Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 155 of 199
Found at i:46368101 original size:24 final size:24
Alignment explanation
Indices: 46368074--46368125 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
46368064 ACGGTTCTTG
46368074 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
46368098 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
46368122 ACAT
1 ACAT
46368126 ACCTTACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (24 bp):
ACATTAAATAAATAATGGAATAAA
Found at i:46369812 original size:22 final size:23
Alignment explanation
Indices: 46369769--46369814 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46369759 AAAAATGCTA
*
46369769 AAAATCATTTAAAATTATAAAAT
1 AAAATAATTTAAAATTATAAAAT
*
46369792 AAAATAATTTAAATTTA-AAAAT
1 AAAATAATTTAAAATTATAAAAT
46369814 A
1 A
46369815 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAATTATAAAAT
Found at i:46374104 original size:17 final size:18
Alignment explanation
Indices: 46374070--46374111 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
46374060 TAAACAAATA
*
46374070 TATATT-TATTTGTGATT
1 TATATTGTATTTGTCATT
46374087 TATATTGTATTTG-CATT
1 TATATTGTATTTGTCATT
46374104 TAT-TTGTA
1 TATATTGTA
46374112 AATTCTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 12 0.52
18 6 0.26
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (18 bp):
TATATTGTATTTGTCATT
Found at i:46374844 original size:97 final size:94
Alignment explanation
Indices: 46374659--46374856 Score: 290
Period size: 97 Copynumber: 2.1 Consensus size: 94
46374649 GGGTGGGATC
* *
46374659 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTACATTCTCACCTATACTAGCCCTTC
1 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTACATTCCCACCTATACTAGCCCTCC
*
46374724 AACTCCGCACACACACAATAAAAAACAAA
66 AACTACGCACACACACAATAAAAAACAAA
* *
46374753 CCACCTATCACTCCTTACGTTCTCCACGTGGCATTCATCTAACACATTCCCACCTATGCTAGCCC
1 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCT---ACATTCCCACCTATACTAGCCC
* *
46374818 TCCAACTACTCACACACACACA-AAAAAACAAC
63 TCCAACTACGCACACACACA-ATAAAAAACAAA
46374850 CCACCTA
1 CCACCTA
46374857 CTTCATATCC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
94 39 0.42
97 53 0.57
98 1 0.01
ACGTcount: A:0.32, C:0.39, G:0.06, T:0.23
Consensus pattern (94 bp):
CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTACATTCCCACCTATACTAGCCCTCC
AACTACGCACACACACAATAAAAAACAAA
Found at i:46376169 original size:2 final size:2
Alignment explanation
Indices: 46376164--46376192 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46376154 AATATTTCTT
46376164 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
46376193 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:46390017 original size:88 final size:88
Alignment explanation
Indices: 46389863--46390035 Score: 310
Period size: 88 Copynumber: 2.0 Consensus size: 88
46389853 AATCGAAAAA
*
46389863 GAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATATTTTTAGAAATATTTATAGAATGT
1 GAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAATGT
46389928 CATTGAGTTGGTATTAAAGTAAT
66 CATTGAGTTGGTATTAAAGTAAT
* *
46389951 GAGGTATCGAAACCTCAAACTCATAAATTGAGCCATAAATACTTTTAGAAATATTTATAGAGTGT
1 GAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAATGT
*
46390016 CATTGAGTTGGTGTTAAAGT
66 CATTGAGTTGGTATTAAAGT
46390036 TTCGTTAGAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (88 bp):
GAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAATGT
CATTGAGTTGGTATTAAAGTAAT
Found at i:46393146 original size:31 final size:31
Alignment explanation
Indices: 46393106--46393169 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
46393096 ACTTATCATT
* *
46393106 TATCTCTTGTCATTGATCAGATAAGTGTAGC
1 TATCACTTGTCACTGATCAGATAAGTGTAGC
* *
46393137 TATCACTTGTTACTGATTAGATAAGTGTAGC
1 TATCACTTGTCACTGATCAGATAAGTGTAGC
46393168 TA
1 TA
46393170 AGCTACCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (31 bp):
TATCACTTGTCACTGATCAGATAAGTGTAGC
Found at i:46393237 original size:44 final size:44
Alignment explanation
Indices: 46393137--46393288 Score: 252
Period size: 44 Copynumber: 3.5 Consensus size: 44
46393127 TAAGTGTAGC
* *
46393137 TATCACTTGTTACTGATTAGATAAGTGTAGCT-AAGCTACCACT
1 TATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACT
* *
46393180 TATCCCTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACT
*
46393224 TATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACT
1 TATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACT
46393268 TATCACTTGTCACTGATCAGA
1 TATCACTTGTCACTGATCAGA
46393289 AGAACTCAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 28 0.28
44 73 0.72
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (44 bp):
TATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACT
Found at i:46394977 original size:29 final size:29
Alignment explanation
Indices: 46394944--46395021 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
46394934 TTCTATTACT
*
46394944 GCACTTCAATGCCATTTTGTTCTGCTAAA
1 GCACTTCAATGCCATTTTGTTCTGATAAA
* * * **
46394973 GCACTTCGATGTCATTCTGTTCTGATATT
1 GCACTTCAATGCCATTTTGTTCTGATAAA
* *
46395002 GCACTTCAGTGCCACTTTGT
1 GCACTTCAATGCCATTTTGT
46395022 ATTGTTATTG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (29 bp):
GCACTTCAATGCCATTTTGTTCTGATAAA
Found at i:46395993 original size:3 final size:3
Alignment explanation
Indices: 46395987--46396065 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
46395977 TTAAAAAAAG
46395987 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46396035 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46396066 AAGAGTTAGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46398350 original size:16 final size:16
Alignment explanation
Indices: 46398329--46398364 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46398319 ATTTTATTTT
46398329 AATAATAAATTTAAAA
1 AATAATAAATTTAAAA
* *
46398345 AATAATAACTTTAAAT
1 AATAATAAATTTAAAA
46398361 AATA
1 AATA
46398365 TTTTTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAAATTTAAAA
Found at i:46400577 original size:19 final size:19
Alignment explanation
Indices: 46400553--46400591 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46400543 AGCTGTTGGA
46400553 TAATTTAATAAAAAATATT
1 TAATTTAATAAAAAATATT
* *
46400572 TAATTTATTAAATAATATT
1 TAATTTAATAAAAAATATT
46400591 T
1 T
46400592 TAAAAATTCA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTTAATAAAAAATATT
Found at i:46405795 original size:3 final size:3
Alignment explanation
Indices: 46405787--46405815 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46405777 TTCAAATAGC
46405787 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46405816 GGCAGAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46406392 original size:14 final size:14
Alignment explanation
Indices: 46406373--46406402 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46406363 AAGTCAATTT
46406373 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
*
46406387 TAAAAATAAAGAAA
1 TAAAAATAAAAAAA
46406401 TA
1 TA
46406403 TTTAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:46407482 original size:19 final size:18
Alignment explanation
Indices: 46407426--46407482 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
46407416 TTGCCTGTGG
46407426 TTTT-TTTTAAAATATATA
1 TTTTATTTTAAAA-ATATA
*
46407444 TTTTA-TTTACAAA-ATA
1 TTTTATTTTAAAAATATA
46407460 --TTATTTTAATAAATATA
1 TTTTATTTTAA-AAATATA
46407477 TTTTAT
1 TTTTAT
46407483 GTAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 6 0.19
17 4 0.13
18 10 0.32
19 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATTTTAAAAATATA
Found at i:46408612 original size:14 final size:15
Alignment explanation
Indices: 46408593--46408623 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
46408583 ATAGAGGTTA
46408593 TTTTTGTTTTT-ATT
1 TTTTTGTTTTTCATT
46408607 TTTTTGTTTTTCATT
1 TTTTTGTTTTTCATT
46408622 TT
1 TT
46408624 CATTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTGTTTTTCATT
Found at i:46421965 original size:14 final size:14
Alignment explanation
Indices: 46421946--46421975 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46421936 TGTTGTTGAA
*
46421946 AATGTTTTGAGAAG
1 AATGTTTCGAGAAG
46421960 AATGTTTCGAGAAG
1 AATGTTTCGAGAAG
46421974 AA
1 AA
46421976 ACTACAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (14 bp):
AATGTTTCGAGAAG
Found at i:46423607 original size:2 final size:2
Alignment explanation
Indices: 46423600--46423635 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
46423590 AATGTTGAAG
*
46423600 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46423636 TCATTAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:46425176 original size:29 final size:29
Alignment explanation
Indices: 46425147--46425210 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 29
46425137 TAAAAACATT
* *
46425147 AAAACAAATATTAAAATAACAAACAAATTA
1 AAAAC-AATACTAAAACAACAAACAAATTA
46425177 AAAACAATACTAAAACAACAAACAAATTGA
1 AAAACAATACTAAAACAACAAACAAATT-A
46425207 AAAA
1 AAAA
46425211 ATTGCTCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.16
Consensus pattern (29 bp):
AAAACAATACTAAAACAACAAACAAATTA
Found at i:46433157 original size:30 final size:30
Alignment explanation
Indices: 46433123--46433243 Score: 134
Period size: 30 Copynumber: 4.0 Consensus size: 30
46433113 TCGGATGGGT
* * * *
46433123 AACCTTGATATAATGTCAACTTGTGTGATC
1 AACCTTGTTATAAAGTCAGCTTGTGTGAGC
* * *
46433153 AACCTTTTTATAAAGTCATCATGTGTGAGC
1 AACCTTGTTATAAAGTCAGCTTGTGTGAGC
* * * *
46433183 AACCGTGGTATAAAATTAGCTTGTGTGAGC
1 AACCTTGTTATAAAGTCAGCTTGTGTGAGC
*
46433213 AACATTGTTATAAAGTCAGCTTGTGTGAGC
1 AACCTTGTTATAAAGTCAGCTTGTGTGAGC
46433243 A
1 A
46433244 CTTATTCACC
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (30 bp):
AACCTTGTTATAAAGTCAGCTTGTGTGAGC
Found at i:46437240 original size:3 final size:3
Alignment explanation
Indices: 46437118--46437221 Score: 118
Period size: 3 Copynumber: 34.7 Consensus size: 3
46437108 AAAATCAAGG
* *
46437118 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
46437166 AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46437214 AAT AAT AA
1 AAT AAT AA
46437222 ACAAGTAAGC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:46438436 original size:18 final size:19
Alignment explanation
Indices: 46438397--46438439 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
46438387 TTTTTTTAAT
46438397 TTTTGGGTTTGTAATGTTTA
1 TTTTGGGTTTGTAA-GTTTA
46438417 TTTTGGGTTTGTAA-TTTA
1 TTTTGGGTTTGTAAGTTTA
46438435 TTTTG
1 TTTTG
46438440 TTGGGCCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.14, C:0.00, G:0.23, T:0.63
Consensus pattern (19 bp):
TTTTGGGTTTGTAAGTTTA
Found at i:46438885 original size:143 final size:142
Alignment explanation
Indices: 46438704--46441022 Score: 2135
Period size: 143 Copynumber: 16.2 Consensus size: 142
46438694 TTCATTTTAA
* * * * *
46438704 TCTGCTCCACTTCAACTTCAGAGAGAT-AGGATTGGTGGCTTCAATCTACTCCACTGCAACTTCA
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
* * *
46438768 GGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGGAATAAGA
64 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGA
*
46438833 TTTGCTGTCTTCAG
129 TTCGCTGTCTTCAG
*
46438847 TCTGCTCCGTTACAACTCTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCGCTACAACT-TAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * * * ** **
46438912 GAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGCTCTACTGTAACTTCA-GGAAGATAAGA
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAA-ATAAGA
* * *
46438976 -TCTGCCATAATTTGTAGTTTTAA
129 TTC-G-C------TGT--CTTCAG
** * * ** * ** * ** * * * *
46438999 TCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCT-ATTTTAAGTCTGCTTCGCTGCAATTTC
1 TCTGCTCCGCTACAAC-TTAGGGAGATAAGGCT-GGTGGCTTCAA-TCTGCTCCACTGCAACTTC
* * * * ** **
46439063 AAGG-AGATAAG----G-C-----TGGTGGCTTCAATCTGCTCCACTGTAACTTCA-GGAAGATA
63 -AGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAA-ATA
* *
46439116 AGATTCGCCATAATTTGTAGCTTTAA
126 AGATTCG-C------TGT--CTTCAG
** * * * * *
46439142 TCTATTCCACTGCAA-TGCCAGGGAAATAAGATAAGGCTTGTGGCTTCAATCTGCTCCATTGCAA
1 TCTGCTCCGCTACAACT--TAGGG-----AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
* * *
46439206 CTTTAGGAAGATAAGATTTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAA
59 CTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAA
46439271 TAAGATTCGCTGTCTTCAG
124 TAAGATTCGCTGTCTTCAG
* ** * *** * *
46439290 TCTGCTACGCTGTAACTTCAGAGAGATAAGGCTGGTAGG-TTCAATAAACTCCACTACAACATCA
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGT-GGCTTCAATCTGCTCCACTGCAACTTCA
* *
46439354 GGAAAATAAGATTCACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGA
64 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGA
* *
46439419 TTCACTGTCTTCAA
129 TTCGCTGTCTTCAG
* * * * *
46439433 TCTGCTCC-CTTGAAAAATCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACT-AAACCTTC
1 TCTGCTCCGC-T-ACAACTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA-CTTC
**
46439496 AGGAAGATAAGA-TCTGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACATCAGGGAAATAA
63 AGGAAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAA
* *
46439560 GATTCACTGTCTTTAG
127 GATTCGCTGTCTTCAG
* * *
46439576 TCTGCTCCGCTGCAACTTCAGGGAGATAAGG-T--AGG--------T--TCCACTGCAACTTCAT
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * *
46439628 AAAAATAAGATTCGCCATAATTTGTAGCTTTAATATGTTCCACTACAACGCCAGGGAAATAAGAT
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
46439693 TCGCTGTCTTCAG
130 TCGCTGTCTTCAG
** * * * * * *
46439706 TCTGCTCCGCTGTAATTTCAAGGAGATAAGACTAGTGGCTTCAATATGCTCCACTGCAACTTTAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * * * * *
46439771 GAAGATAAGA-TCTGTCATAATTTGTAGCTTTACTCTGTTCTACTGCAACTCCAAGGAAATAAGA
65 GAAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGA
*
46439835 TTCGTTGTCTTCAG
129 TTCGCTGTCTTCAG
* ** * * *
46439849 CCTGCTCCGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTTAATATGCTCAACTGCAACTTCAG
1 TCTGCTCCGCTACAAC-TTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * *
46439914 GAAGATAATATTCGCCATAATTTGTAGCTTTAATCTGTTCCAC-AGCAACGCTAAGGAAATAAGA
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTA-CAACGCCAGGGAAATAAGA
46439978 TTCGCTGTCTTCAG
129 TTCGCTGTCTTCAG
* * * * *
46439992 TCTGCTCTGCTACAACTTCTGGGAGATAAGGTTGGTGACTTCAATCTGCTCCACTGCAACTTTAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * * ** * *
46440057 GAAGATAAGATTCGCCATAATTTGTAACTTTAAACTGTCCCACTGTAATGCTAGGGAAATAAGAT
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
*
46440122 TCGCTATCTTCAG
130 TCGCTGTCTTCAG
* * * * *
46440135 TCTGTTCTGCTACAACTTCAGGGAGATAAGGTTGGTGGCTTTAATCTACTCCACTGCAACTTCAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * *
46440200 AAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTG-TCCTACTGCAACACCAGGGAAATAAGA
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCC-ACTACAACGCCAGGGAAATAAGA
* *
46440264 TTCGTTGTCTTCAA
129 TTCGCTGTCTTCAG
* * *
46440278 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
** * * * *
46440343 GAAGATAAGATTCGCCACGATTTGTAGCTTTAATCTATTCCATTGCAACGCTAGGGAAATAAGAT
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
*
46440408 TCGCTGTCTTTAG
130 TCGCTGTCTTCAG
* *
46440421 TCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTGT-A
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACT-TCA
* * * * *
46440485 GGAAGAGAAGA-TCTGCCATAATTTGTAGCTTGAATTTGTTCTACTACAATGCCAGGGAAATAAG
64 GGAAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAG
46440549 ATTCGCTGTCTTCAG
128 ATTCGCTGTCTTCAG
* * * * ** * *
46440564 TCTGCTCCACTATAACTTCATGGAGATAAGGTTGGTGGCTTCGGTTTGCTCCACTGCAACTTTAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * * * *
46440629 AAAGAGAAGATCCACTATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
46440694 TCGCTGTCTTCAG
130 TCGCTGTCTTCAG
* * * * *
46440707 TCTGCTCCTCTAAAACTTTAGAGAGATAAGGTCT-GTGGCTTTAATCTGCTCCACTACAACTTCA
1 TCTGCTCCGCTACAAC-TTAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
* * * * *
46440771 AGAAGATAAGATTAGCCATAATTTGTAGCTTTAATCTATTCCACTACAATGCTAGGGAAATAAGA
64 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGA
* *
46440836 TTCACTATCTTCAG
129 TTCGCTGTCTTCAG
* * * *
46440850 TCTGCTCTGCTGCAACTTCAGGGAGATAAAGCTGGTGGCTTCAATTTGCTCCACTGCAACTTCAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
* * * * * * * *
46440915 AAAGATAAGATTCGTCATAATTTTTAGCTTTAATATATTCTACTGCAACGCCAGGGAAATAGGAT
65 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
*
46440980 TCGCTGTCTTCGG
130 TCGCTGTCTTCAG
* *
46440993 TCTGCTCCGCTGCAACTTCAGGAAGATAAG
1 TCTGCTCCGCTACAACTT-AGGGAGATAAG
46441023 ATTCACCATA
Statistics
Matches: 1809, Mismatches: 288, Indels: 158
0.80 0.13 0.07
Matches are distributed among these distances:
130 106 0.06
131 5 0.00
132 1 0.00
133 2 0.00
140 2 0.00
141 1 0.00
142 28 0.02
143 1479 0.82
144 25 0.01
146 3 0.00
147 22 0.01
148 29 0.02
149 1 0.00
150 6 0.00
151 1 0.00
152 30 0.02
153 25 0.01
154 3 0.00
156 1 0.00
157 35 0.02
158 4 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (142 bp):
TCTGCTCCGCTACAACTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
AAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATT
CGCTGTCTTCAG
Found at i:46438971 original size:54 final size:54
Alignment explanation
Indices: 46438884--46439014 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
46438874 AAGGCTGGTG
*
46438884 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTA
* * **
46438938 GCTTTAATCTGCTCTACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTA
* **
46438992 GTTTTAATCTATTCCACTGCAAC
1 GCTTTAATCTGCTCCACTGCAAC
46439015 GCCAGGGAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (54 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTA
Found at i:46439171 original size:54 final size:55
Alignment explanation
Indices: 46439108--46439280 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 55
46439098 TGTAACTTCA
*
46439108 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAATGCCAG
1 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGCCAG
** * * * * * **
46439163 GGAA-ATAAGATAAGGC-----TTGTGGCTTCAATCTGCTCCATTGCAACT-TTA-
1 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAA-TGCCAG
* *
46439211 GGAAGATAAGATTTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAG
1 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGCCAG
46439266 GGAA-ATAAGATTCGC
1 GGAAGATAAGATTCGC
46439281 TGTCTTCAGT
Statistics
Matches: 88, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
48 4 0.05
49 32 0.36
50 1 0.01
54 43 0.49
55 8 0.09
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (55 bp):
GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGCCAG
Found at i:46439173 original size:197 final size:197
Alignment explanation
Indices: 46438741--46439156 Score: 609
Period size: 197 Copynumber: 2.1 Consensus size: 197
46438731 AGGATTGGTG
* *
46438741 GCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTG
1 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTA
* * * * * * *
46438806 TTCCACTACAACGCTAGGGGAATAAGATTTGCTGTCTTCAGTCTGCTCCGTTACAACTCTAGGGA
66 TTCCACTACAACGCCAGGGAAATAAGATTCGCTATCTTAAGTCTGCTCCGCTACAACTCTAAGGA
46438871 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTG
131 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTG
46438936 TA
196 TA
* * * * *
46438938 GCTTTAATCTGCTCTACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGTTTTAATCTA
1 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTA
* * * * *
46439003 TTCCACTGCAACGCCAGGGAAATAAGATTCGCTATTTTAAGTCTGCTTCGCTGCAA-TTTCAAGG
66 TTCCACTACAACGCCAGGGAAATAAGATTCGCTATCTTAAGTCTGCTCCGCTACAACTCT-AAGG
* * *
46439067 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATAATTT
130 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTT
46439132 GTA
195 GTA
*
46439135 GCTTTAATCTATTCCACTGCAA
1 GCTTTAATCTACTCCACTGCAA
46439157 TGCCAGGGAA
Statistics
Matches: 192, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
196 2 0.01
197 190 0.99
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (197 bp):
GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTA
TTCCACTACAACGCCAGGGAAATAAGATTCGCTATCTTAAGTCTGCTCCGCTACAACTCTAAGGA
GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTG
TA
Found at i:46439229 original size:103 final size:103
Alignment explanation
Indices: 46439067--46439276 Score: 357
Period size: 103 Copynumber: 2.0 Consensus size: 103
46439057 AATTTCAAGG
*
46439067 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATAATTT
1 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTT
*
46439132 GTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATA
66 GTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATA
* * * *
46439170 AGATAAGGCTTGTGGCTTCAATCTGCTCCATTGCAACTTTAGGAAGATAAGATTTGCCATAATTT
1 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTT
*
46439235 GTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATA
66 GTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATA
46439273 AGAT
1 AGAT
46439277 TCGCTGTCTT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (103 bp):
AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTT
GTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATA
Found at i:46439236 original size:246 final size:246
Alignment explanation
Indices: 46438933--46439419 Score: 708
Period size: 246 Copynumber: 2.0 Consensus size: 246
46438923 CCACCATAAT
* * * *
46438933 TTGTAGCTTTAATCTGCTCTACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGTTTTA
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTA
* * *
46438998 ATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTATTTTAAGTCTGCTTCGCTGCAATTTC
66 ATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTAAGTCTGCTACGCTGCAACTTC
*** ** * * *
46439063 A-AGGAGATAAGGCTGGT-GGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCA
131 AGA-GAGATAAGGCTGGTAGG-TTCAATAAACTCCACTACAACATCAGGAAAATAAGATTCACCA
* *
46439126 TAATTTGTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATAAGGC
194 TAATTTGTAGCTTTAATCTATTCCACTACAACGCCAGGGAAATAAGATAAGGC
* * * *
46439179 TTGTGGCTTCAATCTGCTCCATTGCAACTTTAGGAAGATAAGATTTGCCATAATTTGTAGCTTTA
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTA
* * * *
46439244 ATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTACGCTGTAACTTC
66 ATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTAAGTCTGCTACGCTGCAACTTC
46439309 AGAGAGATAAGGCTGGTAGGTTCAATAAACTCCACTACAACATCAGGAAAATAAGATTCACCATA
131 AGAGAGATAAGGCTGGTAGGTTCAATAAACTCCACTACAACATCAGGAAAATAAGATTCACCATA
*
46439374 ATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGAT
196 ATTTGTAGCTTTAATCTATTCCACTACAACGCCAGGGAAATAAGAT
46439420 TCACTGTCTT
Statistics
Matches: 213, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
246 210 0.99
247 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (246 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTA
ATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTAAGTCTGCTACGCTGCAACTTC
AGAGAGATAAGGCTGGTAGGTTCAATAAACTCCACTACAACATCAGGAAAATAAGATTCACCATA
ATTTGTAGCTTTAATCTATTCCACTACAACGCCAGGGAAATAAGATAAGGC
Found at i:46440300 original size:45 final size:44
Alignment explanation
Indices: 46440226--46440356 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 44
46440216 ATAATTTGTA
* **
46440226 GCTTTAATCTG-TCCTACTGCAACACCAGGGAAATAAGATTCGTTG
1 GCTTCAATCTGCTCC-ACTGCAACTTCAGGGAAATAAGATTCG-TG
* * * ** *
46440271 TCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTG
*
46440315 GCTTCAATCTGCTCCACTGCAACTTTA-GGAAGATAAGATTCG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTCG
46440357 CCACGATTTG
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
43 3 0.04
44 33 0.49
45 29 0.43
46 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTG
Found at i:46443106 original size:43 final size:43
Alignment explanation
Indices: 46443054--46443183 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
46443044 TAGGATCTCC
* * *
46443054 GATATGTGTTTTCGTGTAAGAGCACGTCTAGGACATTGGCATT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATT
* * *
46443097 GACT-TGTGTTTACGTGTAAGATCC-TGTCTGGGACAGTGGCATG
1 GA-TATGTGTTTACGTGTAAGA-CCACGTCTGGGACATTGGCATT
* * *
46443140 GATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATT
46443183 G
1 G
46443184 TACGAGCTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (43 bp):
GATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATT
Found at i:46445037 original size:5 final size:5
Alignment explanation
Indices: 46445023--46445071 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
46445013 TTGGCCTCTC
*
46445023 CTTTT TTTTT CTTTT -TTTGT -TTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTT-T CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
46445072 TTAAAGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (5 bp):
CTTTT
Found at i:46445061 original size:15 final size:14
Alignment explanation
Indices: 46445025--46445073 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
46445015 GGCCTCTCCT
46445025 TTTTTTTTCTTTT-
1 TTTTTTTTCTTTTC
46445038 TTTGTTTTTCTTTTC
1 TTT-TTTTTCTTTTC
46445053 TTTTCTTTTCTTTTC
1 TTTT-TTTTCTTTTC
46445068 TTTTTT
1 TTTTTT
46445074 AAAGTGAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.09
14 13 0.39
15 17 0.52
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:46450283 original size:3 final size:3
Alignment explanation
Indices: 46450275--46450318 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
46450265 AAAATCAAGG
46450275 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46450319 AACAAGTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46455717 original size:26 final size:26
Alignment explanation
Indices: 46455688--46455739 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46455678 TTTTGCCAAG
46455688 TCCATTTTTCGGGCTTATATTTTTAC
1 TCCATTTTTCGGGCTTATATTTTTAC
46455714 TCCATTTTTCGGGCTTATATTTTTAC
1 TCCATTTTTCGGGCTTATATTTTTAC
46455740 CCAAACCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (26 bp):
TCCATTTTTCGGGCTTATATTTTTAC
Found at i:46463483 original size:202 final size:202
Alignment explanation
Indices: 46463137--46463545 Score: 755
Period size: 202 Copynumber: 2.0 Consensus size: 202
46463127 CGAACAAATC
* *
46463137 TGCAATAAGAGGAATAGGGTACTTATTCTTCACAGTGATCTTGTTTAAATCCTGATAATCGATGC
1 TGCAATAAGAGGAATAGGGTACCTATTCTTCACAGTGATCTTGTTTAAAGCCTGATAATCGATGC
*
46463202 ACATTCTCAATGACCCATCATGTTTCTTTTGAAACAGCACTGGCGCACCGTATGGGGATTTAGAT
66 ACATTCTCAAAGACCCATCATGTTTCTTTTGAAACAGCACTGGCGCACCGTATGGGGATTTAGAT
*
46463267 GGTCTAATGAATCTCGCATCCAAAAGTTCCTTCAATTGTAAGCTATTGGTAAGCTCTTGAACTCC
131 GGTCTAATGAATCTCGCATCCAAAAGTTCCTTCAATTGTAAGCTATTGGTAAGCTCTTAAACTCC
*
46463332 TCGGTGT
196 TCGGCGT
*
46463339 TGCAATAAGAGGAATAGGGTACCTATTCTTCACAGTGATCTTGTTTAAAGCCTGATAATTGATGC
1 TGCAATAAGAGGAATAGGGTACCTATTCTTCACAGTGATCTTGTTTAAAGCCTGATAATCGATGC
*
46463404 ACATTTTCAAAGACCCATCATGTTTCTTTTGAAACAGCACTGGCGCACCGTATGGGGATTTAGAT
66 ACATTCTCAAAGACCCATCATGTTTCTTTTGAAACAGCACTGGCGCACCGTATGGGGATTTAGAT
46463469 GGTCTAATGAATCTCGCATCCAAAAGTTCCTTCAATTGTAAGCTATTGGTAAGCTCTTAAACTCC
131 GGTCTAATGAATCTCGCATCCAAAAGTTCCTTCAATTGTAAGCTATTGGTAAGCTCTTAAACTCC
46463534 TCGGCGT
196 TCGGCGT
46463541 TGCAA
1 TGCAA
46463546 CTCTTGCTTC
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 200 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (202 bp):
TGCAATAAGAGGAATAGGGTACCTATTCTTCACAGTGATCTTGTTTAAAGCCTGATAATCGATGC
ACATTCTCAAAGACCCATCATGTTTCTTTTGAAACAGCACTGGCGCACCGTATGGGGATTTAGAT
GGTCTAATGAATCTCGCATCCAAAAGTTCCTTCAATTGTAAGCTATTGGTAAGCTCTTAAACTCC
TCGGCGT
Found at i:46476731 original size:11 final size:11
Alignment explanation
Indices: 46476711--46476817 Score: 56
Period size: 11 Copynumber: 10.4 Consensus size: 11
46476701 TAAAAATTAA
46476711 AAAAAGTATTTT
1 AAAAA-TATTTT
46476723 AAAAATATTTT
1 AAAAATATTTT
46476734 --AAA-A--TT
1 AAAAATATTTT
* *
46476740 AAAAA-AATTA
1 AAAAATATTTT
46476750 AAAAAGTATTTT
1 AAAAA-TATTTT
*
46476762 AAAAAAATTTT
1 AAAAATATTTT
46476773 --AAA-A-TTT
1 AAAAATATTTT
46476780 AAAAA-ATTTAAT
1 AAAAATATTT--T
*
46476792 AAAAGTATTTT
1 AAAAATATTTT
*
46476803 AAAAGTATTTT
1 AAAAATATTTT
46476814 AAAA
1 AAAA
46476818 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 6 0.08
9 10 0.13
10 8 0.10
11 27 0.35
12 18 0.23
13 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46476756 original size:39 final size:39
Alignment explanation
Indices: 46476678--46476833 Score: 206
Period size: 39 Copynumber: 3.8 Consensus size: 39
46476668 ATAAATACCA
46476678 AAAAATTATTTTAAGAATTAAAATAAAAATTAAAAAAAGTATTTT
1 AAAAA-TATTTTAA-AATT--AA-AAAAATT-AAAAAAGTATTTT
46476723 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
* *
46476762 AAAAAAATTTTAAAATTTAAAAAATTTAATAAAAGTATTTT
1 AAAAATATTTTAAAA-TTAAAAAAATTAA-AAAAGTATTTT
*
46476803 AAAAGTATTTTAAAATTAAAAAAA-TAAAAAA
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAA
46476834 TAATAAAAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
38 4 0.04
39 30 0.29
40 27 0.26
41 26 0.25
43 4 0.04
44 8 0.08
45 5 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (39 bp):
AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
Found at i:46476785 original size:17 final size:17
Alignment explanation
Indices: 46476720--46476788 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 17
46476710 AAAAAAGTAT
46476720 TTTAAAAATATTTTAAAA
1 TTTAAAAA-ATTTTAAAA
* **
46476738 TTAAAAAAATTAAAAAAGTA
1 TTTAAAAAATT-TTAAA--A
46476758 TTTTAAAAAAATTTTAAAA
1 -TTT-AAAAAATTTTAAAA
46476777 TTTAAAAAATTT
1 TTTAAAAAATTT
46476789 AATAAAAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
17 12 0.30
18 13 0.32
19 1 0.03
20 1 0.03
21 5 0.12
22 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (17 bp):
TTTAAAAAATTTTAAAA
Found at i:46485161 original size:60 final size:61
Alignment explanation
Indices: 46485086--46485223 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 61
46485076 AGTATAAACT
* * * * **
46485086 AATTTATTGAGTTTTTTAGAATT-AGAACTAAATTCATAAATTTTGTAAATTTTG-AGGCTA
1 AATTTATTGAATTTTTTAAAATTCA-AACTAAAATCACAAATTTTGTAAACATTGAAGGCTA
* *
46485146 AATTTATTGAA-TTTTTAAAATTCAAACTAAAATGACAAATTTTGTAAACATTGAATGCTA
1 AATTTATTGAATTTTTTAAAATTCAAACTAAAATCACAAATTTTGTAAACATTGAAGGCTA
* *
46485206 AATTTGTTGAATATTTTA
1 AATTTATTGAATTTTTTA
46485224 TATTTAGGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
59 34 0.52
60 26 0.40
61 5 0.08
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (61 bp):
AATTTATTGAATTTTTTAAAATTCAAACTAAAATCACAAATTTTGTAAACATTGAAGGCTA
Found at i:46495471 original size:7 final size:7
Alignment explanation
Indices: 46495459--46495484 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46495449 CAAACTATAT
46495459 AATTTTA
1 AATTTTA
46495466 AATTTTA
1 AATTTTA
46495473 AATTTTA
1 AATTTTA
46495480 AATTT
1 AATTT
46495485 ATATTCCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:46499400 original size:92 final size:92
Alignment explanation
Indices: 46499172--46499643 Score: 928
Period size: 92 Copynumber: 5.1 Consensus size: 92
46499162 GTTTAAAAGC
46499172 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
46499237 TTACTA-TTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
46499263 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
46499328 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
46499355 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
46499420 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
46499447 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
46499512 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
46499539 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
46499604 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
*
46499631 ATTCATTAACGTA
1 ATTCATTTACGTA
46499644 ACACATAACT
Statistics
Matches: 379, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
91 71 0.19
92 308 0.81
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (92 bp):
ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
TTACTATTTTTTTAATATTATACATAT
Found at i:46499757 original size:9 final size:9
Alignment explanation
Indices: 46499745--46500039 Score: 145
Period size: 9 Copynumber: 34.0 Consensus size: 9
46499735 TAATACAGAG
46499745 CTTACATAA
1 CTTACATAA
*
46499754 CTTACATAC
1 CTTACATAA
*
46499763 CCTACATAA
1 CTTACATAA
* *
46499772 ATTAAATAA
1 CTTACATAA
*
46499781 GTTACATAA
1 CTTACATAA
*
46499790 -TAATACATAC
1 CT--TACATAA
*
46499800 CCTACATAA
1 CTTACATAA
* *
46499809 ATTAAATAA
1 CTTACATAA
*
46499818 GTTACATAA
1 CTTACATAA
* *
46499827 ATTAAATAA
1 CTTACATAA
*
46499836 GTTACATAA
1 CTTACATAA
*
46499845 -TAATACATAC
1 CT--TACATAA
*
46499855 CCTACATAA
1 CTTACATAA
46499864 CTTACATAA
1 CTTACATAA
*
46499873 --GACATAA
1 CTTACATAA
*
46499880 CTTTCATAA
1 CTTACATAA
*
46499889 --TACACAA
1 CTTACATAA
**
46499896 CTTACGCAA
1 CTTACATAA
46499905 CTTACATAA
1 CTTACATAA
*
46499914 --GACATAA
1 CTTACATAA
46499921 CTTACAT--
1 CTTACATAA
* *
46499928 GTGTAAATAA
1 CT-TACATAA
*
46499938 --TACATAT
1 CTTACATAA
*
46499945 TTTACATAA
1 CTTACATAA
46499954 CTTACATAA
1 CTTACATAA
*
46499963 --GACATAA
1 CTTACATAA
46499970 CTTACATAA
1 CTTACATAA
* *
46499979 GTTTCATAA
1 CTTACATAA
* *
46499988 --TACACAT
1 CTTACATAA
*
46499995 CTTACGTAA
1 CTTACATAA
*
46500004 CTTACACAA
1 CTTACATAA
46500013 CTTACATAA
1 CTTACATAA
46500022 CTTACATAA
1 CTTACATAA
46500031 CTTACATAA
1 CTTACATAA
46500040 TGTATACCTT
Statistics
Matches: 212, Mismatches: 53, Indels: 42
0.69 0.17 0.14
Matches are distributed among these distances:
7 33 0.16
8 6 0.03
9 161 0.76
10 12 0.06
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (9 bp):
CTTACATAA
Found at i:46499800 original size:37 final size:37
Alignment explanation
Indices: 46499756--46499826 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
46499746 TTACATAACT
46499756 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
46499793 TACATACCCTACATAAATTAAATAAGTTACATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAA
46499827 ATTAAATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:46499873 original size:55 final size:55
Alignment explanation
Indices: 46499733--46499873 Score: 210
Period size: 55 Copynumber: 2.6 Consensus size: 55
46499723 TACATGCGTA
* * * **
46499733 AATAATACAGAGCTTACATAACTTACATACCCTACATAAATTAAATAAGTTACAT
1 AATAATACATACCCTACATAACTTACATAAGCTACATAAATTAAATAAGTTACAT
* * *
46499788 AATAATACATACCCTACATAAATTAAATAAGTTACATAAATTAAATAAGTTACAT
1 AATAATACATACCCTACATAACTTACATAAGCTACATAAATTAAATAAGTTACAT
46499843 AATAATACATACCCTACATAACTTACATAAG
1 AATAATACATACCCTACATAACTTACATAAG
46499874 ACATAACTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (55 bp):
AATAATACATACCCTACATAACTTACATAAGCTACATAAATTAAATAAGTTACAT
Found at i:46499877 original size:16 final size:16
Alignment explanation
Indices: 46499858--46499979 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
46499848 TACATACCCT
46499858 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
46499874 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
46499890 ACACAACTTAC----G
1 ACATAACTTACATAAG
46499902 -C--AACTTACATAAG
1 ACATAACTTACATAAG
**
46499915 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
46499931 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
46499948 ACATAACTTACATAAG
1 ACATAACTTACATAAG
46499964 ACATAACTTACATAAG
1 ACATAACTTACATAAG
46499980 TTTCATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 7 0.09
11 1 0.01
13 1 0.01
14 1 0.01
15 5 0.06
16 54 0.67
17 6 0.07
18 6 0.07
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:46499906 original size:25 final size:25
Alignment explanation
Indices: 46499878--46499925 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46499868 CATAAGACAT
* *
46499878 AACTTTCATAATACACAACTTACGC
1 AACTTACATAAGACACAACTTACGC
*
46499903 AACTTACATAAGACATAACTTAC
1 AACTTACATAAGACACAACTTAC
46499926 ATGTGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (25 bp):
AACTTACATAAGACACAACTTACGC
Found at i:46505752 original size:66 final size:66
Alignment explanation
Indices: 46505627--46505773 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
46505617 GAGGCAACAT
* * *
46505627 CGAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGTAGATGCAGTA
1 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCA
46505692 G
66 G
* * * *
46505693 CGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCGG
1 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAG
46505756 CAG
64 CAG
* *
46505759 CAAGAGAAGCAGAGG
1 CGAGAGAAGCTGAGG
46505774 CGGCAGCGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 65 0.93
67 4 0.06
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCA
G
Found at i:46505770 original size:21 final size:21
Alignment explanation
Indices: 46505744--46505788 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
46505734 CAGCAGCTTA
*
46505744 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
46505765 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
46505786 AAG
1 AAG
46505789 TACAGGCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.42, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:46505795 original size:21 final size:21
Alignment explanation
Indices: 46505752--46505852 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 21
46505742 TAAAGCAGAT
* *
46505752 GCGGCAGCAAGAGAAGCAGAG
1 GCGGCAGCGAGAGAAGCACAG
*
46505773 GCGGCAGCGAGAGAAGTACAG
1 GCGGCAGCGAGAGAAGCACAG
* * * *
46505794 GCTGCAACGAGGGAAGCAAAG
1 GCGGCAGCGAGAGAAGCACAG
*** * * *
46505815 GCTAAAACGAGGGAAGCAGAG
1 GCGGCAGCGAGAGAAGCACAG
* *
46505836 GCTGCAGCGAGGGAAGC
1 GCGGCAGCGAGAGAAGC
46505853 CGAGCAGCGT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.04
Consensus pattern (21 bp):
GCGGCAGCGAGAGAAGCACAG
Found at i:46506349 original size:87 final size:87
Alignment explanation
Indices: 46506207--46506458 Score: 366
Period size: 86 Copynumber: 2.9 Consensus size: 87
46506197 AGGTGTTGGC
* * *
46506207 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGTGGGG
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGG
46506270 AAAGCGCCGCTAAAGATTAGGTT
65 AAAGCGCCGCTAAAGATTAGGTT
* * *
46506293 CTTTAGTGGCGTTTTGTTGTCGAAGCGTCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
46506358 AAGCGCCGCTAAAGATTAGGTT
66 AAGCGCCGCTAAAGATTAGGTT
* * ***
46506380 CTTTCGTGGCG-TTTGTGGTCAAAGTGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAAAA
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
*
46506444 AAACGCCGCTAAAGA
66 AAGCGCCGCTAAAGA
46506459 CCCTGATCTT
Statistics
Matches: 149, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
86 75 0.50
87 72 0.48
88 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (87 bp):
CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
AAGCGCCGCTAAAGATTAGGTT
Found at i:46506434 original size:43 final size:43
Alignment explanation
Indices: 46506207--46506565 Score: 267
Period size: 43 Copynumber: 8.3 Consensus size: 43
46506197 AGGTGTTGGC
* * *
46506207 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * *
46506250 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
46506293 CTTTAGTGGCGTTTTGTTGTCGAAGCGTCGCTATAGATCAGGGT
1 CTTTAGCGGCG-TTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
46506337 CTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
46506380 CTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* *** * * ** *
46506423 CTATT-GCGGCGTTTGAGAAAAAAACGCCGCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** * * ***
46506466 CTTTAGCGGTGCTTGT-CCCAAAAACGCCGCTAAAGGTCTTAGT
1 CTTTAGCGGCGTTTGTGGTC-AAAGCGCCGCTAAAGATCAGGGT
* * *
46506509 CTTCAGCGGCGTTTGTGCT-AGAAGCGTCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATCAGGGT
46506552 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
46506566 TTTTTAAAAA
Statistics
Matches: 241, Mismatches: 67, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
42 5 0.02
43 200 0.83
44 34 0.14
45 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:46506469 original size:86 final size:86
Alignment explanation
Indices: 46506207--46506458 Score: 362
Period size: 87 Copynumber: 2.9 Consensus size: 86
46506197 AGGTGTTGGC
* * * *
46506207 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGTGGGGA
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGA
46506271 AAGCGCCGCTAAAGATTAGGTT
65 AAGCGCCGCTAAAGATTAGGTT
* * *
46506293 CTTTAGTGGCGTTTTGTTGTCGAAGCGTCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
1 CTTTAGTGGCG-TTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
46506358 AAGCGCCGCTAAAGATTAGGTT
65 AAGCGCCGCTAAAGATTAGGTT
* * ***
46506380 CTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAAAAA
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAA
*
46506445 AACGCCGCTAAAGA
66 AGCGCCGCTAAAGA
46506459 CCCTGATCTT
Statistics
Matches: 148, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
86 71 0.48
87 75 0.51
88 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (86 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAA
AGCGCCGCTAAAGATTAGGTT
Found at i:46506681 original size:21 final size:21
Alignment explanation
Indices: 46506656--46506699 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
46506646 ATTTGCGGCG
*
46506656 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAGCGCCGCTAAAAGC
46506677 CTAAAAAGCGCCGCTAAAAGC
1 CTAAAAAGCGCCGCTAAAAGC
46506698 CT
1 CT
46506700 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.30, G:0.20, T:0.11
Consensus pattern (21 bp):
CTAAAAAGCGCCGCTAAAAGC
Found at i:46506866 original size:22 final size:22
Alignment explanation
Indices: 46506799--46506869 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
46506789 ATTATTATTA
*
46506799 AATATAATTTAATAAAAATAAT
1 AATATAATTTAATAAAAATCAT
* * *
46506821 -ATATAATTTAATAACATTCTT
1 AATATAATTTAATAAAAATCAT
*
46506842 AATACAATTTAATAAAAATCAT
1 AATATAATTTAATAAAAATCAT
46506864 AATATA
1 AATATA
46506870 TATAATATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATAATTTAATAAAAATCAT
Found at i:46509594 original size:22 final size:22
Alignment explanation
Indices: 46509569--46509613 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46509559 TTAGGCTGTA
46509569 ATACATGCTATTACAGCCAACC
1 ATACATGCTATTACAGCCAACC
46509591 ATACATGCTATTACAGCCAACC
1 ATACATGCTATTACAGCCAACC
46509613 A
1 A
46509614 AATAGGCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (22 bp):
ATACATGCTATTACAGCCAACC
Found at i:46510686 original size:21 final size:21
Alignment explanation
Indices: 46510645--46510686 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
46510635 TTGAAAAAAA
* *
46510645 TTATAATATTTTTTTACATTT
1 TTATAATATATTATTACATTT
46510666 TTATAATACTATTATTA-ATTT
1 TTATAATA-TATTATTACATTT
46510687 CAACTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATAATATATTATTACATTT
Found at i:46510787 original size:29 final size:29
Alignment explanation
Indices: 46510755--46510823 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
46510745 TTTTCCTAGA
46510755 TTATATATATTTTCT-GAATTTTTATATAT
1 TTATATATATTTTCTAGAATTTTTA-ATAT
* * * *
46510784 TTAT-TTTATTTTTTATAATTTTTAATGT
1 TTATATATATTTTCTAGAATTTTTAATAT
*
46510812 TTATATACATTT
1 TTATATATATTT
46510824 GATTAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TTATATATATTTTCTAGAATTTTTAATAT
Found at i:46511000 original size:35 final size:35
Alignment explanation
Indices: 46510954--46511036 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 35
46510944 TAGGTACCAA
*
46510954 ATTAGGAATGAAGTGTACTTTAGATATTAAATTTG
1 ATTAGAAATGAAGTGTACTTTAGATATTAAATTTG
46510989 ATTAGAAATGAAGTGTACTTTAGATATTAAATTTG
1 ATTAGAAATGAAGTGTACTTTAGATATTAAATTTG
* *
46511024 ATTAAAAAAGAAG
1 ATTAGAAATGAAG
46511037 AAGATTTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.36
Consensus pattern (35 bp):
ATTAGAAATGAAGTGTACTTTAGATATTAAATTTG
Found at i:46521804 original size:25 final size:25
Alignment explanation
Indices: 46521758--46521805 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
46521748 TATCCTATTT
* *
46521758 ATTTTAAATAAAAGTTATATATTAA
1 ATTTAAAATAAAAGTTAAATATTAA
**
46521783 ATTTAAAATAAATTTTAAATATT
1 ATTTAAAATAAAAGTTAAATATT
46521806 TAATATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTTAAAATAAAAGTTAAATATTAA
Found at i:46523819 original size:29 final size:29
Alignment explanation
Indices: 46523780--46523839 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
46523770 CATTTTTTCT
46523780 TTTCTAGAATCTTGTAAAGAGTTCTGTTC
1 TTTCTAGAATCTTGTAAAGAGTTCTGTTC
46523809 TTTCTAGAATCTTGTAAAGAGTTCTGTTC
1 TTTCTAGAATCTTGTAAAGAGTTCTGTTC
46523838 TT
1 TT
46523840 CTCCCAGCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (29 bp):
TTTCTAGAATCTTGTAAAGAGTTCTGTTC
Found at i:46529499 original size:19 final size:19
Alignment explanation
Indices: 46529475--46529513 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46529465 TCCTTTTCTT
46529475 AAAAAAATCATAAAAGTTA
1 AAAAAAATCATAAAAGTTA
* * *
46529494 AAAAAATTTATAAATGTTA
1 AAAAAAATCATAAAAGTTA
46529513 A
1 A
46529514 GATTCGAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAAAATCATAAAAGTTA
Found at i:46529755 original size:28 final size:30
Alignment explanation
Indices: 46529723--46529781 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
46529713 CAAATAAAGC
46529723 TTTAG-TTAAAATGCTAAAA-TTGAAATAT
1 TTTAGTTTAAAATGCTAAAAGTTGAAATAT
* * *
46529751 TTTAGTTTATAATGTTAAAAGTTGAGATAT
1 TTTAGTTTAAAATGCTAAAAGTTGAAATAT
46529781 T
1 T
46529782 AAAAATTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 12 0.46
30 9 0.35
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (30 bp):
TTTAGTTTAAAATGCTAAAAGTTGAAATAT
Found at i:46535078 original size:31 final size:29
Alignment explanation
Indices: 46535043--46535101 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
46535033 AATAGTAATT
*
46535043 TATTAATTTAATATTAAAGTGATTATCTTAG
1 TATTAAATTAA-ATTAAA-TGATTATCTTAG
* *
46535074 TATTAAATTAAATTTAATGTTTATCTTA
1 TATTAAATTAAATTAAATGATTATCTTA
46535102 TAGATAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.40
30 5 0.20
31 10 0.40
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAG
Found at i:46537781 original size:35 final size:35
Alignment explanation
Indices: 46537731--46537976 Score: 264
Period size: 35 Copynumber: 7.0 Consensus size: 35
46537721 CATTCCACAC
*
46537731 ACCTCATTCAATTAACATCTCGCCACAACACCAAT
1 ACCTCATTCATTTAACATCTCGCCACAACACCAAT
**
46537766 ACCTCATTCATTTAACAT-TCCGCCACAAGGCCAAT
1 ACCTCATTCATTTAACATCT-CGCCACAACACCAAT
* * * *
46537801 ACCTCGTACATTTAACATCTCGACACAATACCAAT
1 ACCTCATTCATTTAACATCTCGCCACAACACCAAT
* * *
46537836 ACCTCATTAATTTAACATCCCGCGACAACACCAAT
1 ACCTCATTCATTTAACATCTCGCCACAACACCAAT
* * * ** *
46537871 ACCTTATTCATTTAACATCCCACCACAATGCCAAC
1 ACCTCATTCATTTAACATCTCGCCACAACACCAAT
* **
46537906 ACTTCATTCATTTAACAT-TCTGTTACAACACCAAT
1 ACCTCATTCATTTAACATCTC-GCCACAACACCAAT
*
46537941 ACCTCGTTCATTTAACATC-CTGCCACAACACCAAT
1 ACCTCATTCATTTAACATCTC-GCCACAACACCAAT
46537976 A
1 A
46537977 TTTCATAACA
Statistics
Matches: 172, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
34 2 0.01
35 169 0.98
36 1 0.01
ACGTcount: A:0.35, C:0.34, G:0.05, T:0.26
Consensus pattern (35 bp):
ACCTCATTCATTTAACATCTCGCCACAACACCAAT
Found at i:46537918 original size:105 final size:105
Alignment explanation
Indices: 46537731--46537976 Score: 316
Period size: 105 Copynumber: 2.3 Consensus size: 105
46537721 CATTCCACAC
* * *
46537731 ACCTCATTCAA-TTAACATCTCGCCACAACACCAATACCTCATTCATTTAACATTCCGCCACAAG
1 ACCTCATT-AATTTAACATCCCGCCACAACACCAATACCTCATTCATTTAACATCCCACCACAAG
* * *
46537795 GCCAATACCTCGTACATTTAACA-TCTCGACACAATACCAAT
65 GCCAACACCTCATACATTTAACATTCT-GACACAACACCAAT
* * *
46537836 ACCTCATTAATTTAACATCCCGCGACAACACCAATACCTTATTCATTTAACATCCCACCACAATG
1 ACCTCATTAATTTAACATCCCGCCACAACACCAATACCTCATTCATTTAACATCCCACCACAAGG
* * **
46537901 CCAACACTTCATTCATTTAACATTCTGTTACAACACCAAT
66 CCAACACCTCATACATTTAACATTCTGACACAACACCAAT
* * *
46537941 ACCTCGTTCATTTAACATCCTGCCACAACACCAATA
1 ACCTCATTAATTTAACATCCCGCCACAACACCAATA
46537977 TTTCATAACA
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
104 2 0.02
105 117 0.96
106 3 0.02
ACGTcount: A:0.35, C:0.34, G:0.05, T:0.26
Consensus pattern (105 bp):
ACCTCATTAATTTAACATCCCGCCACAACACCAATACCTCATTCATTTAACATCCCACCACAAGG
CCAACACCTCATACATTTAACATTCTGACACAACACCAAT
Found at i:46548263 original size:4 final size:4
Alignment explanation
Indices: 46548254--46548283 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
46548244 ACTTTCCCTC
46548254 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
46548284 TTCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:46550205 original size:19 final size:19
Alignment explanation
Indices: 46550166--46550205 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
46550156 TACTTACCTA
**
46550166 ATCTTTCTATTTGTTTTGT
1 ATCTTTCTATTTGTTAGGT
46550185 ATCTTTCTATTTGTTAGGT
1 ATCTTTCTATTTGTTAGGT
46550204 AT
1 AT
46550206 GGCCGCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (19 bp):
ATCTTTCTATTTGTTAGGT
Found at i:46552053 original size:17 final size:18
Alignment explanation
Indices: 46552009--46552053 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
46551999 CAAACCCATT
46552009 TTTAATATTTATATTATA
1 TTTAATATTTATATTATA
*
46552027 TTT-ATCTTTATA-TATTA
1 TTTAATATTTATATTA-TA
46552044 TTTAAT-TTTA
1 TTTAATATTTA
46552054 GATCACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 17 0.71
18 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAATATTTATATTATA
Found at i:46553607 original size:25 final size:27
Alignment explanation
Indices: 46553555--46553622 Score: 104
Period size: 25 Copynumber: 2.6 Consensus size: 27
46553545 AAAAATAAAA
46553555 ATTTACCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATA-TATAACTTTTTTTT
46553583 ATTTACCAAAATAT-T-ACTTTTTTTT
1 ATTTACCAAAATATATAACTTTTTTTT
*
46553608 ATTTACGAAAATATA
1 ATTTACCAAAATATA
46553623 ACAAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
25 23 0.61
26 1 0.03
27 1 0.03
28 13 0.34
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.50
Consensus pattern (27 bp):
ATTTACCAAAATATATAACTTTTTTTT
Found at i:46553970 original size:3 final size:3
Alignment explanation
Indices: 46553964--46554004 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
46553954 ATTATTATTA
46553964 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
46554005 AGTATTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:46554156 original size:44 final size:44
Alignment explanation
Indices: 46554108--46554199 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
46554098 TTACCAAAAT
46554108 AAACTAGTTAGTAAAAAACTAGTATTATTATTCTATTTTTAGTA
1 AAACTAGTTAGTAAAAAACTAGTATTATTATTCTATTTTTAGTA
46554152 AAACTAGTTAGTAAAAAACTAGTATTATTATTCTATTTTTAGTA
1 AAACTAGTTAGTAAAAAACTAGTATTATTATTCTATTTTTAGTA
46554196 AAAC
1 AAAC
46554200 CTTAATTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (44 bp):
AAACTAGTTAGTAAAAAACTAGTATTATTATTCTATTTTTAGTA
Found at i:46554913 original size:18 final size:18
Alignment explanation
Indices: 46554890--46554924 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46554880 ATATGGTTGG
46554890 TGGTGAAGAAGAATGTGC
1 TGGTGAAGAAGAATGTGC
46554908 TGGTGAAGAAGAATGTG
1 TGGTGAAGAAGAATGTG
46554925 GTGGCGATCA
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:0.34, C:0.03, G:0.40, T:0.23
Consensus pattern (18 bp):
TGGTGAAGAAGAATGTGC
Found at i:46554926 original size:15 final size:16
Alignment explanation
Indices: 46554889--46554927 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
46554879 GATATGGTTG
46554889 GTGGTGAAGAAGAATGT
1 GTGGTGAAGAAGAA-GT
46554906 GCTGGTGAAGAAGAA-T
1 G-TGGTGAAGAAGAAGT
46554922 GTGGTG
1 GTGGTG
46554928 GCGATCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.24
16 2 0.10
17 1 0.05
18 13 0.62
ACGTcount: A:0.31, C:0.03, G:0.44, T:0.23
Consensus pattern (16 bp):
GTGGTGAAGAAGAAGT
Found at i:46557214 original size:6 final size:6
Alignment explanation
Indices: 46557203--46557231 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46557193 TCATTATTTG
46557203 GCTTAT GCTTAT GCTTAT GCTTAT GCTTA
1 GCTTAT GCTTAT GCTTAT GCTTAT GCTTA
46557232 AATTGTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
GCTTAT
Found at i:46557247 original size:11 final size:11
Alignment explanation
Indices: 46557231--46557257 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
46557221 GCTTATGCTT
46557231 AAATTGTATCC
1 AAATTGTATCC
46557242 AAATTGTATCC
1 AAATTGTATCC
46557253 AAATT
1 AAATT
46557258 AAGTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (11 bp):
AAATTGTATCC
Found at i:46557580 original size:35 final size:35
Alignment explanation
Indices: 46557541--46557611 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
46557531 TCGGCGCAGG
*
46557541 TGGGGGTGTGACAAATATAGAGGAAAAATCATCAT
1 TGGGGGTGTGACAAACATAGAGGAAAAATCATCAT
*
46557576 TGGGGGTGTGGCAAACATAGAGGAAAAATCATCAT
1 TGGGGGTGTGACAAACATAGAGGAAAAATCATCAT
46557611 T
1 T
46557612 CGCCGCCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.23
Consensus pattern (35 bp):
TGGGGGTGTGACAAACATAGAGGAAAAATCATCAT
Found at i:46560395 original size:26 final size:26
Alignment explanation
Indices: 46560365--46560440 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
46560355 TAATCAACAT
46560365 AAATACGTATAATGTACATAACATCA
1 AAATACGTATAATGTACATAACATCA
* * *
46560391 AAATA--TAT-ATGCTAAATAAAATATTA
1 AAATACGTATAATG-TACAT--AACATCA
*
46560417 AAATACGTATAATTTACATAACAT
1 AAATACGTATAATGTACATAACAT
46560441 AAATTTTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
23 3 0.08
24 7 0.18
26 19 0.50
28 7 0.18
29 2 0.05
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (26 bp):
AAATACGTATAATGTACATAACATCA
Found at i:46560485 original size:17 final size:18
Alignment explanation
Indices: 46560455--46560488 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46560445 TTTTAACAAA
46560455 TAAATATTACAAAAAAAT
1 TAAATATTACAAAAAAAT
*
46560473 TAAAT-TTATAAAAAAA
1 TAAATATTACAAAAAAA
46560489 AATTACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATATTACAAAAAAAT
Found at i:46560511 original size:10 final size:10
Alignment explanation
Indices: 46560496--46560543 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
46560486 AAAAATTACA
46560496 TTTTTTTCCT
1 TTTTTTTCCT
46560506 TTTTTTTCCT
1 TTTTTTTCCT
** *
46560516 TCCTTCTCTCT
1 TTTTTTTC-CT
*
46560527 TTTTCTTCCT
1 TTTTTTTCCT
46560537 TTTTTTT
1 TTTTTTT
46560544 TTTCTCTTCT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 23 0.79
11 6 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTCCT
Found at i:46560553 original size:31 final size:29
Alignment explanation
Indices: 46560496--46560558 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
46560486 AAAAATTACA
46560496 TTTTTTTCCTTTTTTTTCCTTCCTTCTCTC
1 TTTTTTTCCTTTTTTTTCCTTCCTTCTC-C
*
46560526 TTTTTCTTCCTTTTTTTT-TTTCTCTTCTCC
1 TTTTT-TTCCTTTTTTTTCCTTC-CTTCTCC
46560556 TTT
1 TTT
46560559 CCTTTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTTTTTCCTTTTTTTTCCTTCCTTCTCC
Found at i:46560557 original size:41 final size:41
Alignment explanation
Indices: 46560515--46560661 Score: 124
Period size: 41 Copynumber: 3.6 Consensus size: 41
46560505 TTTTTTTTCC
46560515 TTCCTTCTCTCTTTTTCTTCCTTTTTTTTTTTCTCTTCTCCT
1 TTCCTTCT-TCTTTTTCTTCCTTTTTTTTTTTCTCTTCTCCT
* * *
46560557 TTCCTT-TTC-TTTCCTTCTTTTTCTTTCTTTTTTCTTCTCCT
1 TTCCTTCTTCTTTTTCTTCCTTTT-TTT-TTTTCTCTTCTCCT
* * * *
46560598 TTCC-TCTTCTTCTTCTTTC-TTTCTTTTTCCTCCTT-TCCTT
1 TTCCTTCTTCTTTTTCTTCCTTTTTTTTTTTCT-CTTCTCC-T
* *
46560638 TTCTTTCCTTCTTTTTCTTTCTTT
1 TTCCTT-CTTCTTTTTCTTCCTTT
46560662 CCTCTCCTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
39 18 0.21
40 15 0.18
41 25 0.30
42 24 0.29
43 2 0.02
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (41 bp):
TTCCTTCTTCTTTTTCTTCCTTTTTTTTTTTCTCTTCTCCT
Found at i:46560570 original size:10 final size:10
Alignment explanation
Indices: 46560555--46560688 Score: 50
Period size: 10 Copynumber: 14.5 Consensus size: 10
46560545 TTCTCTTCTC
46560555 CTTTCCTTTT
1 CTTTCCTTTT
46560565 CTTTCCTTCTT
1 CTTTCCTT-TT
46560576 -TTT-C-TTT
1 CTTTCCTTTT
46560583 C-TT--TTTT
1 CTTTCCTTTT
*
46560590 CTTCTCCTTTC
1 CTT-TCCTTTT
46560601 CTCTT-CTTCTT
1 CT-TTCCTT-TT
46560612 CTTT-CTTTCT
1 CTTTCCTTT-T
* *
46560622 TTTTCC--TC
1 CTTTCCTTTT
46560630 CTTTCCTTTT
1 CTTTCCTTTT
46560640 CTTTCCTTCTT
1 CTTTCCTT-TT
46560651 -TTT-C-TTT
1 CTTTCCTTTT
*
46560658 CTTTCC-TCT
1 CTTTCCTTTT
*
46560667 CCTTCC-TTT
1 CTTTCCTTTT
46560676 CTTT-C-TTT
1 CTTTCCTTTT
46560684 CTTTC
1 CTTTC
46560689 TTTCCCTCTC
Statistics
Matches: 97, Mismatches: 10, Indels: 35
0.68 0.07 0.25
Matches are distributed among these distances:
7 10 0.10
8 19 0.20
9 18 0.19
10 35 0.36
11 14 0.14
12 1 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:46560578 original size:36 final size:36
Alignment explanation
Indices: 46560504--46560687 Score: 166
Period size: 36 Copynumber: 5.1 Consensus size: 36
46560494 CATTTTTTTC
* * * *
46560504 CTTTTT-TTTCCTTCCTTCTCTCTTTTTC-TTCCTT
1 CTTTTTCTTTCTTTCCTCCTTTCCTTTTCTTTCCTT
*
46560538 -TTTTTTTTTCTCTT-CTCCTTTCCTTTTCTTTCCTT
1 CTTTTTCTTTCT-TTCCTCCTTTCCTTTTCTTTCCTT
* * *
46560573 CTTTTTCTTTCTTT-TTTCTTCTCCTTTCCTCTT-CTT
1 CTTTTTCTTTCTTTCCTCCTT-TCCTTTTCT-TTCCTT
46560609 CTTCTTTCTTTCTTTTTCCTCCTTTCCTTTTCTTTCCTT
1 CTT-TTTCTTTC--TTTCCTCCTTTCCTTTTCTTTCCTT
* *
46560648 CTTTTTCTTTCTTTCCTCTCCTTCC-TTTCTTTCTTT
1 CTTTTTCTTTCTTTCCTC-CTTTCCTTTTCTTTCCTT
46560684 CTTT
1 CTTT
46560688 CTTTCCCTCT
Statistics
Matches: 125, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
33 5 0.04
34 15 0.12
35 14 0.11
36 45 0.36
37 15 0.12
38 10 0.08
39 17 0.14
40 4 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (36 bp):
CTTTTTCTTTCTTTCCTCCTTTCCTTTTCTTTCCTT
Found at i:46560580 original size:14 final size:14
Alignment explanation
Indices: 46560561--46560658 Score: 81
Period size: 14 Copynumber: 6.6 Consensus size: 14
46560551 TCTCCTTTCC
46560561 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
* *
46560575 TTTTCTTTCTTTTT
1 TTTTCTTTCCTTCT
46560589 TCTTCTCCTTTCCTCTTCT
1 T-TT-T-CTTT-C-CTTCT
* *
46560608 TCTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
* *
46560622 TTTTC-CTCCTTTCC
1 TTTTCTTTCC-TTCT
46560636 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
46560650 TTTTCTTTC
1 TTTTCTTTC
46560659 TTTCCTCTCC
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
13 2 0.03
14 41 0.63
15 6 0.09
16 5 0.08
17 5 0.08
18 2 0.03
19 4 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:46560583 original size:4 final size:4
Alignment explanation
Indices: 46560562--46560692 Score: 73
Period size: 4 Copynumber: 33.0 Consensus size: 4
46560552 CTCCTTTCCT
*
46560562 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* * *
46560607 -TTC -TTC TTTC TTTC -TT- TTTC CTCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C -TTTC TTTC TTTC TTTC
* *
46560651 TTTC TTTC TTTCC TCTCC TTCC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
46560693 CCTCTCCTTC
Statistics
Matches: 104, Mismatches: 8, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
3 21 0.20
4 62 0.60
5 12 0.12
6 9 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:46560644 original size:18 final size:18
Alignment explanation
Indices: 46560543--46560680 Score: 72
Period size: 18 Copynumber: 7.5 Consensus size: 18
46560533 TCCTTTTTTT
46560543 TTTTCTCTT-CTCCTTTCC
1 TTTTCT-TTCCTCCTTTCC
* *
46560561 TTTTCTTTCCTTCTTTTTCT
1 TTTTCTTTCC-TC-CTTTCC
*
46560581 TTCTTTTTTCTTCTCCTTTCC
1 TT-TTCTTTC--CTCCTTTCC
* *
46560602 TCTTC-TT-CTTCTTT-C
1 TTTTCTTTCCTCCTTTCC
*
46560617 TTTCTTTTTCCTCCTTTCC
1 TTT-TCTTTCCTCCTTTCC
* *
46560636 TTTTCTTTCCTTCTTT-T
1 TTTTCTTTCCTCCTTTCC
*
46560653 TCTTTCTTTCCTCTCCTTCC
1 T-TTTCTTTCCTC-CTTTCC
46560673 -TTTCTTTC
1 TTTTCTTTC
46560681 TTTCTTTCTT
Statistics
Matches: 90, Mismatches: 17, Indels: 26
0.68 0.13 0.20
Matches are distributed among these distances:
15 3 0.03
16 7 0.08
17 5 0.06
18 42 0.47
19 11 0.12
20 8 0.09
21 11 0.12
22 2 0.02
23 1 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCTTTCCTCCTTTCC
Found at i:46560647 original size:75 final size:68
Alignment explanation
Indices: 46560552--46560691 Score: 208
Period size: 75 Copynumber: 2.0 Consensus size: 68
46560542 TTTTTCTCTT
*
46560552 CTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTTC
1 CTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTC---TTTCCTCTCC-TTCCT-TTC-T-TTCTTTC
46560617 TTTCTTTTTC
59 TTTCTTTTTC
46560627 CTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTCCTTTCTTTCTTTCTTTCTTT
1 CTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTCCTTTCTTTCTTTCTTTCTTT
46560692 CCCTCTCCTT
Statistics
Matches: 64, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
68 14 0.22
69 1 0.02
70 3 0.05
71 5 0.08
72 9 0.14
75 32 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (68 bp):
CTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTCCTTTCTTTCTTTCTTTCTTT
TTC
Found at i:46560879 original size:25 final size:23
Alignment explanation
Indices: 46560851--46560897 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46560841 TTTTTTTGGT
*
46560851 ATATTTTGGGTAATTTAAAAAAAAA
1 ATATTTT-GGTAA-ATAAAAAAAAA
46560876 ATATTTTGGTAAATAAAAAAAA
1 ATATTTTGGTAAATAAAAAAAA
46560898 GGGATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (23 bp):
ATATTTTGGTAAATAAAAAAAAA
Found at i:46560894 original size:24 final size:25
Alignment explanation
Indices: 46560851--46560897 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
46560841 TTTTTTTGGT
* *
46560851 ATATTTTGGGTAATTTAAAAAAAAA
1 ATATTTTGGGTAAATAAAAAAAAAA
46560876 ATATTTT-GGTAAATAAAAAAAA
1 ATATTTTGGGTAAATAAAAAAAA
46560898 GGGATAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (25 bp):
ATATTTTGGGTAAATAAAAAAAAAA
Found at i:46565544 original size:44 final size:44
Alignment explanation
Indices: 46565481--46565574 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
46565471 GTCTCGACTT
46565481 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
46565525 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
46565569 TCATTT
1 TCATTT
46565575 ATTGAATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:46565568 original size:22 final size:22
Alignment explanation
Indices: 46565499--46565569 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
46565489 ATATGCTTAT
46565499 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
46565521 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
46565543 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
46565565 CAAAT
1 CAAAT
46565570 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:46565578 original size:21 final size:22
Alignment explanation
Indices: 46565553--46565596 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46565543 CAAATATAAG
* *
46565553 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATAATT
46565574 TATTGAATATAACCAAATAATT
1 TATTGAATATAACCAAATAATT
46565596 T
1 T
46565597 TCATATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATAATT
Found at i:46566203 original size:13 final size:13
Alignment explanation
Indices: 46566185--46566209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46566175 ACACTCAAAT
46566185 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
46566198 TTCTCAAAAGCA
1 TTCTCAAAAGCA
46566210 ATAAAGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:46569009 original size:23 final size:25
Alignment explanation
Indices: 46568952--46569009 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
46568942 CGTTGTCATG
* *
46568952 ATTTAAAAATAAAATGAATTATTAC
1 ATTTAAAATTAAAATGAATTATAAC
* *
46568977 ATTCAAAATTAAAAT-ATTTATAAC
1 ATTTAAAATTAAAATGAATTATAAC
46569001 -TTTAAAATT
1 ATTTAAAATT
46569010 TCAAAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 8 0.29
24 7 0.25
25 13 0.46
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTAAAATTAAAATGAATTATAAC
Found at i:46572045 original size:48 final size:48
Alignment explanation
Indices: 46571974--46572069 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
46571964 TCTTTAAGGT
46571974 GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
1 GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
* * *
46572022 GCAATTTTTATACGGGAAGAAAAAGAAAAGTGTTTATAGGTTTGCTTA
1 GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
46572070 ATAAAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (48 bp):
GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
Found at i:46575828 original size:21 final size:21
Alignment explanation
Indices: 46575803--46575842 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46575793 CATTCTTGAT
* *
46575803 AATAATTAATAATATTGATTA
1 AATAATAAATAATAGTGATTA
46575824 AATAATAAATAATAGTGAT
1 AATAATAAATAATAGTGAT
46575843 ATTTTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
AATAATAAATAATAGTGATTA
Found at i:46577013 original size:21 final size:22
Alignment explanation
Indices: 46576987--46577044 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
46576977 CCCAACAAGG
*
46576987 TTGTTTTCAAAATTCAATAC-T
1 TTGTTTTCAAAATTCAACACAT
*
46577008 TTGTTTTCAAAACTCAACACTAT
1 TTGTTTTCAAAATTCAACAC-AT
*
46577031 TTGTTTACAAAATT
1 TTGTTTTCAAAATT
46577045 GATATTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.58
23 13 0.42
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (22 bp):
TTGTTTTCAAAATTCAACACAT
Found at i:46580967 original size:13 final size:13
Alignment explanation
Indices: 46580949--46580975 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46580939 AACATAGGAT
46580949 TTTATTTTTCTAG
1 TTTATTTTTCTAG
46580962 TTTATTTTTCTAG
1 TTTATTTTTCTAG
46580975 T
1 T
46580976 GTTTCTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTATTTTTCTAG
Found at i:46586014 original size:26 final size:26
Alignment explanation
Indices: 46585978--46586029 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46585968 GATGAGGTGA
*
46585978 TGATACCTGACTTTTTTTTATACACT
1 TGATACCTGACTTTTGTTTATACACT
46586004 TGATACCTGACTTTTGTTTATACACT
1 TGATACCTGACTTTTGTTTATACACT
46586030 GAGTATACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (26 bp):
TGATACCTGACTTTTGTTTATACACT
Found at i:46586384 original size:23 final size:26
Alignment explanation
Indices: 46586358--46586406 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
46586348 TTGTGACTTG
*
46586358 ATATT-AAATG-ATTTCGTA-TAATT
1 ATATTCAAATGTATCTCGTACTAATT
46586381 ATATTCAAATGTATCTCGTACTAATT
1 ATATTCAAATGTATCTCGTACTAATT
46586407 TGTGTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 5 0.23
25 7 0.32
26 5 0.23
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (26 bp):
ATATTCAAATGTATCTCGTACTAATT
Found at i:46592774 original size:64 final size:64
Alignment explanation
Indices: 46592646--46592775 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
46592636 GCGAGCATCT
* * * * ** *
46592646 TGATCGGTATTGATCATGCATATGTTGCAGACATACCGCAGCTCTTTGTGAGAGTCTTGTTATA
1 TGATCGATATGGATCATGCATATATTGCAGACATACCGCAGCTCTTTATGAGAGTCCCGATATA
* * *
46592710 TGATCGATATGGATCCTGCATATATTGCGGACATACCGCAGCTCTTTATGAGTGTCCCGATATA
1 TGATCGATATGGATCATGCATATATTGCAGACATACCGCAGCTCTTTATGAGAGTCCCGATATA
46592774 TG
1 TG
46592776 GCTCTTAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (64 bp):
TGATCGATATGGATCATGCATATATTGCAGACATACCGCAGCTCTTTATGAGAGTCCCGATATA
Found at i:46592797 original size:26 final size:25
Alignment explanation
Indices: 46592750--46592827 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 25
46592740 ACATACCGCA
*
46592750 GCTCTTTATGAG-TGTCCCGATATATG
1 GCTC-TTATGAGCT-TCCTGATATATG
46592776 GCTCTTAATGAGCTTCCTG--ATATG
1 GCTCTT-ATGAGCTTCCTGATATATG
* *
46592800 GCTCGGT-TGAACTTCCTGATATATG
1 GCTC-TTATGAGCTTCCTGATATATG
46592825 GCT
1 GCT
46592828 ATCTGGAGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
23 10 0.23
24 9 0.20
25 11 0.25
26 13 0.30
27 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCTGATATATG
Found at i:46600695 original size:22 final size:22
Alignment explanation
Indices: 46600670--46600713 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46600660 AAATATACAC
*
46600670 ATACTTACA-TTTTTATTTTATA
1 ATACTTACAGATTTT-TTTTATA
46600692 ATACTTACAGATTTTTTTTATA
1 ATACTTACAGATTTTTTTTATA
46600714 TGTGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (22 bp):
ATACTTACAGATTTTTTTTATA
Found at i:46601232 original size:107 final size:107
Alignment explanation
Indices: 46601046--46601363 Score: 456
Period size: 107 Copynumber: 3.0 Consensus size: 107
46601036 TTTTTTTTCT
* * * *
46601046 AAATAAGGCAATATTTCGCATTTGGAAAATCAAGAAAACGTGCCCTAACATGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
46601111 TCTCGCTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * *
46601153 AAATAAGGCAATATTTCGCGTTCGAAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
* *
46601218 TCTCGTTTGACCAAATAGCCAAATATTCTTTTTAAAATTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * *
46601260 AAATATGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTTCCCTAGCGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
* * * *
46601325 TCTCGTTCGACTAAATAGCCAAATATCCTCTTAAAACTT
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTT
46601364 CAAAGTATGG
Statistics
Matches: 184, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 184 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:46607065 original size:44 final size:45
Alignment explanation
Indices: 46606994--46607124 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
46606984 AATGAAGCTA
* * * *
46606994 CAGATCTTGCCTTCTTACACTGGCAGTGAAGCGGATCGAAGACAC
1 CAGATCTTGCCTTCCTATACTGACAGTGAAGCAGATCGAAGACAC
* * * * *
46607039 CAG-TCTTGCCTTCCTGTACTGACAGTGGAGCAGA-CTAAAGATAG
1 CAGATCTTGCCTTCCTATACTGACAGTGAAGCAGATC-GAAGACAC
* *
46607083 CAGATCTTGCCTTCCTATACTGACGGCGAAGCAGATCGAAGA
1 CAGATCTTGCCTTCCTATACTGACAGTGAAGCAGATCGAAGA
46607125 TGGCAGATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
43 1 0.01
44 33 0.48
45 34 0.49
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.23
Consensus pattern (45 bp):
CAGATCTTGCCTTCCTATACTGACAGTGAAGCAGATCGAAGACAC
Found at i:46607095 original size:45 final size:45
Alignment explanation
Indices: 46606994--46607158 Score: 129
Period size: 45 Copynumber: 3.7 Consensus size: 45
46606984 AATGAAGCTA
* ** * * * * * *
46606994 CAGATCTTGCCTTCTTACACTGGCAGTGAAGCGGATCGAAGACAC
1 CAGATCTTGCCTTCCTGTACTGACAGTGGAGCAGATCAAAGATAG
46607039 CAG-TCTTGCCTTCCTGTACTGACAGTGGAGCAGA-CTAAAGATAG
1 CAGATCTTGCCTTCCTGTACTGACAGTGGAGCAGATC-AAAGATAG
* * * * * *
46607083 CAGATCTTGCCTTCCTATACTGACGGCGAAGCAGATCGAAGATGG
1 CAGATCTTGCCTTCCTGTACTGACAGTGGAGCAGATCAAAGATAG
* * *
46607128 CAGATTTTACCTCCCTGTGACT-ACAGTGGAG
1 CAGATCTTGCCTTCCTGT-ACTGACAGTGGAG
46607159 TACATTGAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
43 1 0.01
44 33 0.35
45 56 0.60
46 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (45 bp):
CAGATCTTGCCTTCCTGTACTGACAGTGGAGCAGATCAAAGATAG
Found at i:46607242 original size:95 final size:95
Alignment explanation
Indices: 46607120--46607685 Score: 956
Period size: 95 Copynumber: 6.0 Consensus size: 95
46607110 GAAGCAGATC
*
46607120 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
*
46607185 CCTGGTTGGTAGTGGAATAGATTGAATATT
66 CCTGGTTGGCAGTGGAATAGATTGAATATT
*
46607215 GAAGATGGCGGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
46607280 CCTGGTTGGCAGTGGAATAGATTGAATATT
66 CCTGGTTGGCAGTGGAATAGATTGAATATT
* *
46607310 GAATATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
*
46607375 CCTGGTTGGCAGTGGAATAGATTGAAGATT
66 CCTGGTTGGCAGTGGAATAGATTGAATATT
* *
46607405 GAATATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
46607470 CCTGGTTGGCAGTGGAATAGATTGAATATT
66 CCTGGTTGGCAGTGGAATAGATTGAATATT
46607500 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
*
46607565 CCTGGTTGGCAGTGGAATAGATTGAAGATT
66 CCTGGTTGGCAGTGGAATAGATTGAATATT
* **
46607595 AAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGA-AATTCTA-CT
1 GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCA-ATAATTCTATC-
****
46607658 TCCCTGGGCAACAGTGGAATAGATTGAA
64 TCCCTGGTTGGCAGTGGAATAGATTGAA
46607686 GATTATAGAT
Statistics
Matches: 449, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
94 1 0.00
95 447 1.00
96 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (95 bp):
GAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTC
CCTGGTTGGCAGTGGAATAGATTGAATATT
Found at i:46607767 original size:132 final size:132
Alignment explanation
Indices: 46607596--46607951 Score: 595
Period size: 132 Copynumber: 2.7 Consensus size: 132
46607586 TTGAAGATTA
* * * * *
46607596 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGAAATTCTACTTCC
1 AAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAGCCAGAAATTCTACTTCC
*
46607661 CTGGGCAACAGTGGAATAGATTGAAGATTATAGATATTATCTCCCTAAGCAATAGTGGAGCAGAT
66 CTGGGCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTGGAGCAGAT
46607726 CG
131 CG
* *
46607728 AAGATGGCGGATTTTACCTCTCTAAGATTACAATAGAGTACATTGAAGCCAGAAATTCTACTTCC
1 AAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAGCCAGAAATTCTACTTCC
46607793 CTGGGCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTGGAGCAGAT
66 CTGGGCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTGGAGCAGAT
46607858 CG
131 CG
* * * *
46607860 AAGATGGCGGATTTTACCTCTCGGAGATTACAGTAGAGTACATTGAAGCTAGTAGTTCTACTTCC
1 AAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAGCCAGAAATTCTACTTCC
*
46607925 CTGGACAACAGTGGAATAGATTGAAGA
66 CTGGGCAACAGTGGAATAGATTGAAGA
46607952 GCAGACTAAA
Statistics
Matches: 209, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 209 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
AAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAGCCAGAAATTCTACTTCC
CTGGGCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTGGAGCAGAT
CG
Found at i:46607850 original size:44 final size:44
Alignment explanation
Indices: 46607665--46607851 Score: 121
Period size: 44 Copynumber: 4.2 Consensus size: 44
46607655 ACTTCCCTGG
*
46607665 GCAACAGTGGAATAGATTGAAGATTATAGATATTATCTCCCTAA
1 GCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAA
* ** * ** * * * *
46607709 GCAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTAA
1 GCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAA
* * * * * * * **
46607753 G-ATTACAATAGAGTACATTGAAG---CCAGAAATTCTACTTCCCTGG
1 GCA--ACAGTGGAATAGATTGAAGATTACAGATATTAT-C-TCCCTAA
46607797 GCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAA
1 GCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAA
*
46607841 GCAATAGTGGA
1 GCAACAGTGGA
46607852 GCAGATCGAA
Statistics
Matches: 99, Mismatches: 36, Indels: 16
0.66 0.24 0.11
Matches are distributed among these distances:
42 5 0.05
43 17 0.17
44 54 0.55
45 15 0.15
46 8 0.08
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (44 bp):
GCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAA
Found at i:46610102 original size:106 final size:105
Alignment explanation
Indices: 46609844--46610155 Score: 489
Period size: 106 Copynumber: 2.9 Consensus size: 105
46609834 AAGTTTTTCT
* *
46609844 AAATAAGGCAATATTCGCGTTTGGAAAATCAAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTT
1 AAATAAGGCAATATTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTT
*
46609909 CTCGCTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 CTCGTTTGACCAAATAGCCAAATATCC-TTTTAAACTTTTA
* * *
46609950 AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATA-TTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
* *
46610015 TCTCATTTGACCAAATAGCCAAATATTCTTTTAAACTTTTA
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTAAACTTTTA
*
46610056 AAATATGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATA-TTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
* * *
46610121 TCTCGTTCGACTAAATAGCCAAATATCCTCTTAAA
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTAAA
46610156 GCTTCAAAGT
Statistics
Matches: 187, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
106 116 0.62
107 71 0.38
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (105 bp):
AAATAAGGCAATATTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTT
CTCGTTTGACCAAATAGCCAAATATCCTTTTAAACTTTTA
Found at i:46610937 original size:31 final size:30
Alignment explanation
Indices: 46610882--46610950 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
46610872 ATACATGAAC
46610882 TTTGATTTTGTACAAATATATACAT-TAAAT
1 TTTGATTTTGTACAAATATATACATAT-AAT
*
46610912 TTTGATTTTG-ACTCAAATATGTACATATAAT
1 TTTGATTTTGTA--CAAATATATACATATAAT
*
46610943 TCTGATTT
1 TTTGATTT
46610951 AATTCAACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 1 0.03
30 10 0.29
31 22 0.65
32 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (30 bp):
TTTGATTTTGTACAAATATATACATATAAT
Found at i:46611168 original size:7 final size:7
Alignment explanation
Indices: 46611156--46611180 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46611146 CGTATATAAC
46611156 ATTGCAT
1 ATTGCAT
46611163 ATTGCAT
1 ATTGCAT
46611170 ATTGCAT
1 ATTGCAT
46611177 ATTG
1 ATTG
46611181 AATCAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (7 bp):
ATTGCAT
Found at i:46615021 original size:126 final size:126
Alignment explanation
Indices: 46614823--46615050 Score: 429
Period size: 126 Copynumber: 1.8 Consensus size: 126
46614813 TAATTTCGAG
* *
46614823 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGAAGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
46614888 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
*
46614949 TTGAAGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTTTG
1 TTGAAGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
46615014 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
46615051 CATGTTTGGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 99 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (126 bp):
TTGAAGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:46618286 original size:116 final size:116
Alignment explanation
Indices: 46618082--46618321 Score: 426
Period size: 116 Copynumber: 2.1 Consensus size: 116
46618072 TGATAAATTG
* *
46618082 TATTAACTCAAAAAATTTTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
*
46618147 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
*
46618198 TATTAACTCTAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
1 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
* *
46618263 TAGTAGCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTACAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
46618314 TATTAACT
1 TATTAACT
46618322 TAGTTTAGGG
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:46618341 original size:23 final size:22
Alignment explanation
Indices: 46618315--46618669 Score: 145
Period size: 22 Copynumber: 15.2 Consensus size: 22
46618305 ATGTACAATT
* *
46618315 ATTAACTTAGTTTAGGGGTTTTA
1 ATTAAATTAGGTTA-GGGTTTTA
46618338 ATTAAATTAGGTTAGGGTTTTAA
1 ATTAAATTAGGTTAGGGTTTT-A
*
46618361 AGTT-AA--GGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGG-TTTTA
**
46618382 AGTT-AA-GGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGG-TTTTA
46618404 ATTAAATTAGGTTAGGGTTAGGGTTTTTA
1 ATT-AA--A--TTA-GGTTAGGG-TTTTA
46618433 ATTAAATTAGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTTTA
46618453 -TTAAAGTTAAGGTTTAGGGTTTTA
1 ATTAAA-TT-AGG-TTAGGGTTTTA
46618477 AGTT--A--AGGTTTAGGGTTATTA
1 A-TTAAATTAGG-TTAGGGTT-TTA
46618498 ATTAAATTAGGTTAGGGTTAGGGTTTTA
1 ATT-AA--A--TTA-GGTTAGGGTTTTA
46618526 ATTAAATTAGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTTTA
46618546 -TTAAAGTTAAGGTTTAGGG-TTT-
1 ATTAAA-TT-AGG-TTAGGGTTTTA
*
46618568 -TTAAGTTAAGGTTTAGGGTTTTTA
1 ATTAAATT-AGG-TTAGGG-TTTTA
46618592 ATTAAATTAGGTTAGGATTAGGGTTTTTA
1 ATT-AA--A--TTAGG-TTAGGG-TTTTA
46618621 ATTAAATTAGGTTAGGG-TTTA
1 ATTAAATTAGGTTAGGGTTTTA
* *
46618642 GGGTTAAATTAGGTTAGGGTTTTT
1 --ATTAAATTAGGTTAGGGTTTTA
46618666 ATTA
1 ATTA
46618670 CATCAAATAA
Statistics
Matches: 276, Mismatches: 11, Indels: 91
0.73 0.03 0.24
Matches are distributed among these distances:
19 10 0.04
20 18 0.07
21 50 0.18
22 57 0.21
23 56 0.20
24 14 0.05
25 5 0.02
26 6 0.02
27 2 0.01
28 10 0.04
29 44 0.16
30 4 0.01
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (22 bp):
ATTAAATTAGGTTAGGGTTTTA
Found at i:46618373 original size:21 final size:22
Alignment explanation
Indices: 46618347--46618589 Score: 101
Period size: 21 Copynumber: 10.5 Consensus size: 22
46618337 AATTAAATTA
46618347 GGTTAGGGTTTTAAAGTTAA-G
1 GGTTAGGGTTTTAAAGTTAAGG
*
46618368 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTAAAGTTAAGG
*
46618390 GGTTAGGGTTTTTAA-TTAAATTAGG
1 GGTTAGGGTTTTAAAGTT--A--AGG
* **
46618415 TTAGGGTTAGGGTTTTTAA-TTAAATTA
1 ---G-GTTAGGGTTTTAAAGTT-AA-GG
46618442 GGTTAGGGTTTTTAAAGTTAA-G
1 GGTTAGGG-TTTTAAAGTTAAGG
*
46618464 GTTTAGGGTTTT-AAGTTAA-G
1 GGTTAGGGTTTTAAAGTTAAGG
* * *
46618484 GTTTAGGGTTATTAATTAAATTAGGTTAG
1 GGTTAGGGTT-TT-A--AAGTTAAG---G
**
46618513 GGTTAGGGTTTT-AA-TTAAATTA
1 GGTTAGGGTTTTAAAGTT-AA-GG
46618535 GGTTAGGGTTTTTAAAGTTAA-G
1 GGTTAGGG-TTTTAAAGTTAAGG
* *
46618557 GTTTAGGGTTTTTAAGTTAA-G
1 GGTTAGGGTTTTAAAGTTAAGG
*
46618578 GTTTAGGGTTTT
1 GGTTAGGGTTTT
46618590 TAATTAAATT
Statistics
Matches: 181, Mismatches: 15, Indels: 52
0.73 0.06 0.21
Matches are distributed among these distances:
20 18 0.10
21 51 0.28
22 38 0.21
23 14 0.08
24 16 0.09
25 12 0.07
26 1 0.01
28 5 0.03
29 26 0.14
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (22 bp):
GGTTAGGGTTTTAAAGTTAAGG
Found at i:46618421 original size:29 final size:29
Alignment explanation
Indices: 46618389--46618544 Score: 136
Period size: 29 Copynumber: 5.2 Consensus size: 29
46618379 TTAAGTTAAG
46618389 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
46618418 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
** ***** *
46618447 GGGTTTTTAAAGTTAAGGTTT-AGGGTTTTAAGTTAA
1 GGG---TTAGGGTT----TTTAATTAAATTAGGTT-A
* *
46618483 GGTTTAGGGTTATTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
46618512 GGGTTAGGG-TTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
46618540 GGGTT
1 GGGTT
46618545 TTTAAAGTTA
Statistics
Matches: 98, Mismatches: 20, Indels: 19
0.72 0.15 0.14
Matches are distributed among these distances:
28 23 0.23
29 43 0.44
30 7 0.07
32 6 0.06
33 6 0.06
35 7 0.07
36 6 0.06
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (29 bp):
GGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:46618515 original size:94 final size:95
Alignment explanation
Indices: 46618326--46618640 Score: 555
Period size: 94 Copynumber: 3.3 Consensus size: 95
46618316 TTAACTTAGT
* *
46618326 TTAGGGGTTTTAATTAAATTAGGTTAGGG-TTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAA-G
*
46618390 GGTTAGGGTTTTTAATTAAATTAGGTTAGGG
65 GTTTAGGGTTTTTAATTAAATTAGGTTAGGG
46618421 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGG-TTTTAAGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGG
*
46618485 TTTAGGGTTATTAATTAAATTAGGTTAGGG
66 TTTAGGGTTTTTAATTAAATTAGGTTAGGG
46618515 TTAGGG-TTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGG
*
46618579 TTTAGGGTTTTTAATTAAATTAGGTTAGGA
66 TTTAGGGTTTTTAATTAAATTAGGTTAGGG
46618609 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
46618641 AGGGTTAAAT
Statistics
Matches: 211, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
93 44 0.21
94 83 0.39
95 64 0.30
96 20 0.09
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (95 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGG
TTTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:46618530 original size:28 final size:29
Alignment explanation
Indices: 46618486--46618544 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
46618476 AAGTTAAGGT
46618486 TTAGGGTTATTAATTAAATTAGGTTAGGG
1 TTAGGGTTATTAATTAAATTAGGTTAGGG
46618515 TTAGGGTT-TTAATTAAATTAGGTTAGGG
1 TTAGGGTTATTAATTAAATTAGGTTAGGG
46618543 TT
1 TT
46618545 TTTAAAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (29 bp):
TTAGGGTTATTAATTAAATTAGGTTAGGG
Found at i:46618590 original size:21 final size:21
Alignment explanation
Indices: 46618537--46618596 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
46618527 TTAAATTAGG
46618537 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTT-AAGTTAAGGT
46618559 TTAGGGTTTTTAAGTTAAGGT
1 TTAGGGTTTTTAAGTTAAGGT
46618580 TTAGGGTTTTTAA-TTAA
1 TTAGGGTTTTTAAGTTAA
46618597 ATTAGGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.11
21 23 0.61
22 11 0.29
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGT
Done.