAA
*
31889942 TTAATTTTAATTTATTTAATTAAGT
1 TTAATTTTAATTTATGTAATTAAGT
31889967 TTAATTGTTAATTT-TGTATATTAAG
1 TTAATT-TTAATTTATGTA-ATTAAG
31889992 GAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
TTAATTTTAATTTATGTAATTAAGT
Found at i:31897647 original size:41 final size:41
Alignment explanation
Indices: 31897586--31897684 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
31897576 TTTAGATATA
*
31897586 TCCTTTTCAA-CTTTTCATGTGTTATCCCTTTCAGGTAATT
1 TCCTTTTCAACCTTTTCATGTGTTATCCCTTTCAGGTAACT
* * *
31897626 TCCTTTTCAACCTTTTCATGTGTTATTCTTTTCGGGTAACT
1 TCCTTTTCAACCTTTTCATGTGTTATCCCTTTCAGGTAACT
31897667 TCCTTTTCAACCTTTTCA
1 TCCTTTTCAACCTTTTCA
31897685 AGAATTTGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 10 0.19
41 44 0.81
ACGTcount: A:0.16, C:0.24, G:0.09, T:0.51
Consensus pattern (41 bp):
TCCTTTTCAACCTTTTCATGTGTTATCCCTTTCAGGTAACT
Found at i:31900165 original size:55 final size:55
Alignment explanation
Indices: 31900099--31900210 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
31900089 TACCCTTCAA
*
31900099 ATTGTCTATTAAATATATTGAATTTTAAATTACTCATATTCCAGTGCCCTATAGG
1 ATTGTCTATTAAATATATCGAATTTTAAATTACTCATATTCCAGTGCCCTATAGG
*
31900154 ATTGTCTATTAAATATATCGAATTTTAAATTACTTATATTCCAGTGCCCTATAGG
1 ATTGTCTATTAAATATATCGAATTTTAAATTACTCATATTCCAGTGCCCTATAGG
31900209 AT
1 AT
31900211 CTACTAGTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (55 bp):
ATTGTCTATTAAATATATCGAATTTTAAATTACTCATATTCCAGTGCCCTATAGG
Found at i:31905599 original size:15 final size:15
Alignment explanation
Indices: 31905579--31905609 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31905569 GTCCTTCACG
31905579 ATTCTGATGTCCTTA
1 ATTCTGATGTCCTTA
31905594 ATTCTGATGTCCTTA
1 ATTCTGATGTCCTTA
31905609 A
1 A
31905610 CCGAAGAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (15 bp):
ATTCTGATGTCCTTA
Found at i:31908704 original size:15 final size:15
Alignment explanation
Indices: 31908686--31908717 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
31908676 TATAATCAAA
31908686 TCACATAAACAAGGG
1 TCACATAAACAAGGG
31908701 TCACATAAACAAGGG
1 TCACATAAACAAGGG
31908716 TC
1 TC
31908718 TAAGTAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.16
Consensus pattern (15 bp):
TCACATAAACAAGGG
Found at i:31911332 original size:25 final size:25
Alignment explanation
Indices: 31911271--31911342 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 25
31911261 ACTATTATTA
* *
31911271 TTATTATTATTTATTTTAAGTTGTT
1 TTATTATTATTTATTTTAAATCGTT
*
31911296 TTTTTGAAATTATTTATTTTAAATCGTT
1 TTATT---ATTATTTATTTTAAATCGTT
*
31911324 TTATTATTATGTATTTTAA
1 TTATTATTATTTATTTTAA
31911343 GTTTTACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 17 0.44
28 22 0.56
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (25 bp):
TTATTATTATTTATTTTAAATCGTT
Found at i:31911419 original size:26 final size:26
Alignment explanation
Indices: 31911361--31911618 Score: 157
Period size: 26 Copynumber: 9.8 Consensus size: 26
31911351 TATTTTAAAC
* * *
31911361 TATTATTCATTTTAAA-TTTTATACA
1 TATTATTTATTTTAAACTATTATATA
31911386 TATTATTTATTTTAAACTATTATATA
1 TATTATTTATTTTAAACTATTATATA
* ** *
31911412 TATCATTTATTTTGAAGGTTTTTTATATA
1 TATTATTTATTTT-AA--ACTATTATATA
*
31911441 TATTTTTTATTTTAAACTATTATATA
1 TATTATTTATTTTAAACTATTATATA
* * * *
31911467 TATTATCTATTTTAAAATTTTTTATA
1 TATTATTTATTTTAAACTATTATATA
* * * * *
31911493 TGTTAGTTA-GTTATACTATTTTATA
1 TATTATTTATTTTAAACTATTATATA
* * * * *
31911518 TGTTAATCATTTTAAATTCCTTAT-TA
1 TATTATTTATTTTAAACT-ATTATATA
*
31911544 TTATTATTTATTTTGAACT-TTCA-ATA
1 -TATTATTTATTTTAAACTATT-ATATA
* * *
31911570 TATTATTCATTTTAAAATATTTTTTATA
1 TATTATTTATTTTAAACTA--TTATATA
* *
31911598 TACTCTTTATTTTAAACTATT
1 TATTATTTATTTTAAACTATT
31911619 TTATTCAAAA
Statistics
Matches: 176, Mismatches: 44, Indels: 25
0.72 0.18 0.10
Matches are distributed among these distances:
25 51 0.29
26 66 0.38
27 18 0.10
28 22 0.12
29 19 0.11
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (26 bp):
TATTATTTATTTTAAACTATTATATA
Found at i:31911436 original size:55 final size:54
Alignment explanation
Indices: 31911377--31911618 Score: 171
Period size: 55 Copynumber: 4.6 Consensus size: 54
31911367 TCATTTTAAA
* **
31911377 TTTTATACATATTATTTATTTTAAACTATTATATATATCATTTATTTTGAAGGTT
1 TTTTATACATATTATTTATTTTAAACTATTATATATATCATCTATTTT-AAAATT
* * *
31911432 TTTTATATATATTTTTTATTTTAAACTATTATATATATTATCTATTTTAAAATT
1 TTTTATACATATTATTTATTTTAAACTATTATATATATCATCTATTTTAAAATT
* * * * * * *
31911486 TTTTAT--ATGTTAGTTA-GTTATACTATTTTATATGTTAATC-ATTTT-AAATT
1 TTTTATACATATTATTTATTTTAAACTATTATATAT-ATCATCTATTTTAAAATT
** * * *
31911536 CCTTATTA-TTATTATTTATTTTGAACT-TTCA-ATATATTAT-TCATTTTAAAATAT
1 TTTTA-TACATATTATTTATTTTAAACTATT-ATATATATCATCT-ATTTTAAAAT-T
* * *
31911590 TTTT-TATATACTCTTTATTTTAAACTATT
1 TTTTATACATATTATTTATTTTAAACTATT
31911619 TTATTCAAAA
Statistics
Matches: 145, Mismatches: 31, Indels: 23
0.73 0.16 0.12
Matches are distributed among these distances:
50 8 0.06
51 23 0.16
52 31 0.21
53 24 0.17
54 15 0.10
55 44 0.30
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (54 bp):
TTTTATACATATTATTTATTTTAAACTATTATATATATCATCTATTTTAAAATT
Found at i:31911598 original size:28 final size:28
Alignment explanation
Indices: 31911567--31911620 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
31911557 TGAACTTTCA
*
31911567 ATATATTATTCATTTTAAAATATTTTTT
1 ATATACTATTCATTTTAAAATATTTTTT
* * *
31911595 ATATACTCTTTATTTTAAACTATTTT
1 ATATACTATTCATTTTAAAATATTTT
31911621 ATTCAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATACTATTCATTTTAAAATATTTTTT
Found at i:31916706 original size:19 final size:19
Alignment explanation
Indices: 31916684--31916722 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31916674 TTGAATTTAT
* *
31916684 TCATCTGCATTACATTTCA
1 TCATATGCATTAAATTTCA
31916703 TCATATGCATTAAATTTCA
1 TCATATGCATTAAATTTCA
31916722 T
1 T
31916723 AAAAAGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
TCATATGCATTAAATTTCA
Found at i:31921260 original size:12 final size:12
Alignment explanation
Indices: 31921243--31921272 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
31921233 ATGGAAAAAG
31921243 CCACATTCGTAA
1 CCACATTCGTAA
31921255 CCACATTCGTAA
1 CCACATTCGTAA
31921267 CCACAT
1 CCACAT
31921273 GGAGAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (12 bp):
CCACATTCGTAA
Found at i:31925420 original size:46 final size:45
Alignment explanation
Indices: 31925367--31925539 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
31925357 TGGTTGAGCA
*
31925367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACG
* * * * *
31925413 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATAC-A-ACG
* * *
31925460 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACG
* *
31925506 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31925540 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 34 0.32
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACG
Found at i:31925523 original size:93 final size:93
Alignment explanation
Indices: 31925364--31925534 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31925354 GGATGGTTGA
***
31925364 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACACCCGAACTCGTTGAGT
31925429 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
31925457 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACACCCGAACTCGTTGAGT
31925522 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31925535 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31927188 original size:36 final size:36
Alignment explanation
Indices: 31927148--31927222 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
31927138 GGTGATGGCT
*
31927148 ATGTTTGGTTGAGAAAATGTTTGATATTGATAAGTC
1 ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
31927184 ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
1 ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
31927220 ATG
1 ATG
31927223 GTGATGGCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (36 bp):
ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
Found at i:31927189 original size:20 final size:20
Alignment explanation
Indices: 31927164--31927222 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 20
31927154 GGTTGAGAAA
31927164 ATGTTTGATATTGATAAGTC
1 ATGTTTGATATTGATAAGTC
* *
31927184 ATGTTTG--ATTGAGAA--A
1 ATGTTTGATATTGATAAGTC
31927200 ATGTTTGATATTGATAAGTC
1 ATGTTTGATATTGATAAGTC
31927220 ATG
1 ATG
31927223 GTGATGGCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 7 0.23
18 14 0.45
20 10 0.32
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.42
Consensus pattern (20 bp):
ATGTTTGATATTGATAAGTC
Found at i:31927205 original size:16 final size:16
Alignment explanation
Indices: 31927148--31927208 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
31927138 GGTGATGGCT
*
31927148 ATGTTTGGTTGAGAAA
1 ATGTTTGATTGAGAAA
* *
31927164 ATGTTTGATATTGATAAGTC
1 ATGTTTG--ATTGAGAA--A
31927184 ATGTTTGATTGAGAAA
1 ATGTTTGATTGAGAAA
31927200 ATGTTTGAT
1 ATGTTTGAT
31927209 ATTGATAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 16 0.44
18 13 0.36
20 7 0.19
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.43
Consensus pattern (16 bp):
ATGTTTGATTGAGAAA
Found at i:31928987 original size:89 final size:89
Alignment explanation
Indices: 31928877--31929084 Score: 398
Period size: 89 Copynumber: 2.3 Consensus size: 89
31928867 ATTAAAGCCA
31928877 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
31928942 CGCAGTGGAGCAGACTGAAGATAG
66 CGCAGTGGAGCAGACTGAAGATAG
31928966 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
31929031 CGCAGTGGAGCAGACTGAAGATAG
66 CGCAGTGGAGCAGACTGAAGATAG
* *
31929055 CGAATCTCATCTCCCTGAAGTTGCAGTGGA
1 CGAATCTCATCTCCCTAAAGTTGAAGTGGA
31929085 GTAGATTGAA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 117 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
CGCAGTGGAGCAGACTGAAGATAG
Found at i:31929050 original size:133 final size:133
Alignment explanation
Indices: 31928885--31929253 Score: 433
Period size: 133 Copynumber: 2.8 Consensus size: 133
31928875 CACGAATCTC
* * * * * * *
31928885 ATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTA-TAAGTCTTATCTCCCTGAAGTCGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCA-GATGAAGATACTAAGTCTCATCTCCCTGAAGTTGCAGTG
* * *
31928949 GAGCAGACTGAAGATAGCGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAG
65 GAGTAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAG
31929014 TCTT
130 TCTT
* *
31929018 ATCTCCCTGAAGTCGCAGTGGAGCAGACTGAAGATAGCGAA-TCTCATCTCCCTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATA-CTAAGTCTCATCTCCCTGAAGTTGCAGT
* * * * * *
31929082 GGAGTAGATTGAAGACA-CAAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAGTTATAA
64 GGAGTAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAA
31929146 GTCTT
129 GTCTT
* * *
31929151 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAA-ACCACT-AGTCTCATCTCGCTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAGA-TACTAAGTCTCATCTCCCTGAAGTTGCAGT
* * * *
31929214 GGAGTAGGCTGAAGCTAGCAAATCTTATCTTCCTGAAGTT
64 GGAGTAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTT
31929254 ACAGAGAATA
Statistics
Matches: 198, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
131 1 0.01
132 39 0.20
133 121 0.61
134 35 0.18
135 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (133 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATACTAAGTCTCATCTCCCTGAAGTTGCAGTGG
AGTAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGT
CTT
Found at i:31929094 original size:89 final size:89
Alignment explanation
Indices: 31928877--31929253 Score: 391
Period size: 89 Copynumber: 4.2 Consensus size: 89
31928867 ATTAAAGCCA
* * *
31928877 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 CGAATCTCATCTCCCTGAAGTTGAAGTGGAACAGATTGAAGTCATAAGTCTTATCTCCCTGAAGT
31928942 CGCAGTGGAGCAGACTGAAGATAG
66 CGCAGTGGAGCAGACTGAAGATAG
* * *
31928966 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 CGAATCTCATCTCCCTGAAGTTGAAGTGGAACAGATTGAAGTCATAAGTCTTATCTCCCTGAAGT
31929031 CGCAGTGGAGCAGACTGAAGATAG
66 CGCAGTGGAGCAGACTGAAGATAG
* ** * * ** * *
31929055 CGAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACACAAACCTTATCTCCTTAAAGT
1 CGAATCTCATCTCCCTGAAGTTGAAGTGGAACAGATTGAAGTCATAAGTCTTATCTCCCTGAAGT
* ** *
31929120 TGCAGTGGAGCAGGTTGAAGTTA-
66 CGCAGTGGAGCAGACTGAAGATAG
* * * * * * ** * *
31929143 -TAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAACCACT-AGTCTCATCTCGCTGAA
1 CGAA-TCTCATCTCCCTGAAGTTGAAGTGGAACAGATTGAAGTCA-TAAGTCTTATCTCCCTGAA
* * * *
31929206 GTTGCAGTGGAGTAGGCTGAAGCTAG
64 GTCGCAGTGGAGCAGACTGAAGATAG
* * *
31929232 CAAATCTTATCTTCCTGAAGTT
1 CGAATCTCATCTCCCTGAAGTT
31929254 ACAGAGAATA
Statistics
Matches: 249, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
87 2 0.01
88 67 0.27
89 178 0.71
90 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
CGAATCTCATCTCCCTGAAGTTGAAGTGGAACAGATTGAAGTCATAAGTCTTATCTCCCTGAAGT
CGCAGTGGAGCAGACTGAAGATAG
Found at i:31929271 original size:133 final size:133
Alignment explanation
Indices: 31928922--31929348 Score: 329
Period size: 133 Copynumber: 3.2 Consensus size: 133
31928912 TTGAAGTTAT
* * * * * * * * *
31928922 AAGTCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTGAAGATAGCGAATCTCATCTCCCTAAAGT
1 AAGTCTCATCTCACTGAAGTTGCAGTGGAGTAGACTGAAGACA-CAAACCTTATCTCCTTAAAGT
* * * *
31928987 TGA-AGTG--GAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTCGCAGTGGAGCAGACT-G
65 T-ACAGAGAAGAA-A-ATTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAG
31929048 AAGA-TAGC
127 AA-ACTA-C
* *
31929056 GAA-TCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACACAAACCTTATCTCCTTAAAGT
1 -AAGTCTCATCTCACTGAAGTTGCAGTGGAGTAGACTGAAGACACAAACCTTATCTCCTTAAAGT
* * * * **
31929120 TGCAGTGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAGAAA
65 TACAGAGAAGAAAATTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAAA
*
31929184 CCAC
130 CTAC
* * * * *
31929188 TAGTCTCATCTCGCTGAAGTTGCAGTGGAGTAGGCTGAAG-CTAGCAAATCTTATCTTCC-TGAA
1 AAGTCTCATCTCACTGAAGTTGCAGTGGAGTAGACTGAAGAC-A-CAAACCTTATC-TCCTTAAA
* * * * * * * * * *
31929251 GTTACAGAGAATAAAATTGAA--AATACGTCTCATCTCACTAAAGTTGCAATATAACAGATTA-A
63 GTTACAGAGAAGAAAATTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGA
*
31929313 AGCTAC
128 AACTAC
*
31929319 AAGTCTAATCTCACTGAAGTTGCAGTGGAG
1 AAGTCTCATCTCACTGAAGTTGCAGTGGAG
31929349 CAGATTAAAA
Statistics
Matches: 241, Mismatches: 41, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
131 63 0.26
132 40 0.17
133 96 0.40
134 38 0.16
135 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (133 bp):
AAGTCTCATCTCACTGAAGTTGCAGTGGAGTAGACTGAAGACACAAACCTTATCTCCTTAAAGTT
ACAGAGAAGAAAATTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAAAC
TAC
Found at i:31929355 original size:44 final size:44
Alignment explanation
Indices: 31928841--31929368 Score: 348
Period size: 44 Copynumber: 12.0 Consensus size: 44
31928831 GGTGAATCTT
*** * * *
31928841 ATCTCCCTGAAGTTGCAACAGAGCAAATTAAAGCCACGAA-TCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AAGTCTC
* * * * * * *
31928885 ATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
* * *
31928929 ATCTCCCTGAAGTCGCAGTGGAGCAGACTGAAGATAGCGAA-TCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C-AAGTCTC
* * * * * * *
31928974 ATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
* * *
31929018 ATCTCCCTGAAGTCGCAGTGGAGCAGACTGAAGATAGCGAA-TCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C-AAGTCTC
* ** *
31929063 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAC-ACAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CTACAAGTCTC
* * * * * *
31929107 ATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAGTTATAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
* * * * *
31929151 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAACCACTAGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
* * ** * *
31929195 ATCTCGCTGAAGTTGCAGTGGAGTAGGCTGAAGCTAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAGTCTC
* * * * ** * **
31929240 ATCTTCCTGAAGTTACAGAGAATAAAATTGAAAATAC--GTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
* * * ** * * *
31929282 ATCTCACTAAAGTTGCAATATAACAGATTAAAGCTACAAGTCTA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
* * *
31929326 ATCTCACTGAAGTTGCAGTGGAGCAGATTAAAACTACAAGTCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCT
31929369 AGTCTCTTTG
Statistics
Matches: 361, Mismatches: 111, Indels: 24
0.73 0.22 0.05
Matches are distributed among these distances:
42 26 0.07
43 6 0.02
44 230 0.64
45 95 0.26
46 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTC
Found at i:31930958 original size:25 final size:25
Alignment explanation
Indices: 31930930--31931008 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 25
31930920 TTTTAGGAAC
31930930 TGTTTTATTATTATTTATTTTAAGT
1 TGTTTTATTATTATTTATTTTAAGT
* *
31930955 TGTTTTTCTCATATTATTTATTTTAAAT
1 TG-TTTTAT--TATTATTTATTTTAAGT
* *
31930983 CGTTTTATTATTATGTATTTTAAGT
1 TGTTTTATTATTATTTATTTTAAGT
31931008 T
1 T
31931009 TTACATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 17 0.39
26 5 0.11
27 5 0.11
28 17 0.39
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.65
Consensus pattern (25 bp):
TGTTTTATTATTATTTATTTTAAGT
Found at i:31931078 original size:26 final size:25
Alignment explanation
Indices: 31931024--31931087 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
31931014 TATTTTAAAC
* *
31931024 TATTATTCATTTTAAATTTTATACA
1 TATTATTTATTTTAAATATTATACA
31931049 TATTATTTATTTTAAACTATTATACA
1 TATTATTTATTTTAAA-TATTATACA
*
31931075 TATTATTTGTTTT
1 TATTATTTATTTT
31931088 GAAGTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTATTTATTTTAAATATTATACA
Found at i:31931264 original size:28 final size:28
Alignment explanation
Indices: 31931233--31931286 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
31931223 TGAACTTTCA
*
31931233 ATATATTATTCATTTTAAAATATTTTTT
1 ATATACTATTCATTTTAAAATATTTTTT
* * *
31931261 ATATACTCTTTATTTTAAACTATTTT
1 ATATACTATTCATTTTAAAATATTTT
31931287 ATTCAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATACTATTCATTTTAAAATATTTTTT
Found at i:31931394 original size:19 final size:20
Alignment explanation
Indices: 31931353--31931396 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
31931343 TGAAATTTTA
31931353 TATTATTTAATTTAAGCTCTTT
1 TATTATTTAATTTAAG--CTTT
*
31931375 TATTATTTATTTTAAG-TTT
1 TATTATTTAATTTAAGCTTT
31931394 TAT
1 TAT
31931397 ACATTATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
22 15 0.71
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTATTTAATTTAAGCTTT
Found at i:31933381 original size:30 final size:30
Alignment explanation
Indices: 31933345--31933423 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 30
31933335 TATAATTGGG
*
31933345 CAAAATGACTATTTTGCCTCTAGACTTTCA
1 CAAAATGACTATTTTGCCCCTAGACTTTCA
*
31933375 CAAAATGACCATTCATTTTTCCCCTAGACTTTCA
1 CAAAATGA-C--T-ATTTTGCCCCTAGACTTTCA
*
31933409 CAAAATGACCATTTT
1 CAAAATGACTATTTT
31933424 ACCTTATGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 13 0.31
31 1 0.02
33 2 0.05
34 26 0.62
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
CAAAATGACTATTTTGCCCCTAGACTTTCA
Found at i:31933402 original size:34 final size:34
Alignment explanation
Indices: 31933355--31933421 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
31933345 CAAAATGACT
*
31933355 ATTTTGCCTCTAGACTTTCACAAAATGACCATTC
1 ATTTTGCCCCTAGACTTTCACAAAATGACCATTC
*
31933389 ATTTTTCCCCTAGACTTTCACAAAATGACCATT
1 ATTTTGCCCCTAGACTTTCACAAAATGACCATT
31933422 TTACCTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (34 bp):
ATTTTGCCCCTAGACTTTCACAAAATGACCATTC
Found at i:31937353 original size:29 final size:28
Alignment explanation
Indices: 31937287--31937360 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
31937277 AAGTCTACAA
* *
31937287 ACATTTATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
31937315 TCATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
31937344 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
31937361 CTTGCCCGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:31945848 original size:80 final size:80
Alignment explanation
Indices: 31945715--31945862 Score: 260
Period size: 80 Copynumber: 1.9 Consensus size: 80
31945705 GCAAACACCT
* *
31945715 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
31945780 TATCATCTCGCATAA
66 TATCATCTCGCATAA
* *
31945795 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
31945860 TAT
66 TAT
31945863 TTCAAATGCT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (80 bp):
TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCATCTCGCATAA
Found at i:31945863 original size:40 final size:40
Alignment explanation
Indices: 31945715--31945862 Score: 233
Period size: 40 Copynumber: 3.7 Consensus size: 40
31945705 GCAAACACCT
* *
31945715 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
31945755 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
31945795 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
31945835 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGACATAT
31945863 TTCAAATGCT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
Found at i:31953561 original size:25 final size:25
Alignment explanation
Indices: 31953501--31953561 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
31953491 CTCTTAAATT
*
31953501 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
31953526 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
31953551 TTAATTAAATT
1 TTAATTAAATT
31953562 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:31957328 original size:21 final size:20
Alignment explanation
Indices: 31957283--31957328 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
31957273 TTGTTTGAAT
31957283 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
31957302 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
31957323 GGTTGA
1 GGTTGA
31957329 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:31964357 original size:18 final size:18
Alignment explanation
Indices: 31964305--31964367 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
31964295 AAAATGTGAA
* * *
31964305 TGTGAGCTCTCTTAAAAC
1 TGTGAGCTCTATCAAAGC
*
31964323 TGTGAGCTCTATCAAAGT
1 TGTGAGCTCTATCAAAGC
*
31964341 TGTGAGCTC-ATTGAAAGC
1 TGTGAGCTCTA-TCAAAGC
*
31964359 TGCGAGCTC
1 TGTGAGCTC
31964368 GCACAAAGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (18 bp):
TGTGAGCTCTATCAAAGC
Found at i:31976467 original size:24 final size:24
Alignment explanation
Indices: 31976439--31976490 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
31976429 TTTCAAGAAG
*
31976439 ATTTAGTATTTATTA-CTATAATAT
1 ATTTAGCATTTATTAGC-ATAATAT
*
31976463 ATTTAGCATTTATTAGCATAATCT
1 ATTTAGCATTTATTAGCATAATAT
31976487 ATTT
1 ATTT
31976491 GACCTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:31977481 original size:41 final size:40
Alignment explanation
Indices: 31977421--31977616 Score: 236
Period size: 41 Copynumber: 4.8 Consensus size: 40
31977411 CGACCTTTCG
*
31977421 GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGGTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
*
31977462 GGAGCTTTAGCGGCGTTTTTG-GAAAAGCTCCGCTAATGCTC
1 GG-GCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGCTC
* *
31977503 AGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
** *
31977544 AGGGCTTTAGCGGCGTTTTCCA-ATAAGCGCCGCTAATGCTTA
1 -GGGCTTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGC-TC
*
31977586 GGACTTTAGCGGCGTTTTTG-GAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
31977617 AAAAACATTT
Statistics
Matches: 135, Mismatches: 12, Indels: 17
0.82 0.07 0.10
Matches are distributed among these distances:
40 13 0.10
41 116 0.86
42 6 0.04
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
Found at i:31977559 original size:82 final size:82
Alignment explanation
Indices: 31977422--31977616 Score: 281
Period size: 82 Copynumber: 2.4 Consensus size: 82
31977412 GACCTTTCGG
* **
31977422 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGGTCGGAGCTTTAGCGGCGTTTTTGGAA-
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCG-TTTTCCAAT
*
31977486 AAGCTCCGCTAATGCTCA
65 AAGCGCCGCTAATGCTCA
*
31977504 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGG-GCTTTAGCGGCGTTTTCCAAT
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC-GGAGCTTTAGCGGCGTTTTCCAAT
*
31977568 AAGCGCCGCTAATGCTTA
65 AAGCGCCGCTAATGCTCA
31977586 GGAC-TTTAGCGGCGTTTTTG-GAAAGCGCCGC
1 GG-CTTTTAGCGGCGTTTTTGAGAAAGCGCCGC
31977617 AAAAACATTT
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
81 16 0.16
82 84 0.82
83 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (82 bp):
GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGTTTTCCAATA
AGCGCCGCTAATGCTCA
Found at i:31978087 original size:13 final size:14
Alignment explanation
Indices: 31978039--31978092 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
31978029 AGGGTTGTGA
31978039 TTTAGGGGTTAAGAG
1 TTTAGGGGTT-AGAG
*
31978054 -TTAGGGGTTAGGG
1 TTTAGGGGTTAGAG
31978067 ATTT--GGGTTAGAG
1 -TTTAGGGGTTAGAG
*
31978080 TTTAGGGTTTAGA
1 TTTAGGGGTTAGA
31978093 TTAATTAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
12 3 0.09
13 11 0.34
14 16 0.50
15 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (14 bp):
TTTAGGGGTTAGAG
Found at i:31978151 original size:14 final size:14
Alignment explanation
Indices: 31978132--31978187 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
31978122 AATAAGGTTT
*
31978132 AGGGTTAGTAGTTA
1 AGGGTTAGGAGTTA
* *
31978146 AGGGTTTGGAGTTT
1 AGGGTTAGGAGTTA
*
31978160 AGGGTTAGGGGTTA
1 AGGGTTAGGAGTTA
* *
31978174 GGGGTTAAGAGTTA
1 AGGGTTAGGAGTTA
31978188 GTGATTTAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (14 bp):
AGGGTTAGGAGTTA
Found at i:31978185 original size:28 final size:28
Alignment explanation
Indices: 31978124--31978186 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
31978114 ACATATTAAA
*
31978124 TAAG-GTTTAGGGTTAGTAGTTAAGGGT
1 TAAGAGTTTAGGGTTAGGAGTTAAGGGT
** * *
31978151 TTGGAGTTTAGGGTTAGGGGTTAGGGGT
1 TAAGAGTTTAGGGTTAGGAGTTAAGGGT
31978179 TAAGAGTT
1 TAAGAGTT
31978187 AGTGATTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (28 bp):
TAAGAGTTTAGGGTTAGGAGTTAAGGGT
Found at i:31980545 original size:31 final size:31
Alignment explanation
Indices: 31980507--31980568 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
31980497 TATGTGATAG
*
31980507 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
31980538 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
31980569 GCTTTTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.47
Consensus pattern (31 bp):
AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
Found at i:31983234 original size:43 final size:43
Alignment explanation
Indices: 31983184--31983367 Score: 228
Period size: 43 Copynumber: 4.3 Consensus size: 43
31983174 AAAGGTTTGT
** *
31983184 TCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTC-GTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAG-GG
*
31983227 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTC-GTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAG-GG
* * *
31983270 TCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTGAAGGTCAGAG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAGGG
* * * * *
31983313 TCTATCGCGACGTTTGTGGGAGAAGCGCCGCTAAAGGTCAGCG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAGGG
31983356 TCTTTAGCGGCG
1 TCTTTAGCGGCG
31983368 CTTTTCCAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 121 0.99
44 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAGGG
Found at i:31984731 original size:24 final size:24
Alignment explanation
Indices: 31984703--31984756 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
31984693 TCTTTCTAAA
*
31984703 ATATTTAGTATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGCATAAT
31984727 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGCATAAT
*
31984751 TTATTT
1 ATATTT
31984757 GACCTACGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:31987813 original size:18 final size:16
Alignment explanation
Indices: 31987790--31987834 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
31987780 TCATTTCATA
31987790 TTCCATTTCACATCTCCT
1 TTCCATTTCAC--CTCCT
*
31987808 TTCCATTTCTCCTCCT
1 TTCCATTTCACCTCCT
31987824 TTACCATTTCA
1 TT-CCATTTCA
31987835 ATATCAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.16, C:0.38, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCCATTTCACCTCCT
Found at i:31989451 original size:23 final size:23
Alignment explanation
Indices: 31989420--31989463 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31989410 TGAGATGAAG
31989420 AACAATAAGCTC-TATCGAGCTAA
1 AACAATAAGCTCATA-CGAGCTAA
*
31989443 AACAGTAAGCTCATACGAGCT
1 AACAATAAGCTCATACGAGCT
31989464 GTGGTGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (23 bp):
AACAATAAGCTCATACGAGCTAA
Found at i:31993348 original size:26 final size:26
Alignment explanation
Indices: 31993280--31993352 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
31993270 TCTCATCCCA
* *
31993280 ATTTTACTCC-AGTAAAACTTTAACG
1 ATTTTACCCCTAGTAAAATTTTAACG
* * *
31993305 ATTTTACCCCCTATTAAAATTTTGATG
1 ATTTTA-CCCCTAGTAAAATTTTAACG
31993332 ATTTTACCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
31993353 CGAGAAAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.15
26 17 0.43
27 17 0.43
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTAACG
Found at i:31995560 original size:219 final size:219
Alignment explanation
Indices: 31995181--31995618 Score: 876
Period size: 219 Copynumber: 2.0 Consensus size: 219
31995171 TTGACAAATT
31995181 TATACAAATGGTGAAAAATGGCTGGACAGACACCGCTAATACCGCAAAACCGAGAAGCAATTTGA
1 TATACAAATGGTGAAAAATGGCTGGACAGACACCGCTAATACCGCAAAACCGAGAAGCAATTTGA
31995246 AATATCAAGGCGAACTAAATTTCAGCCTAAGACAGTCCAACATTATATTTATTAATTCATAATAT
66 AATATCAAGGCGAACTAAATTTCAGCCTAAGACAGTCCAACATTATATTTATTAATTCATAATAT
31995311 AATTAATTTTAATTTATATCCAATTTAATTTGGAATAATAAATTATTATTAATTAATTATGAAAA
131 AATTAATTTTAATTTATATCCAATTTAATTTGGAATAATAAATTATTATTAATTAATTATGAAAA
31995376 AGTGGTCCAGTTGAACTGAATCGA
196 AGTGGTCCAGTTGAACTGAATCGA
31995400 TATACAAATGGTGAAAAATGGCTGGACAGACACCGCTAATACCGCAAAACCGAGAAGCAATTTGA
1 TATACAAATGGTGAAAAATGGCTGGACAGACACCGCTAATACCGCAAAACCGAGAAGCAATTTGA
31995465 AATATCAAGGCGAACTAAATTTCAGCCTAAGACAGTCCAACATTATATTTATTAATTCATAATAT
66 AATATCAAGGCGAACTAAATTTCAGCCTAAGACAGTCCAACATTATATTTATTAATTCATAATAT
31995530 AATTAATTTTAATTTATATCCAATTTAATTTGGAATAATAAATTATTATTAATTAATTATGAAAA
131 AATTAATTTTAATTTATATCCAATTTAATTTGGAATAATAAATTATTATTAATTAATTATGAAAA
31995595 AGTGGTCCAGTTGAACTGAATCGA
196 AGTGGTCCAGTTGAACTGAATCGA
31995619 GTGAACCGAA
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 219 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (219 bp):
TATACAAATGGTGAAAAATGGCTGGACAGACACCGCTAATACCGCAAAACCGAGAAGCAATTTGA
AATATCAAGGCGAACTAAATTTCAGCCTAAGACAGTCCAACATTATATTTATTAATTCATAATAT
AATTAATTTTAATTTATATCCAATTTAATTTGGAATAATAAATTATTATTAATTAATTATGAAAA
AGTGGTCCAGTTGAACTGAATCGA
Found at i:32001180 original size:30 final size:31
Alignment explanation
Indices: 32001135--32001194 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
32001125 GGAGGTGGAA
*
32001135 TGGGAAGAGAATAAAAGTTCTAGGGGAAAAG
1 TGGGAAGAGAATAAAAATTCTAGGGGAAAAG
* *
32001166 TGGG-AGAGAGTAAAAATTTTAGGGGAAAA
1 TGGGAAGAGAATAAAAATTCTAGGGGAAAA
32001195 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.35, T:0.18
Consensus pattern (31 bp):
TGGGAAGAGAATAAAAATTCTAGGGGAAAAG
Found at i:32001431 original size:18 final size:18
Alignment explanation
Indices: 32001408--32001444 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32001398 TATAGTTTGA
32001408 TATTCGAATTATTTGAAT
1 TATTCGAATTATTTGAAT
*
32001426 TATTCGAGTTATTTGAAT
1 TATTCGAATTATTTGAAT
32001444 T
1 T
32001445 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAATTATTTGAAT
Found at i:32001447 original size:15 final size:16
Alignment explanation
Indices: 32001403--32001448 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
32001393 AATATTATAG
32001403 TTTGATATTCGAATTA
1 TTTGATATTCGAATTA
*
32001419 TTTGAATTATTCGAGTTA
1 TTTG-A-TATTCGAATTA
32001437 TTTGA-ATTCGAA
1 TTTGATATTCGAA
32001449 AACTCAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.23
16 4 0.15
17 2 0.08
18 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (16 bp):
TTTGATATTCGAATTA
Found at i:32001518 original size:18 final size:18
Alignment explanation
Indices: 32001495--32001529 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32001485 ATTCGAGTTG
32001495 ATTCGAATAACTCGATTA
1 ATTCGAATAACTCGATTA
32001513 ATTCGAATAACTCGATT
1 ATTCGAATAACTCGATT
32001530 CGGTTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ATTCGAATAACTCGATTA
Found at i:32002117 original size:14 final size:14
Alignment explanation
Indices: 32002098--32002127 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32002088 AGAGGTACAC
32002098 GTACTGCAGCCAAG
1 GTACTGCAGCCAAG
32002112 GTACTGCAGCCAAG
1 GTACTGCAGCCAAG
32002126 GT
1 GT
32002128 GTAACACCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.17
Consensus pattern (14 bp):
GTACTGCAGCCAAG
Found at i:32012071 original size:85 final size:85
Alignment explanation
Indices: 32011942--32012120 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
32011932 TTTTTTATTG
*
32011942 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
32012007 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
32012027 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
32012092 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
32012112 CCCATGCTC
1 CCCATGCTC
32012121 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:32017373 original size:14 final size:14
Alignment explanation
Indices: 32017354--32017380 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32017344 GTGGTCCAGT
32017354 TGAACTGAACCGAG
1 TGAACTGAACCGAG
32017368 TGAACTGAACCGA
1 TGAACTGAACCGA
32017381 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:32024903 original size:19 final size:19
Alignment explanation
Indices: 32024879--32024927 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
32024869 AACGAAACAG
32024879 AAAGAAAGAGAA-AGAAAAA
1 AAAGAAAGA-AACAGAAAAA
*
32024898 AAAGAAAGAAACAGAGAAA
1 AAAGAAAGAAACAGAAAAA
*
32024917 GAAGAAAGAAA
1 AAAGAAAGAAA
32024928 GCCACGGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAACAGAAAAA
Found at i:32024904 original size:23 final size:27
Alignment explanation
Indices: 32024877--32024928 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 27
32024867 AAAACGAAAC
32024877 AGAAAG-AA-AGAGAAAGAA-AAA-AA
1 AGAAAGAAACAGAGAAAGAAGAAAGAA
32024900 AGAAAGAAACAGAGAAAGAAGAAAGAA
1 AGAAAGAAACAGAGAAAGAAGAAAGAA
32024927 AG
1 AG
32024929 CCACGGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.24
24 2 0.08
25 10 0.40
26 3 0.12
27 4 0.16
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (27 bp):
AGAAAGAAACAGAGAAAGAAGAAAGAA
Found at i:32024905 original size:13 final size:14
Alignment explanation
Indices: 32024877--32024927 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
32024867 AAAACGAAAC
*
32024877 AGAAAGAAAGAGAA
1 AGAAAGAAAAAGAA
32024891 AGAAA-AAAAAGAA
1 AGAAAGAAAAAGAA
*
32024904 AGAAACAGAGAAAG-A
1 AG-AA-AGAAAAAGAA
32024919 AGAAAGAAA
1 AGAAAGAAA
32024928 GCCACGGCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 13 0.42
14 9 0.29
15 4 0.13
16 5 0.16
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:32025824 original size:4 final size:4
Alignment explanation
Indices: 32025815--32025866 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
32025805 AAAACGAAAT
* *
32025815 AGAA AGAA AG-- AGAA AGAA AGAAA AGAA AGAA ACAG AGAA AG-A AGAA
1 AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AGAA AGAA AGAA
32025861 AGAA AG
1 AGAA AG
32025867 CCACGGCCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 31 0.77
5 4 0.10
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:32025842 original size:23 final size:24
Alignment explanation
Indices: 32025810--32025866 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
32025800 AAACCAAAAC
32025810 GAAATAGAAAG-AA-AGAGAAAGAAA
1 GAAA-AGAAAGAAACAGAGAAAG-AA
32025834 GAAAAGAAAGAAACAGAGAAAGAA
1 GAAAAGAAAGAAACAGAGAAAGAA
32025858 G-AAAGAAAG
1 GAAAAGAAAG
32025867 CCACGGCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 14 0.45
24 9 0.29
25 8 0.26
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (24 bp):
GAAAAGAAAGAAACAGAGAAAGAA
Found at i:32026129 original size:938 final size:950
Alignment explanation
Indices: 32023847--32026744 Score: 4713
Period size: 938 Copynumber: 3.0 Consensus size: 950
32023837 ATTATATTAT
*
32023847 AATAATAAAACAAATAAATAAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAAAGA
1 AATAATAAAACAAATAAATAAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAGAGA
* *
32023912 AATAAAAAAAAGAAAGAAACAGAGAAAGAAGTAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
66 AAGAAAAAAAAGAAAGAAACAGAGAAAGAAGAAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
* * * *
32023977 CAAGTTCAAATGGTTAGTCAATTTAGTCCCTTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
131 CAAGTTCAATTGGTTAGTAAATTTAGACCATTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
* * *
32024042 TATTAATACTACCCGACCCATGTTAAAAATTTAGAAATTATTGAGTTTTTAAGTTTTGTCTATGT
196 TGTTAATACTACCCGACCCATGTTAAAAATTTAAAAATTATTGAGTTTCTAAGTTTTGTCTATGT
32024107 TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
261 TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
* *
32024172 TGTAAATTTTGAGTAATATGGACTAAATTGTGAAAAATTCAAAATTTAGGAATTTAAGTGAAAAA
326 TGTAAATTTTGAGTAATATGGACTAAATTATGAAAAATTCAAAATTTAGGAATTTAAATGAAAAA
* *
32024237 GGGGGAAAGATAAAGTCGATGAGGGATAGTTCAAAATTTCTTATTTGTATTTCTATAATCCGAAC
391 AGGGAAAAGATAAAGTCGATGAGGG--AGTT---AA-----TA--TG--------T--T-CGAAC
*
32024302 TTAGTTATTAATTGTTGCATTTTGATTCAATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCA
433 TTAG----T-ATTGTTGTATTTTGATTCAATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCA
32024367 TTATGATATTGAATTGAATTTATATGTATATGTGATTATATGAAAAATTGATATTGGATATTGAT
493 TTATGATATTGAATTGAATTTATATGTATATGTGATTATATGAAAAATTGATATTGGATATTGAT
32024432 TTCTTTTGAATTGTGAAATTAAACCCTATTAACCATATCAGACTGAGTCAGATATAGATGGCATG
558 TTCTTTTGAATTGTGAAATTAAACCCTATTAACCATATCAGACTGAGTCAGATATAGATGGCATG
*
32024497 CCATAGGATTGGAAGAGTTCAGGGATTTCTTCGACTTCGAGTCGATAATACACTGGGAGTCAATT
623 CCATAGGATTGGAAGAGTTCAGGGATTTCTTCGACTTCGAGTCGATGATACACTGGGAGTCAATT
32024562 TACTACTTCGGATTAATTCGATGTGGCAATGGGTTCCAATTTACTTCGGTTTAGCCGATGAGATA
688 TACTACTTCGGATTAATTCGATGTGGCAATGGGTTCCAATTTACTTCGGTTTAGCCGATGAGATA
*
32024627 CTGGGTGTCAATTTATTACTTCGAATTATCTACTAAGGCACTTGGTGCCAAACTGGTGTGTTTTG
753 CTGGGTGTCAATTTATTACTTCGAATTATCCACTAAGGCACTTGGTGCCAAACTGGTGTGTTTTG
32024692 GTTGGATCCGTGTATCCGTCCGACTCCGAGTCGTGTTAATAAGGGTAAATGAATAATAAAGTTTT
818 GTTGGATCCGTGTATCCGTCCGACTCCGAGTCGTGTTAATAAGGGTAAATGAATAATAAAGTTTT
*
32024757 ATGATTGATATTGAAATGGAACGGTATGAGAAATCGAAGTGAAATAGTGAAATGAAAATAGAATG
883 ATGATTGATATTGAAATGGAATGGTATGAGAAATCGAAGTGAAATAGTGAAATGAAAATAGAATG
32024822 TGA
948 TGA
*
32024825 AATAATAAAACAAATAAATAAACGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAGAGA
1 AATAATAAAACAAATAAATAAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAGAGA
32024890 AAGAAAAAAAAGAAAGAAACAGAGAAAGAAGAAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
66 AAGAAAAAAAAGAAAGAAACAGAGAAAGAAGAAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
32024955 CAAGTTCAATTGGTTAGTAAATTTAGACCATTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
131 CAAGTTCAATTGGTTAGTAAATTTAGACCATTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
*
32025020 TGTTAATACTACCCGACCCATGTTAAAAATTTAGAAATTATTGAGTTTCTAAGTTTTGTCTATGT
196 TGTTAATACTACCCGACCCATGTTAAAAATTTAAAAATTATTGAGTTTCTAAGTTTTGTCTATGT
32025085 TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
261 TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
*
32025150 TGTAGATTTTGAGTAATATGGACTAAATTATGAAAAATTCAAAATTTAGGAATTTAAATGAAAAA
326 TGTAAATTTTGAGTAATATGGACTAAATTATGAAAAATTCAAAATTTAGGAATTTAAATGAAAAA
* *
32025215 GGGGGAAAGATAAAGTCGATGA-GG-G-T-A-A-G-T-G-A-TT-G-ATTGTTGTATTTTGATTC
391 AGGGAAAAGATAAAGTCGATGAGGGAGTTAATATGTTCGAACTTAGTATTGTTGTATTTTGATTC
32025268 AATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCATTATGATATTGAATTGAATTTATATGTA
456 AATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCATTATGATATTGAATTGAATTTATATGTA
32025333 TATGTGATTATATGAAAAATTGATATTGGATATTGATTTCTTTTGAATTGTGAAATTAAACCCTA
521 TATGTGATTATATGAAAAATTGATATTGGATATTGATTTCTTTTGAATTGTGAAATTAAACCCTA
*
32025398 TTAACCATATCGGACTGAGTCAGATATAGATGGCATGCCATAGGATTGGAAGAGTTCAGGGATTT
586 TTAACCATATCAGACTGAGTCAGATATAGATGGCATGCCATAGGATTGGAAGAGTTCAGGGATTT
* * *
32025463 CTTCGACTTCGAGTCAATGATACACTGGGTGTCAATTTACTACTTCGGATTAATTCGATGAGGCA
651 CTTCGACTTCGAGTCGATGATACACTGGGAGTCAATTTACTACTTCGGATTAATTCGATGTGGCA
* *
32025528 ATGGGTGCCAATTTACTTCGGTTTAGCCGATGAGATACTAGGTGTCAATTTATTACTTCGAATTA
716 ATGGGTTCCAATTTACTTCGGTTTAGCCGATGAGATACTGGGTGTCAATTTATTACTTCGAATTA
*
32025593 TCCACTAAGGCACTGGGTGCCAAACTGGTGTGTTTTGGTTGGATCCGTGTATCCGTCCGACTCCG
781 TCCACTAAGGCACTTGGTGCCAAACTGGTGTGTTTTGGTTGGATCCGTGTATCCGTCCGACTCCG
32025658 AGTCGTGTTAATAAGGGTAAATGAATAATAAAGTTTTATGATTGATATTGAAATGGAATGGTATG
846 AGTCGTGTTAATAAGGGTAAATGAATAATAAAGTTTTATGATTGATATTGAAATGGAATGGTATG
*
32025723 AGAAATCGAAGTGAAATAATGAAATGAAAATAGAATGTGA
911 AGAAATCGAAGTGAAATAGTGAAATGAAAATAGAATGTGA
*
32025763 AATAATAAAACAAATAAATAAAAGAAAAAGGAATAGAAAACCAAAACGAAATAGAAAGAAAGAGA
1 AATAATAAAACAAATAAATAAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAGAGA
*
32025828 AAGAAAGAAAAGAAAGAAACAGAGAAAGAAGAAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
66 AAGAAAAAAAAGAAAGAAACAGAGAAAGAAGAAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
* * * *
32025893 CAAGTTCAATTGGTTGGTCAATTTAGTCCCTTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
131 CAAGTTCAATTGGTTAGTAAATTTAGACCATTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
* *
32025958 TGTTAATACTACTCGACCCATGTTAAAAATTTAAAAATTATTGAGTTTTTAAGTTTTGTCTATGT
196 TGTTAATACTACCCGACCCATGTTAAAAATTTAAAAATTATTGAGTTTCTAAGTTTTGTCTATGT
32026023 TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
261 TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
* * * *
32026088 TGTAAATTTTGAGTAATATGGACTAAATTGTGACAAATTCAAAATTTAGGAATTTGAGTGAAAAA
326 TGTAAATTTTGAGTAATATGGACTAAATTATGAAAAATTCAAAATTTAGGAATTTAAATGAAAAA
32026153 AGGGAAAAGATAAAGTCGATGAGGGATAGTTCAAAATTTCTTATTTGTATTTCTATAATCCGAAC
391 AGGGAAAAGATAAAGTCGATGAGGG--AGTT---AA-----TA--TG--------T--T-CGAAC
32026218 TTAGTTATTAATTGTTGTATTTTGATTCAATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCA
433 TTAG----T-ATTGTTGTATTTTGATTCAATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCA
* * *
32026283 TTCTGATATTGCATTGAACTTATATGTATATGTGATTATATGAAAAATTGATATTGGATATTGAT
493 TTATGATATTGAATTGAATTTATATGTATATGTGATTATATGAAAAATTGATATTGGATATTGAT
* *
32026348 TTCTTTTGAATTGTGAAATTAAACCCTATTAGCCATATCAGACCGAGTCAGATATAGATGGCATG
558 TTCTTTTGAATTGTGAAATTAAACCCTATTAACCATATCAGACTGAGTCAGATATAGATGGCATG
* *
32026413 CCATAGGATTGGAAGAGTTCAGGGATTTCTTCGACTTCGAGTTGATGATACACTAGGAGTCAATT
623 CCATAGGATTGGAAGAGTTCAGGGATTTCTTCGACTTCGAGTCGATGATACACTGGGAGTCAATT
*
32026478 TACTACTTCGGATTAATTCGATGTGGGAATGGGTTCCAATTTACTTCGGTTTAGCCGATGAGATA
688 TACTACTTCGGATTAATTCGATGTGGCAATGGGTTCCAATTTACTTCGGTTTAGCCGATGAGATA
32026543 CTGGGTGTCAATTTATTACTTCGAATTATCCACTAAGGCACTTGGTGCCAAACTGGTGTGTTTTG
753 CTGGGTGTCAATTTATTACTTCGAATTATCCACTAAGGCACTTGGTGCCAAACTGGTGTGTTTTG
* *
32026608 GTTGGATCCGTGTATCCGTCCGACTCCAAGTCGTGTTAATAATGGTAAATGAATAATAAAGTTTT
818 GTTGGATCCGTGTATCCGTCCGACTCCGAGTCGTGTTAATAAGGGTAAATGAATAATAAAGTTTT
*
32026673 ATGATTGATATTGAAATGGAATGGTATGAGAAATCGAAGTGAAATAGTGAAATGAAAATAGATTG
883 ATGATTGATATTGAAATGGAATGGTATGAGAAATCGAAGTGAAATAGTGAAATGAAAATAGAATG
*
32026738 TAA
948 TGA
32026741 AATA
1 AATA
32026745 TGTTGCAAAT
Statistics
Matches: 1818, Mismatches: 62, Indels: 80
0.93 0.03 0.04
Matches are distributed among these distances:
938 896 0.49
939 2 0.00
942 1 0.00
943 1 0.00
944 1 0.00
945 2 0.00
946 1 0.00
947 2 0.00
949 1 0.00
953 1 0.00
956 1 0.00
960 1 0.00
963 1 0.00
967 1 0.00
969 2 0.00
970 1 0.00
971 2 0.00
972 1 0.00
973 1 0.00
974 1 0.00
977 2 0.00
978 896 0.49
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (950 bp):
AATAATAAAACAAATAAATAAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAGAGA
AAGAAAAAAAAGAAAGAAACAGAGAAAGAAGAAAGAAAGCCACGGCCTTGGGGGTTTCAATTTTT
CAAGTTCAATTGGTTAGTAAATTTAGACCATTTTTCTTGTAATTTTTATGTTTTTGGAATCTCGG
TGTTAATACTACCCGACCCATGTTAAAAATTTAAAAATTATTGAGTTTCTAAGTTTTGTCTATGT
TGAATAATTTTAGTTTTAGGGATTTTTAAGTTAGAAATGAAAAAGGATTGAATTGTAGAATAAAT
TGTAAATTTTGAGTAATATGGACTAAATTATGAAAAATTCAAAATTTAGGAATTTAAATGAAAAA
AGGGAAAAGATAAAGTCGATGAGGGAGTTAATATGTTCGAACTTAGTATTGTTGTATTTTGATTC
AATGTTTATGGTAAGTGATTGAGGTGAGTATTTGGCATTATGATATTGAATTGAATTTATATGTA
TATGTGATTATATGAAAAATTGATATTGGATATTGATTTCTTTTGAATTGTGAAATTAAACCCTA
TTAACCATATCAGACTGAGTCAGATATAGATGGCATGCCATAGGATTGGAAGAGTTCAGGGATTT
CTTCGACTTCGAGTCGATGATACACTGGGAGTCAATTTACTACTTCGGATTAATTCGATGTGGCA
ATGGGTTCCAATTTACTTCGGTTTAGCCGATGAGATACTGGGTGTCAATTTATTACTTCGAATTA
TCCACTAAGGCACTTGGTGCCAAACTGGTGTGTTTTGGTTGGATCCGTGTATCCGTCCGACTCCG
AGTCGTGTTAATAAGGGTAAATGAATAATAAAGTTTTATGATTGATATTGAAATGGAATGGTATG
AGAAATCGAAGTGAAATAGTGAAATGAAAATAGAATGTGA
Found at i:32029613 original size:24 final size:24
Alignment explanation
Indices: 32029565--32029611 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32029555 ACTGGTCATA
*
32029565 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
32029589 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
32029612 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:32030320 original size:27 final size:27
Alignment explanation
Indices: 32030280--32030857 Score: 612
Period size: 27 Copynumber: 21.3 Consensus size: 27
32030270 AGAGGTCGAT
*
32030280 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
32030307 AATTAACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
32030334 GAATGACCGAAGTACCTTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
32030361 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
32030388 AATTGACCGAAATA-CCCCATAGGAT-
1 AAATGACCGAAATACCCCCATAGGGTA
* *
32030413 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
32030440 GAAA-GACCGAAATACCCCCATAGAGTA
1 -AAATGACCGAAATACCCCCATAGGGTA
*
32030467 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
32030494 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
32030521 GAATGATCGAAATA-TCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
32030547 AAATGATCGAAATACCCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCCATAGGGTA
* * *
32030575 AAATGATCGAAATA-CCCTATAGGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
32030601 AATTGACCGAAATA-CCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
32030627 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
32030654 GAATGACCGAAATACCTCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
32030681 GAATGACTGAAATACCTCCATACCTTTATAGGGTA
1 AAATGACCGAAATA-C-CC---CC---ATAGGGTA
* *
32030716 AAATGA-CTAAAGTACCCCTATAGGGTA
1 AAATGACCGAAA-TACCCCCATAGGGTA
* * *
32030743 AAATGACCAAAATACCTCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
32030770 AAATGACTGAAATACACCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
32030797 GAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
32030824 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
32030851 AAATGAC
1 AAATGAC
32030858 TGTTATACCA
Statistics
Matches: 462, Mismatches: 72, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
25 12 0.03
26 91 0.20
27 303 0.66
28 32 0.07
29 1 0.00
30 1 0.00
32 2 0.00
33 2 0.00
34 4 0.01
35 14 0.03
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:32030515 original size:133 final size:133
Alignment explanation
Indices: 32030277--32030857 Score: 638
Period size: 133 Copynumber: 4.3 Consensus size: 133
32030267 TCGAGAGGTC
* * * * *
32030277 GATAAATGACTGAAATACCCCCATAGGGTAAATTAACCAAAATACCCCCATAGGGTAGAATGACC
1 GATAAATGACTGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACC
* ** *
32030342 GAAGTACCTTCATAGGGTAGAATGACCGAAATACCCCCATAGGGTA-AATTGACCGAAATACCCC
66 GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA-TGACCGAAATACCCC
32030406 ATAG
130 ATAG
* *
32030410 GATAAATGACTGAAATACCCCTATAGGGTAGAAA-GACCGAAATACCCCCATAGAGTAAAATGAT
1 GATAAATGACTGAAATACCCCTATAGGGTA-AAATGACCGAAATACCCCCATAGGGTAAAATGAC
* * * *
32030474 CGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAGAATGATCGAAATATCTC
65 CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCC
32030539 ATAG
130 ATAG
* * * * * *
32030543 GGTAAAATGA-TCGAAATACCCCCCATAGGGTAAAATGATCGAAATA-CCCTATAGGTTAAATTG
1 GAT-AAATGACT-GAAATA-CCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
* *
32030606 ACCGAAATA-CCCTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATGACCGAAATACC
63 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATGACCGAAATACC
32030670 TCCATAAG
128 -CCAT-AG
* *
32030678 G-TAGAATGACTGAAATACCTCCATACCTTTATAGGGTAAAATGA-CTAAAGTACCCCTATAGGG
1 GATA-AATGACTGAAATA---CC---CC--TATAGGGTAAAATGACCGAAA-TACCCCCATAGGG
* * * * * *
32030741 TAAAATGACCAAAATACCTCCATAAGGTAAAATGACTGAAATACACCCATAGGGTAGAATGATCG
56 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATGACCG
32030806 AAATACCCTCATAG
121 AAATACCC-CATAG
*
32030820 GGTAAAATGACTGAAATA-CCCTCATAGGGTAAAATGAC
1 GAT-AAATGACTGAAATACCCCT-ATAGGGTAAAATGAC
32030858 TGTTATACCA
Statistics
Matches: 381, Mismatches: 42, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
133 166 0.44
134 56 0.15
135 39 0.10
136 4 0.01
139 3 0.01
140 4 0.01
141 16 0.04
142 27 0.07
143 65 0.17
144 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (133 bp):
GATAAATGACTGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACC
GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCA
TAG
Found at i:32030748 original size:62 final size:62
Alignment explanation
Indices: 32030646--32030764 Score: 152
Period size: 62 Copynumber: 1.9 Consensus size: 62
32030636 AAATACCCTC
* * **
32030646 ATAGGGTAGAATGACCGAAATACCTCCATAAGGTAGAATGACTGAAATACCTCCATACCTTT
1 ATAGGGTAAAATGACCGAAATACCTCCATAAGGTAAAATGACCAAAATACCTCCATACCTTT
* *
32030708 ATAGGGTAAAATGA-CTAAAGTACC-CCTATAGGGTAAAATGACCAAAATACCTCCATA
1 ATAGGGTAAAATGACCGAAA-TACCTCC-ATAAGGTAAAATGACCAAAATACCTCCATA
32030765 AGGTAAAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 6 0.12
62 43 0.88
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (62 bp):
ATAGGGTAAAATGACCGAAATACCTCCATAAGGTAAAATGACCAAAATACCTCCATACCTTT
Found at i:32030769 original size:89 final size:89
Alignment explanation
Indices: 32030618--32030859 Score: 290
Period size: 89 Copynumber: 2.8 Consensus size: 89
32030608 CGAAATACCC
* * *
32030618 TATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATGACCGAAATACCTCCATAAGGTAGA
1 TATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAATACCTCCATAAGGTAAA
32030683 ATGACTGAAATACCTCCATACCTT
66 ATGACTGAAATACCTCCATACCTT
*
32030707 TATAGGGTAAAATGA-CTAAAGTACCC-CTATAGGGTAAAATGACCAAAATACCTCCATAAGGTA
1 TATAGGGTAAAATGACCGAAA-TACCCTC-ATAGGGTAAAATGACCAAAATACCTCCATAAGGTA
32030770 AAATGACTGAAATA----C--ACC--
64 AAATGACTGAAATACCTCCATACCTT
* * * ** *
32030788 CATAGGGTAGAATGATCGAAATACCCTCATAGGGTAAAATGACTGAAATACC-CTCATAGGGTAA
1 TATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAATACCTC-CATAAGGTAA
32030852 AATGACTG
65 AATGACTG
32030860 TTATACCACT
Statistics
Matches: 138, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
80 1 0.01
81 57 0.41
82 5 0.04
83 3 0.02
85 1 0.01
88 5 0.04
89 66 0.48
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (89 bp):
TATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAATACCTCCATAAGGTAAA
ATGACTGAAATACCTCCATACCTT
Found at i:32034020 original size:27 final size:27
Alignment explanation
Indices: 32033982--32034043 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
32033972 TTGGGATCTT
* * *
32033982 CATGTTTAGTGTCCCGACGAACTATTC
1 CATGTTTAGTGTCCCAACAAACTATCC
32034009 CATGTTTAGTGTCCCAACAAACTATCC
1 CATGTTTAGTGTCCCAACAAACTATCC
*
32034036 CGTGTTTA
1 CATGTTTA
32034044 ATATTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (27 bp):
CATGTTTAGTGTCCCAACAAACTATCC
Found at i:32034359 original size:45 final size:45
Alignment explanation
Indices: 32034254--32034359 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 45
32034244 TTTCAACCAG
* * *
32034254 GGTCTTACTTATTTCCATAATGATGTCATAGCATCTTTCAGTTAT
1 GGTCTTACTCATTTCTATAATGATGTCATAGAATCTTTCAGTTAT
** * *
32034299 TATCTTACTCATTTCTATCATGATGTCATAGAATCTTTTAGTTAT
1 GGTCTTACTCATTTCTATAATGATGTCATAGAATCTTTCAGTTAT
32034344 GGTCTTACTCATTTCT
1 GGTCTTACTCATTTCT
32034360 GGCATATAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (45 bp):
GGTCTTACTCATTTCTATAATGATGTCATAGAATCTTTCAGTTAT
Found at i:32037294 original size:20 final size:20
Alignment explanation
Indices: 32037269--32037319 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
32037259 ATCGTAAAAT
*
32037269 GGTATCGATACCAGGATAAA
1 GGTATCGATACCAGAATAAA
* *
32037289 GGTATCGATACTATAATAAA
1 GGTATCGATACCAGAATAAA
*
32037309 GGTATCAATAC
1 GGTATCGATAC
32037320 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCAGAATAAA
Found at i:32037320 original size:20 final size:20
Alignment explanation
Indices: 32037284--32037333 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
32037274 CGATACCAGG
*
32037284 ATAAAGGTATCGATACTATA
1 ATAAAGGTATCAATACTATA
*
32037304 ATAAAGGTATCAATACTTTA
1 ATAAAGGTATCAATACTATA
*
32037324 ATAAAAGTAT
1 ATAAAGGTAT
32037334 GAAAACTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (20 bp):
ATAAAGGTATCAATACTATA
Found at i:32037341 original size:20 final size:20
Alignment explanation
Indices: 32037302--32037342 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32037292 ATCGATACTA
* *
32037302 TAATAAAGGTATCAATACTT
1 TAATAAAAGTATCAAAACTT
*
32037322 TAATAAAAGTATGAAAACTT
1 TAATAAAAGTATCAAAACTT
32037342 T
1 T
32037343 GAGAAAAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (20 bp):
TAATAAAAGTATCAAAACTT
Found at i:32037378 original size:20 final size:20
Alignment explanation
Indices: 32037316--32037382 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
32037306 AAAGGTATCA
* *
32037316 ATACTTTAATAAAAGTA-TG
1 ATACTTTGAGAAAAGTATTG
* * *
32037335 AAAACTTTGAGAAAAGCATCG
1 -ATACTTTGAGAAAAGTATTG
32037356 ATACTTTGAGAAAAGTATTG
1 ATACTTTGAGAAAAGTATTG
32037376 ATACTTT
1 ATACTTT
32037383 AAGGAATGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (20 bp):
ATACTTTGAGAAAAGTATTG
Found at i:32041036 original size:21 final size:22
Alignment explanation
Indices: 32041011--32041060 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
32041001 TTTTATGAAT
32041011 TTTTATAAAATTTTA-AATATG
1 TTTTATAAAATTTTATAATATG
* * *
32041032 TTTTAT-TAATTTTATAATTTT
1 TTTTATAAAATTTTATAATATG
32041053 TTTTATAA
1 TTTTATAA
32041061 TTTATTAGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTATAAAATTTTATAATATG
Found at i:32041042 original size:20 final size:20
Alignment explanation
Indices: 32041019--32041063 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32041009 ATTTTTATAA
32041019 AATTTTA-AATATGTTTTATT
1 AATTTTATAATATGTTTTA-T
* *
32041039 AATTTTATAATTTTTTTTAT
1 AATTTTATAATATGTTTTAT
32041059 AATTT
1 AATTT
32041064 ATTAGACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
AATTTTATAATATGTTTTAT
Found at i:32041126 original size:89 final size:91
Alignment explanation
Indices: 32040958--32041150 Score: 204
Period size: 89 Copynumber: 2.1 Consensus size: 91
32040948 AAGAAGAATT
* *
32040958 TTTTTTATATATAATTTATTAGAATTTTTATATTATTTATGAGTTTTATGAATTTTTATAAAATT
1 TTTTTTATATATAATTTATTAGAATTTTTATATTATTTATAAGTTGTATGAATTTTTATAAAA--
*
32041023 TTAAATATGTTTTAT-T-AATTTT-ATAA
64 TAAAATATGTTTTATATCAATTTTAAT-A
* * * *
32041049 TTTTTT-T-TATAATTTATTAGACTTTTTATATTTTTTATAAGGTTGTATGATTTTTTTTAAAA-
1 TTTTTTATATATAATTTATTAGAATTTTTATATTATTTATAA-GTTGTATGAATTTTTATAAAAT
32041111 AAAATTATAAG-TTTATATCAATTTTAATA
65 AAAA-TAT--GTTTTATATCAATTTTAATA
32041140 TTTTTTA-ATAT
1 TTTTTTATATAT
32041151 TTTTATGATA
Statistics
Matches: 86, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
87 3 0.03
88 3 0.03
89 35 0.41
90 21 0.24
91 19 0.22
92 5 0.06
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (91 bp):
TTTTTTATATATAATTTATTAGAATTTTTATATTATTTATAAGTTGTATGAATTTTTATAAAATA
AAATATGTTTTATATCAATTTTAATA
Done.