Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 149 of 444
Found at i:40278989 original size:28 final size:28
Alignment explanation
Indices: 40278891--40278989 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
40278881 TCACAAATTG
* * *
40278891 GCACTAAGTGTGCGGGTTCAAATGGTATA
1 GCACTAAGTGTGCGAGTTCGAAT-ATATA
* * *
40278920 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGAATATATA
*
40278948 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGAATATAT-A
40278976 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40278990 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.68
29 18 0.30
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGAATATATA
Found at i:40294340 original size:40 final size:40
Alignment explanation
Indices: 40294257--40294442 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
40294247 TCGAATGATG
* * * *
40294257 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
40294297 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40294337 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40294377 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40294418 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40294443 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40300006 original size:155 final size:155
Alignment explanation
Indices: 40299761--40300096 Score: 460
Period size: 155 Copynumber: 2.2 Consensus size: 155
40299751 TGTTACATTT
* * *
40299761 TTATTTTTCAAAATCTAAACTTTC-TCATTTTTAAAAGAAAAACATTATTTTTTAAAAATATTAA
1 TTATTTTTCAAAATCTAAACTTTCTTCATTTTTAAAAAAAAAACACTATTTTTTAAAAAGATTAA
* * * * *
40299825 AGCTTTTATTTTGAAGTAGTTAAAAAAGAAATCAAAATTTTGTTTTAAAAATTTAAGCTTTCCTT
66 AGCTTTTACTTTGAAATAGTTAAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTT
*
40299890 TAAAATAACT-AAAAAAATAGATTC
131 TAAAATAACTAAAAAAAACAGATTC
* ** * **
40299914 TTATTTTTCAAAATCTAAAATTTCTTTTTTTTTAAAAAAAAAAGTACTATTTTTTTTAAAGATTA
1 TTATTTTTCAAAATCTAAACTTTCTTCATTTTTAAAAAAAAAA-CACTATTTTTTAAAAAGATTA
*
40299979 AAGCTTTTACTTTGAAATAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCT
65 AAGCTTTTACTTTGAAATAGTTAAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCT
* * *
40300044 TTGAAATAACTAAAAAAAAACATATTT
130 TTAAAATAACT-AAAAAAAACAGATTC
40300071 TTATTTTTTCAAAATCTAAACTTTCT
1 TTA-TTTTTCAAAATCTAAACTTTCT
40300097 CCTTAAAAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
153 23 0.15
154 15 0.09
155 85 0.54
157 14 0.09
158 21 0.13
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (155 bp):
TTATTTTTCAAAATCTAAACTTTCTTCATTTTTAAAAAAAAAACACTATTTTTTAAAAAGATTAA
AGCTTTTACTTTGAAATAGTTAAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTT
TAAAATAACTAAAAAAAACAGATTC
Found at i:40300934 original size:14 final size:14
Alignment explanation
Indices: 40300915--40300967 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
40300905 AAATGTTTTT
40300915 AATATATTTTTATA
1 AATATATTTTTATA
*
40300929 AATATATAATCATTTATT
1 AATATAT--T--TTTATA
40300947 AATATATTTTTATA
1 AATATATTTTTATA
40300961 AATATAT
1 AATATAT
40300968 AAAAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 19 0.58
16 2 0.06
18 12 0.36
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATATTTTTATA
Found at i:40303665 original size:252 final size:252
Alignment explanation
Indices: 40303217--40303723 Score: 960
Period size: 252 Copynumber: 2.0 Consensus size: 252
40303207 TTCAATTGAA
*
40303217 TCACTATTTTTTTCCTTCTCTATTTTGTTCCCTTTCAAAGATTCAGTTGGTGCTAAAGTATCATG
1 TCACTATTTTTTTCCTTCTCTATTTTGTTCCCTTTCAAAGATTCAGTTGGTGCTAAAGTATCACG
*
40303282 CAAAATACCTGCCATTTGTCCTGCTGTTGGATCGTTCTTTTCTCTATTAATAACTTTCATCAAGT
66 CAAAATACCTGCCATTTCTCCTGCTGTTGGATCGTTCTTTTCTCTATTAATAACTTTCATCAAGT
*
40303347 CCTCAATTCTTGAAGAACTTTTGGACGATGCATGCTTTTTTCCTGAAATAGTGGTTGCACTTGGC
131 CCTCAATTCTTGAAGAACTTTTGGACGATGCATGCTTTTTTCCTGAAATAGTGGTTGCAATTGGC
*
40303412 CTTTGAACAGAAGTAGCAGTTCTGTTCCCGGGTAGATAGTTCATAATTTCAGACAAG
196 CTTTGAACAGAAGTAGCAGTTCTGTTCCCAGGTAGATAGTTCATAATTTCAGACAAG
*
40303469 TCACTATTTTTTTCCTTCTCTATTTTGTTCCCTTTCGAAGATTCAGTTGGTGCTAAAGTATCACG
1 TCACTATTTTTTTCCTTCTCTATTTTGTTCCCTTTCAAAGATTCAGTTGGTGCTAAAGTATCACG
40303534 CAAAATACCTGCCATTTCTCCTGCTGTTGGATCGTTCTTTTCTCTATTAATAACTTTCATCAAGT
66 CAAAATACCTGCCATTTCTCCTGCTGTTGGATCGTTCTTTTCTCTATTAATAACTTTCATCAAGT
*
40303599 CCTCAATTCTTGAAGAACTTTTGGACGATGCATGCTTTTTTCTTGAAATAGTGGTTGCAATTGGC
131 CCTCAATTCTTGAAGAACTTTTGGACGATGCATGCTTTTTTCCTGAAATAGTGGTTGCAATTGGC
40303664 CTTTGAACAGAAGTAGCAGTTCTGTTCCCAGGTAGATAGTTCATAATTTCAGACAAG
196 CTTTGAACAGAAGTAGCAGTTCTGTTCCCAGGTAGATAGTTCATAATTTCAGACAAG
40303721 TCA
1 TCA
40303724 TTTGTACCAT
Statistics
Matches: 249, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
252 249 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (252 bp):
TCACTATTTTTTTCCTTCTCTATTTTGTTCCCTTTCAAAGATTCAGTTGGTGCTAAAGTATCACG
CAAAATACCTGCCATTTCTCCTGCTGTTGGATCGTTCTTTTCTCTATTAATAACTTTCATCAAGT
CCTCAATTCTTGAAGAACTTTTGGACGATGCATGCTTTTTTCCTGAAATAGTGGTTGCAATTGGC
CTTTGAACAGAAGTAGCAGTTCTGTTCCCAGGTAGATAGTTCATAATTTCAGACAAG
Found at i:40307697 original size:20 final size:21
Alignment explanation
Indices: 40307672--40307711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
40307662 ATTAATTTAC
*
40307672 TTATTTAAGTCCC-AATATTA
1 TTATTTAAGACCCAAATATTA
*
40307692 TTATTTTAGACCCAAATATT
1 TTATTTAAGACCCAAATATT
40307712 GTTTCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (21 bp):
TTATTTAAGACCCAAATATTA
Found at i:40309471 original size:79 final size:79
Alignment explanation
Indices: 40309356--40309580 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
40309346 GCTACTCGTT
* * * *
40309356 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
40309421 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * *
40309436 CCAATGCCTTCGGGCTTAGTCCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGTCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
40309499 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * *
40309515 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGTCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
40309579 GA
64 GA
40309581 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.02
79 66 0.52
80 46 0.37
81 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:40309580 original size:40 final size:40
Alignment explanation
Indices: 40309356--40309580 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
40309346 GCTACTCGTT
* *
40309356 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40309396 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40309436 CCAATGCCTTCGGG-CTTAGTCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
40309475 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * *
40309515 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
40309556 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40309581 CATCATTCGA
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.19
40 120 0.74
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:40317531 original size:40 final size:40
Alignment explanation
Indices: 40317487--40317708 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
40317477 GCTACTCGTT
*
40317487 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
40317527 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
40317567 CCAATGCCTTTGGG-CTTAGTCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * *
40317606 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTAATTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCG-GTTATAGTAACTCGCA
* * * *
40317646 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
40317687 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
40317709 AGACATCATT
Statistics
Matches: 154, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 109 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:40317598 original size:79 final size:80
Alignment explanation
Indices: 40317487--40317704 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 80
40317477 GCTACTCGTT
* * *
40317487 CAAATGCCTTCGG-GACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGAG-CTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
40317551 GATTTAGTAACTCGCA
65 AATTTAGTAACTCGCA
* * **
40317567 CCAATGCCTTTGG-GCTTAGTCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGAGCTTAGTCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
40317629 GAATTTAGTAATTCGCA
64 GAATTTAGTAACTCGCA
* * *
40317646 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGAGCTTAGTCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
40317705 GCCCAGACAT
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.03
79 63 0.53
80 39 0.33
81 12 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGAGCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATTTAGTAACTCGCA
Found at i:40327563 original size:50 final size:50
Alignment explanation
Indices: 40327488--40327882 Score: 355
Period size: 50 Copynumber: 7.9 Consensus size: 50
40327478 ACCGAAGCTC
** *
40327488 TCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *
40327538 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * * ** *
40327588 TCTGATTCACATAGTAGTCTACACTTAGTACTACACACGTTATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
** * * *
40327640 -C-GAGTATGCATAGTAGCCTACACTTAGAACTACACATGCGACCTATCAA
1 TCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* ** * * *
40327689 TCTGGTACACATAGTAGCTTGCACTTAGTACTACACACATGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * ** *
40327739 TATGATACACATAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * *
40327791 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
** * *
40327840 TCTGGTACATGTAGTAGCCTGAACTTAGTACTACACACGTGAC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
40327883 TCACAATGAA
Statistics
Matches: 268, Mismatches: 69, Indels: 16
0.76 0.20 0.05
Matches are distributed among these distances:
49 6 0.02
50 191 0.71
51 69 0.26
52 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:40327754 original size:151 final size:151
Alignment explanation
Indices: 40327492--40327883 Score: 658
Period size: 151 Copynumber: 2.6 Consensus size: 151
40327482 AAGCTCTCTG
40327492 GTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
1 GTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* * * *
40327557 TGCACTTAGTACTACACATGTGACTTAACCATCTGATTCACATAGTAGTCTACACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACTTAACCATATGATACACATAGTAGCCTACACTTAGTACTAC
*
40327622 ACACGTTATCGAAGTTAACGA
131 ACACGTGATCGAAGTTAACGA
* * * *
40327643 GTATGCATAGTAGCCTACACTTAGAACTACACATGCGACCTATCAATCTGGTACACATAGTAGCT
1 GTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
*
40327708 TGCACTTAGTACTACACACATGACTTAACCATATGATACACATAGTAGCCTACACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACTTAACCATATGATACACATAGTAGCCTACACTTAGTACTAC
*
40327773 ACACGTGATCGAAGTTAACGG
131 ACACGTGATCGAAGTTAACGA
* *
40327794 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
1 GTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
*
40327859 TGAACTTAGTACTACACACGTGACT
66 TGCACTTAGTACTACACACGTGACT
40327884 CACAATGAAT
Statistics
Matches: 222, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 222 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
GTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACTTAACCATATGATACACATAGTAGCCTACACTTAGTACTAC
ACACGTGATCGAAGTTAACGA
Found at i:40327797 original size:101 final size:100
Alignment explanation
Indices: 40327497--40327882 Score: 294
Period size: 101 Copynumber: 3.8 Consensus size: 100
40327487 CTCTGGTATG
** * * * * *
40327497 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATATGATACACATAGTAGCCTACAC
* * * * * *
40327562 TTAGTACTACACATGTGACTTAA-CCATCTGATTCA
66 TTAGTACTACACACGTGAC-CAATCAATCGGGTACA
* * *** * * ** * **
40327597 CATAGTAGTCTACACTTAGTACTACACACGTTATCGAA-GTTAACGAGTATGCATAGTAGCCTAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAAT-ATGA-TACACATAGTAGCCTAC
* * * * *
40327661 ACTTAGAACTACACATGCGACCTATCAATCTGGTACA
64 ACTTAGTACTACACACGTGACCAATCAATCGGGTACA
* * * *
40327698 CATAGTAGCTTGCACTTAGTACTACACACATGACTTAACCATATGATACACATAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATATGATACACATAGTAGCCTACAC
* * *
40327763 TTAGTACTACACACGTGATCGAAGTTAA-CGGGTACG
66 TTAGTACTACACACGTGA-CCAA-TCAATCGGGTACA
** * * * **
40327799 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGA-A
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATATGATACACATAGTAGCCT-ACA
40327863 CTTAGTACTACACACGTGAC
65 CTTAGTACTACACACGTGAC
40327883 TCACAATGAA
Statistics
Matches: 223, Mismatches: 56, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
99 1 0.00
100 65 0.29
101 152 0.68
102 5 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATATGATACACATAGTAGCCTACAC
TTAGTACTACACACGTGACCAATCAATCGGGTACA
Found at i:40328258 original size:19 final size:20
Alignment explanation
Indices: 40328230--40328276 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
40328220 AAGAACATGT
40328230 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
40328251 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
40328270 TATATAT
1 TATATAT
40328277 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:40329643 original size:48 final size:48
Alignment explanation
Indices: 40329591--40329726 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 48
40329581 TCGATATGTG
* * *
40329591 ATCCCATGTAAGTCCATGTCTGGGACATGGCATTGGCATCGACCTACA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAACATACA
* * * ***
40329639 ATCCCATGTAAGACCATGTCTGGGACATAGCATTGACATCAATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAACATACA
* *
40329687 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
40329727 CTACCATGTG
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAACATACA
Found at i:40329662 original size:91 final size:95
Alignment explanation
Indices: 40329505--40329726 Score: 274
Period size: 91 Copynumber: 2.4 Consensus size: 95
40329495 ATGCGGTCCT
* * * * ** *
40329505 ATGTAAGACCATGTCTGGGACATGCCTTTGGCATCGATATATAATTTCGTGTAAGACCATAGCTG
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCATAGCTG
* *
40329570 GG-C-TATCA-G-CATCGATATGTGATCCC
66 GGACATAGCATGACATCAATATGTGATCCC
* *
40329596 ATGTAAGTCCATGTCTGGGACATGGCATTGGCATCGACCTACAATCCCATGTAAGACCAT-GTCT
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCATAG-CT
40329660 GGGACATAGCATTGACATCAATATGTGATCCC
65 GGGACATAGCA-TGACATCAATATGTGATCCC
* *
40329692 ATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATC
40329727 CTACCATGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 56 0.50
92 1 0.01
93 4 0.04
95 1 0.01
96 48 0.43
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (95 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCATAGCTG
GGACATAGCATGACATCAATATGTGATCCC
Found at i:40333573 original size:48 final size:48
Alignment explanation
Indices: 40333514--40333614 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
40333504 TGGGCTATCA
* * * *
40333514 GCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGTAGTG
1 GCATCGATATGTGATCCCATGTAAAACCATATCCGGGACATGGCAGTG
* *
40333562 GCATCGATATGTGATCCCATGTAAAACCATATCCGGGATATGGCATTG
1 GCATCGATATGTGATCCCATGTAAAACCATATCCGGGACATGGCAGTG
40333610 GCATC
1 GCATC
40333615 CTACCATGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
GCATCGATATGTGATCCCATGTAAAACCATATCCGGGACATGGCAGTG
Found at i:40333876 original size:27 final size:28
Alignment explanation
Indices: 40333838--40333897 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 28
40333828 TGTAAATGGC
40333838 ATGACTTAAAATGTACCTATGATACTTG
1 ATGACTTAAAATGTACCTATGATACTTG
40333866 ATGAC-TAAAATGTACCTATGATACTTG
1 ATGACTTAAAATGTACCTATGATACTTG
40333893 ATGAC
1 ATGAC
40333898 ATTGTGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (28 bp):
ATGACTTAAAATGTACCTATGATACTTG
Found at i:40338452 original size:46 final size:46
Alignment explanation
Indices: 40338402--40338574 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
40338392 TGGTTGAGCA
*
40338402 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
* * *
40338448 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--ATG
* * *
40338493 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
* * *
40338541 GCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40338575 GGGGCAGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.55
47 28 0.26
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
Found at i:40338558 original size:93 final size:93
Alignment explanation
Indices: 40338399--40338569 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
40338389 GGATGGTTGA
* *
40338399 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGGCCGAACTCGTTGAGT
40338464 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
40338492 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAATGGCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGGCCGAACTCGTTGAGT
*
40338557 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
40338570 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40338835 original size:19 final size:20
Alignment explanation
Indices: 40338798--40338835 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40338788 ATAAGGTGGT
40338798 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40338818 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40338836 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40350286 original size:46 final size:46
Alignment explanation
Indices: 40350236--40350411 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
40350226 TGGTTGAGCA
40350236 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
40350282 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAT-ATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
40350327 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
40350375 CCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40350412 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 65 0.59
47 29 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40350392 original size:93 final size:93
Alignment explanation
Indices: 40350233--40350403 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40350223 GGATGGTTGA
***
40350233 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
40350298 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
40350326 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
40350391 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40350404 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:40368735 original size:17 final size:18
Alignment explanation
Indices: 40368713--40368747 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
40368703 TCAAATTGAA
40368713 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
40368730 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
40368748 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:40369916 original size:29 final size:29
Alignment explanation
Indices: 40369821--40369908 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
40369811 TGGCCCATCT
* * *
40369821 CATTCATATGGCTCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
*
40369850 CATTCATATGGCCCATTAGGCCCAAAACA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* *
40369879 TATTCATATGGCCCATTAGGCCTAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
40369908 C
1 C
40369909 CTTTATATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:40371433 original size:16 final size:16
Alignment explanation
Indices: 40371408--40371439 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
40371398 AAATTCAAGT
40371408 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
40371424 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
40371440 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:40371478 original size:10 final size:10
Alignment explanation
Indices: 40371463--40371494 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
40371453 AATTTCCAAA
40371463 ATATGGATAG
1 ATATGGATAG
40371473 ATATGGATAG
1 ATATGGATAG
40371483 ATATGGATAG
1 ATATGGATAG
40371493 AT
1 AT
40371495 CATGTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (10 bp):
ATATGGATAG
Found at i:40377810 original size:68 final size:68
Alignment explanation
Indices: 40377679--40377835 Score: 201
Period size: 68 Copynumber: 2.3 Consensus size: 68
40377669 TTAACTTTGA
* * * *
40377679 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAATA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAATA
40377743 ATG
66 ATG
* * * *
40377746 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAATAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAAT
*
40377810 AGTG
65 AATG
*
40377814 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
40377836 TAATTTTAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 4 0.05
68 73 0.95
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAATA
ATG
Found at i:40381180 original size:27 final size:27
Alignment explanation
Indices: 40381123--40381292 Score: 107
Period size: 27 Copynumber: 6.3 Consensus size: 27
40381113 CAAAACAGTC
* * * *
40381123 ATTTTACCCTACAGGGGTATGTC-AGTC
1 ATTTTACACTACAAGGGTATTTCGA-TA
* * *
40381150 ATTTTACACTACAAGGTTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
*
40381177 ATTTTACACTATAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *
40381204 ATTTTACA-AATCAGGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* *
40381231 ATTTTACA-AATCGAGGGTATTTC-AGTA
1 ATTTTACACTA-CAAGGGTATTTCGA-TA
* ** *
40381258 ATTTTACAAATTGAA-GGTATTTCGGTA
1 ATTTTAC-ACTACAAGGGTATTTCGATA
40381285 ATTTTACA
1 ATTTTACA
40381293 AATTGAGGGT
Statistics
Matches: 114, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.03
27 109 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:40381293 original size:27 final size:27
Alignment explanation
Indices: 40381162--40381315 Score: 152
Period size: 27 Copynumber: 5.7 Consensus size: 27
40381152 TTTACACTAC
* *
40381162 AAGGTTATTTTGGTAATTTTAC-ACTAT-
1 AAGG-TATTTCGGTAATTTTACAAAT-TG
* *
40381189 AAGGGTATTTCGATAATTTTACAAA-TC
1 AA-GGTATTTCGGTAATTTTACAAATTG
* * * *
40381216 AGGGGTGTTTCGATAATTTTACAAATCG
1 A-AGGTATTTCGGTAATTTTACAAATTG
* *
40381244 AGGGTATTTCAGTAATTTTACAAATTG
1 AAGGTATTTCGGTAATTTTACAAATTG
40381271 AAGGTATTTCGGTAATTTTACAAATTG
1 AAGGTATTTCGGTAATTTTACAAATTG
*
40381298 AGGGTATTTCGGTAATTT
1 AAGGTATTTCGGTAATTT
40381316 CTCTTTATTA
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.95
28 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGTATTTCGGTAATTTTACAAATTG
Found at i:40381686 original size:32 final size:32
Alignment explanation
Indices: 40381632--40381692 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
40381622 TGGCCCCTTT
* * *
40381632 AGGCCCAATCTCGCTCACATGGCCTATCAAGC
1 AGGCCCAATCACACTCACATGGCCCATCAAGC
* *
40381664 AGGCCCAATCACATTCATATGGCCCATCA
1 AGGCCCAATCACACTCACATGGCCCATCA
40381693 GGCCCAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.20
Consensus pattern (32 bp):
AGGCCCAATCACACTCACATGGCCCATCAAGC
Found at i:40394386 original size:49 final size:49
Alignment explanation
Indices: 40394327--40394525 Score: 355
Period size: 49 Copynumber: 4.0 Consensus size: 49
40394317 GCACATAATA
40394327 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
40394376 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
40394425 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
*
40394476 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-ATATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
40394524 AT
1 AT
40394526 GTGGTAAAGC
Statistics
Matches: 145, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
48 5 0.03
49 93 0.64
50 4 0.03
51 43 0.30
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.32
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:40394550 original size:44 final size:42
Alignment explanation
Indices: 40394459--40394552 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 42
40394449 CGATGTGATG
* *
40394459 AATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCC
1 AATGTGAAAATGTATATATATATGTGATAAAGCCGAATGGCC
* * * * *
40394501 GATGTGATGAATGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGA-AAATGT-ATATATATATGTGATAAAGCCGAATGGCC
40394545 AATGTGAA
1 AATGTGAA
40394553 TGTTGTAACA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
42 6 0.15
43 5 0.12
44 30 0.73
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (42 bp):
AATGTGAAAATGTATATATATATGTGATAAAGCCGAATGGCC
Found at i:40394647 original size:37 final size:36
Alignment explanation
Indices: 40394597--40394678 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
40394587 GGAAATATGT
40394597 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATA
1 TCCGGGT-AGACCCGATGACTACGTGTGGAGATTATA
*
40394634 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTA-GACCCGATGACTACGTGTGGAGATTATA
40394671 TCCGGGTA
1 TCCGGGTA
40394679 AGACTTCGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (36 bp):
TCCGGGTAGACCCGATGACTACGTGTGGAGATTATA
Found at i:40405093 original size:22 final size:23
Alignment explanation
Indices: 40405057--40405099 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
40405047 AAATGGTTAA
* *
40405057 AATAAATTAAAGAAAGGAAGATG
1 AATAAAATAAAGAAAGCAAGATG
40405080 AATAAAAT-AAGAAAGCAAGA
1 AATAAAATAAAGAAAGCAAGA
40405100 GAAAGTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.14
Consensus pattern (23 bp):
AATAAAATAAAGAAAGCAAGATG
Found at i:40419896 original size:40 final size:39
Alignment explanation
Indices: 40419731--40419914 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40419721 AAATTGAATG
* * *
40419731 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40419771 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40419811 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40419851 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40419890 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40419915 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40419939 original size:80 final size:81
Alignment explanation
Indices: 40419771--40419959 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40419761 GCTGGAAATT
* * * *
40419771 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40419836 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40419852 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40419915 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40419931 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40419960 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40434447 original size:29 final size:29
Alignment explanation
Indices: 40434347--40434447 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
40434337 CCCTCCGACT
** * * *
40434347 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
40434376 TGCACACTTAGTGCCA-ATATTTCCA-CA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40434403 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40434432 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40434448 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
27 16 0.25
28 17 0.27
29 30 0.48
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:40441547 original size:29 final size:29
Alignment explanation
Indices: 40441446--40441547 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
40441436 CCCTCCGACT
** * * *
40441446 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
40441475 TGCACACTTAGTGCCA-ATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40441503 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40441532 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40441548 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.38
29 40 0.62
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:40449720 original size:40 final size:40
Alignment explanation
Indices: 40449657--40449757 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
40449647 TGAATGATAC
* * * * * *
40449657 CCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
* * ***
40449697 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
40449737 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
40449758 TTCGTGCGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.19
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
Found at i:40449817 original size:39 final size:40
Alignment explanation
Indices: 40449691--40449819 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
40449681 ATGCTGGAAA
* *
40449691 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
40449731 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
40449771 TTCTATCCGGGCTAA-ACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
40449810 TTATATCCGG
1 TTATATCCGG
40449820 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.43
40 42 0.56
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:40455219 original size:18 final size:21
Alignment explanation
Indices: 40455177--40455220 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
40455167 AAATTGCCAT
*
40455177 GATGTCATGACACTAGAATTA
1 GATGTCATGACACTAGAACTA
40455198 GATGTCA-GACACT-G-ACTA
1 GATGTCATGACACTAGAACTA
40455216 GATGT
1 GATGT
40455221 TGCAACATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 6 0.27
21 7 0.32
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (21 bp):
GATGTCATGACACTAGAACTA
Found at i:40460945 original size:30 final size:30
Alignment explanation
Indices: 40460909--40460968 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
40460899 ACCCTAAGTA
40460909 TAAATACAAAATTTTATTGTATTTTTCAGC
1 TAAATACAAAATTTTATTGTATTTTTCAGC
**
40460939 TAAATACAATTTTTTATTGTATTTTTCAGC
1 TAAATACAAAATTTTATTGTATTTTTCAGC
40460969 CTTTAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (30 bp):
TAAATACAAAATTTTATTGTATTTTTCAGC
Found at i:40461013 original size:33 final size:33
Alignment explanation
Indices: 40460974--40461039 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
40460964 TCAGCCTTTA
40460974 ATTCAATTTTCCCCTACCTTAGTCATTCACCCT
1 ATTCAATTTTCCCCTACCTTAGTCATTCACCCT
* *
40461007 ATTCAATTTTCCCCTGCCTTAGTCGTTCACCCT
1 ATTCAATTTTCCCCTACCTTAGTCATTCACCCT
40461040 CTTCCTCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.36, G:0.06, T:0.39
Consensus pattern (33 bp):
ATTCAATTTTCCCCTACCTTAGTCATTCACCCT
Found at i:40463568 original size:30 final size:29
Alignment explanation
Indices: 40463522--40463585 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
40463512 TAAGTAGCCG
*
40463522 AAGCTAGTTAAATCGCACACTTACTGCCA
1 AAGCTAGTTAAATCGCACACTTACTACCA
* *
40463551 AAGCTAGTTTGAATCGCACACTTAGTACCA
1 AAGCTAG-TTAAATCGCACACTTACTACCA
40463581 AAGCT
1 AAGCT
40463586 TCTGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTACTACCA
Found at i:40464599 original size:13 final size:13
Alignment explanation
Indices: 40464581--40464605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40464571 ACAAGCAGTT
40464581 AAATTTTCACACG
1 AAATTTTCACACG
40464594 AAATTTTCACAC
1 AAATTTTCACAC
40464606 ATGTCAATTC
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:40468844 original size:66 final size:68
Alignment explanation
Indices: 40468768--40468954 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
40468758 TAGTACCACT
*
40468768 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
40468830 CACG
65 CACG
40468834 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
40468899 ATCACG
63 ATCACG
40468905 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
40468955 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:40468879 original size:71 final size:71
Alignment explanation
Indices: 40468791--40468954 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40468781 CGATTTGTCT
40468791 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40468856 CTTTCA
66 CTTTCA
40468862 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40468927 CTTTCA
66 CTTTCA
40468933 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
40468955 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:40468992 original size:71 final size:70
Alignment explanation
Indices: 40468791--40468988 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
40468781 CGATTTGTCT
* * *
40468791 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
40468856 CTTTCA
65 CTTTCA
* * *
40468862 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
40468927 CTTTCA
65 CTTTCA
* *
40468933 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
40468989 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:40476406 original size:66 final size:68
Alignment explanation
Indices: 40476330--40476516 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
40476320 TAGTACCACT
*
40476330 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
40476392 CACG
65 CACG
40476396 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
40476461 ATCACG
63 ATCACG
40476467 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
40476517 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:40476441 original size:71 final size:71
Alignment explanation
Indices: 40476353--40476516 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40476343 CGATTTGTCT
40476353 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40476418 CTTTCA
66 CTTTCA
40476424 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40476489 CTTTCA
66 CTTTCA
40476495 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
40476517 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:40476554 original size:71 final size:70
Alignment explanation
Indices: 40476353--40476550 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
40476343 CGATTTGTCT
* * *
40476353 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
40476418 CTTTCA
65 CTTTCA
* * *
40476424 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
40476489 CTTTCA
65 CTTTCA
* *
40476495 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
40476551 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:40481065 original size:66 final size:68
Alignment explanation
Indices: 40480989--40481175 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
40480979 TAGTACCACT
40480989 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTGTCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
40481051 CACG
65 CACG
*
40481055 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTGTC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
40481120 ATCACG
63 ATCACG
40481126 CATGCGACCTAGCTACATTTGTCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTGTC-TT-ACGTAGCTCTCTTGTCTACATGG
40481176 GATACATCTC
Statistics
Matches: 113, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 92 0.81
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTGTCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:40481100 original size:71 final size:71
Alignment explanation
Indices: 40481012--40481175 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
40481002 CGATTTGTCT
40481012 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40481077 CTTTCA
66 CTTTCA
*
40481083 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTGT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40481148 CTTTCA
66 CTTTCA
40481154 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
40481176 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:40481213 original size:71 final size:70
Alignment explanation
Indices: 40481012--40481209 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
40481002 CGATTTGTCT
* * * *
40481012 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
40481077 CTTTCA
65 CTTTCA
* * * * *
40481083 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTGT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
40481148 CTTTCA
65 CTTTCA
* *
40481154 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
40481210 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:40484794 original size:47 final size:46
Alignment explanation
Indices: 40484675--40484845 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
40484665 AGGATATTTG
*
40484675 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
40484722 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
* *
40484768 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
40484815 -AC-GCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
40484846 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.04
45 30 0.28
46 34 0.32
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:40484837 original size:45 final size:46
Alignment explanation
Indices: 40484679--40484853 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
40484669 TATTTGGGCA
*
40484679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
40484725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
40484770 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
40484818 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40484854 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 38 0.34
46 29 0.26
47 28 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:40487783 original size:15 final size:15
Alignment explanation
Indices: 40487763--40487831 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
40487753 GTATCTTGGG
40487763 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
40487778 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
40487793 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
40487808 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
40487823 TTTCTTTAT
1 TTTCTTTAT
40487832 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:40487825 original size:30 final size:30
Alignment explanation
Indices: 40487754--40487841 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
40487744 CATAGTATCG
* * * *
40487754 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
40487784 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
40487814 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
40487842 TATTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:40487842 original size:14 final size:14
Alignment explanation
Indices: 40487763--40487842 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
40487753 GTATCTTGGG
*
40487763 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
40487778 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
40487793 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
40487808 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
40487823 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
40487837 TTTCTT
1 TTTCTT
40487843 ATTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:40490375 original size:93 final size:92
Alignment explanation
Indices: 40490214--40490385 Score: 272
Period size: 93 Copynumber: 1.9 Consensus size: 92
40490204 GGGATATTTG
* * *
40490214 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
40490279 TGAGTCCGAGTTCGTGAGATGTAACTA
66 TGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
40490306 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCATTGAT
1 GGCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
40490371 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
40490386 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 24 0.33
93 48 0.67
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:40493526 original size:2 final size:2
Alignment explanation
Indices: 40493519--40493544 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
40493509 ACATGGCTAA
40493519 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
40493545 CACAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40494112 original size:30 final size:29
Alignment explanation
Indices: 40494069--40494132 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
40494059 CAAGTAGCCG
40494069 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
40494098 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
40494128 AAGCT
1 AAGCT
40494133 TCCAATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:40501640 original size:20 final size:20
Alignment explanation
Indices: 40501617--40501655 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
40501607 ATGAATGACA
40501617 CATGAGCTAAGAA-AATGAAT
1 CATG-GCTAAGAAGAATGAAT
*
40501637 CATGGCTAATAAGAATGAA
1 CATGGCTAAGAAGAATGAA
40501656 CAAAGCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (20 bp):
CATGGCTAAGAAGAATGAAT
Found at i:40503191 original size:16 final size:16
Alignment explanation
Indices: 40503158--40503202 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
40503148 ATGAATCGGC
40503158 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* * *
40503174 AAATGCCGAAAAGTCG
1 AAAAGCCGAAATGCCG
*
40503190 AAAAGTCGAAATG
1 AAAAGCCGAAATG
40503203 TCAAAAGTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:40503191 original size:24 final size:23
Alignment explanation
Indices: 40503157--40503210 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
40503147 AATGAATCGG
* *
40503157 CAAAAGCCGAAATGCCGAAATGC
1 CAAAAGTCGAAAAGCCGAAATGC
* *
40503180 CGAAAAGTCGAAAAGTCGAAATGT
1 C-AAAAGTCGAAAAGCCGAAATGC
40503204 CAAAAGT
1 CAAAAGT
40503211 TGGGCTACGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (23 bp):
CAAAAGTCGAAAAGCCGAAATGC
Found at i:40503478 original size:29 final size:29
Alignment explanation
Indices: 40503432--40503543 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 29
40503422 ATAATATGAT
* * *
40503432 TTGGGCCTAATGGTCCATATGAATGTGAA
1 TTGGGCCCAGTGGGCCATATGAATGTGAA
** * * *
40503461 TTGGGCTTAGTGGGCCATAAGTATATGAA
1 TTGGGCCCAGTGGGCCATATGAATGTGAA
* *
40503490 CTGGG-CCAGATGGGCCATATGAATGAG-A
1 TTGGGCCCAG-TGGGCCATATGAATGTGAA
*
40503518 TTGGGCCCAGTGGGCCATATGCATGT
1 TTGGGCCCAGTGGGCCATATGAATGT
40503544 ATGTAGGGGT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
28 21 0.32
29 44 0.68
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TTGGGCCCAGTGGGCCATATGAATGTGAA
Found at i:40507092 original size:14 final size:15
Alignment explanation
Indices: 40507056--40507096 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
40507046 GTGCCAAAAC
40507056 ATACCACAATTCAAA
1 ATACCACAATTCAAA
* *
40507071 ATA-TACAATTC-GA
1 ATACCACAATTCAAA
40507084 ATACCACAATTCA
1 ATACCACAATTCA
40507097 TAATCAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 4 0.19
14 14 0.67
15 3 0.14
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (15 bp):
ATACCACAATTCAAA
Found at i:40509747 original size:68 final size:67
Alignment explanation
Indices: 40509675--40509824 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
40509665 CATCATGTGT
* * * *
40509675 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
40509737 ATGTAG
62 ATGTAG
** * *
40509743 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
40509808 AG
66 AG
40509810 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
40509825 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:40509780 original size:64 final size:64
Alignment explanation
Indices: 40509699--40509882 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40509689 AGACATTATG
* *
40509699 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40509763 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40509828 AA
63 AA
* * * *
40509830 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40509883 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40510973 original size:2 final size:2
Alignment explanation
Indices: 40510966--40510990 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40510956 TCATGACATG
40510966 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
40510991 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40515798 original size:37 final size:36
Alignment explanation
Indices: 40515748--40515834 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
40515738 TGCGAAGTCT
40515748 TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
*
40515784 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
40515821 TCACCCGGAACATA
1 T-ACCCGG-ACATA
40515835 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
Found at i:40515964 original size:49 final size:49
Alignment explanation
Indices: 40515903--40516254 Score: 650
Period size: 49 Copynumber: 7.2 Consensus size: 49
40515893 TTTGCCACAT
* *
40515903 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
40515952 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
40516001 ACATATACACACTTTCACATTCATTACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
40516050 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
40516099 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
40516148 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAT
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
40516197 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
40516246 ATATATACA
1 ATATATACA
40516255 TCTCATACAT
Statistics
Matches: 293, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 293 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:40517623 original size:49 final size:49
Alignment explanation
Indices: 40517551--40517831 Score: 526
Period size: 49 Copynumber: 5.7 Consensus size: 49
40517541 GAACACAAAG
40517551 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
*
40517600 ATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
40517649 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
*
40517698 ATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
* *
40517747 ATCACATCAGCCATTAGGCCTTATCATATATATACACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
40517796 ATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ATCACATCGGCCATTAGGCCTTATCACATATATACA
40517832 TCTCATACAT
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 224 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
ATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTC
Found at i:40524200 original size:68 final size:67
Alignment explanation
Indices: 40524128--40524277 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
40524118 CATCATGTGT
* * * *
40524128 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
40524190 ATGTAG
62 ATGTAG
** * *
40524196 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
40524261 AG
66 AG
40524263 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
40524278 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:40524233 original size:64 final size:64
Alignment explanation
Indices: 40524152--40524335 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40524142 AGACATTATG
* *
40524152 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40524216 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40524281 AA
63 AA
* * * *
40524283 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40524336 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40528642 original size:68 final size:67
Alignment explanation
Indices: 40528570--40528719 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
40528560 CATCATGTGT
* * * *
40528570 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
40528632 ATGTAG
62 ATGTAG
** * *
40528638 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
40528703 AG
66 AG
40528705 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
40528720 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:40528675 original size:64 final size:64
Alignment explanation
Indices: 40528594--40528777 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40528584 AGACATTATG
* *
40528594 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40528658 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40528723 AA
63 AA
* * * *
40528725 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40528778 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40530723 original size:45 final size:45
Alignment explanation
Indices: 40530674--40530765 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
40530664 TGGCAAATTC
*
40530674 CCATAGTGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
1 CCATAGCGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
* ** * * *
40530719 CCATAGCGTCTTTTAGCTATGGTCTTATTCGTTTTTGTCATGTTG
1 CCATAGCGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
40530764 CC
1 CC
40530766 TTAACTGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (45 bp):
CCATAGCGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
Found at i:40531611 original size:180 final size:180
Alignment explanation
Indices: 40531330--40531686 Score: 475
Period size: 180 Copynumber: 2.0 Consensus size: 180
40531320 GAGCTACAGA
* * * *
40531330 ACTCCAAATTAAGATCCGTTAATTTTTCCAAAAACTAGACTCACATATATTCTTATCACAAAATT
1 ACTCCAAATTAAGAACAGCTAATTTTTCCAAAAACTAGACTCACATATATTCTTACCACAAAATT
* * * ** * * *
40531395 TTCATAATTTTTTGTTTACCAAATTAGTACAGTTTATTCATTAAAGTTACTCCTATTCCACTATC
66 TTCAGAATTTTTAGTTTACCAAATCAACAAAGTTTATTCATTAAAGATACCCCTATTCCACTATC
*
40531460 TAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACGGG
131 TAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCACGGTACGGG
* *
40531510 ACTCCAAATTAAGAACAGCTAATTTTAT-CATAAACTAGACTCACATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGAACAGCTAATTTT-TCCAAAAACTAGACTCACATATATTCTTACCACAAAAT
* * *
40531574 TTTCAGAATTTTTAGTTTATCC-AATCAACAAAGTTTATTCATTAGAGATACCCCTATTTCACTG
65 TTTCAGAATTTTTAGTTTA-CCAAATCAACAAAGTTTATTCATTAAAGATACCCCTATTCCACTA
* * * * *
40531638 TCTGACAGTTCTGATCTTTTTTCACTAAAAATTATTTATCTCACGGTAC
129 TCTAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCACGGTAC
40531687 AGGTCTCAGA
Statistics
Matches: 152, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
180 149 0.98
181 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (180 bp):
ACTCCAAATTAAGAACAGCTAATTTTTCCAAAAACTAGACTCACATATATTCTTACCACAAAATT
TTCAGAATTTTTAGTTTACCAAATCAACAAAGTTTATTCATTAAAGATACCCCTATTCCACTATC
TAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCACGGTACGGG
Found at i:40535886 original size:179 final size:181
Alignment explanation
Indices: 40535608--40535941 Score: 494
Period size: 179 Copynumber: 1.9 Consensus size: 181
40535598 GATCCGTTAA
* * *
40535608 TTTTTCTAGAAATTATACTCACATATATTCTTACCATAAAATTTTAATAATTTTTGGTTTAGCCA
1 TTTTTCTAGAAACTAGACTCACATATATTCTTACCATAAAATTTTAATAATTTTTAGTTTAGCCA
* * ** * * *
40535673 TTTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTATCCAATAGTTCCGACCTCTCTTCA
66 ATTAGTAAAGTTTATTCATTAAAAATACCCCTATTTCACTATCCAACAATTCCAACCTCTCTTCA
40535738 CT-AAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAATCCCTAGT
131 CTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAATCCCTAGT
* *
40535788 TTTTTC-AGAAACTAGACTCATATATATTCTTACCATAAAATTTTCAA-AATTTTTAGTTTATCC
1 TTTTTCTAGAAACTAGACTCACATATATTCTTACCATAAAATTTT-AATAATTTTTAGTTTAGCC
* * * *
40535851 AATTAGTAAATTTTATTCATTAAAAATACCCCTATTTCACTATCTAACAATTCCAATCTTTCTTC
65 AATTAGTAAAGTTTATTCATTAAAAATACCCCTATTTCACTATCCAACAATTCCAACCTCTCTTC
40535916 ACTAAAAATTATTTATCTCATGGTAC
130 ACTAAAAATTATTTATCTCATGGTAC
40535942 AGATCTCTGA
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
179 106 0.78
180 30 0.22
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (181 bp):
TTTTTCTAGAAACTAGACTCACATATATTCTTACCATAAAATTTTAATAATTTTTAGTTTAGCCA
ATTAGTAAAGTTTATTCATTAAAAATACCCCTATTTCACTATCCAACAATTCCAACCTCTCTTCA
CTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAATCCCTAGT
Found at i:40536586 original size:50 final size:50
Alignment explanation
Indices: 40536512--40536895 Score: 346
Period size: 50 Copynumber: 7.6 Consensus size: 50
40536502 TTGGTACGCA
* * *
40536512 TAGTAGTCTGCACTTAGTACTACACATGTGACCTATCAATCTGGA-ACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT-GATACACG
* * * * *
40536562 TAGTAGGCTGTACTTAGTACTACACATGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
* * * * *
40536612 TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAA-CGGGT--ACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAATCTGATACACG
* *
40536661 TAAAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 T--AGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
** * ** * * * * *
40536713 TAGTAGCCTGCACTTAGTACGGCACACGTGATCAAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTGATACACG
* *
40536764 TAGTAGCCTACTCTTAGTACTACACATGTGACCTAACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
* * * * *
40536814 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAATCTGATACACG
* *
40536866 TAGTAGCCTGCA-TACAGTACTACAGATGTG
1 TAGTAGCCTGCACT-TAGTACTACACATGTG
40536896 TTCTTACAAT
Statistics
Matches: 269, Mismatches: 53, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
49 7 0.03
50 146 0.54
51 74 0.28
52 42 0.16
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
Found at i:40536703 original size:101 final size:101
Alignment explanation
Indices: 40536563--40536854 Score: 422
Period size: 101 Copynumber: 2.9 Consensus size: 101
40536553 TGGAACATGT
* * * *
40536563 AGTAGGCTGTACTTAGTACTACACATGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
* ** *
40536628 GTACTACACATGTGATCAAAGTTAACGGGTACGTAA
66 GTACTACACACGTGATCAAAACTAACGGGTACGCAA
*
40536664 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
** * *
40536729 GTACGGCACACGTGATCAAAACTATCGGGTACGCAT
66 GTACTACACACGTGATCAAAACTAACGGGTACGCAA
* * *
40536765 AGTAGCCTACTCTTAGTACTACACATGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
*
40536830 GTACTACACACGTGACCTAAAACTA
66 GTACTACACACGTGATC-AAAACTA
40536855 TCTTAAACAC
Statistics
Matches: 170, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 163 0.96
102 7 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
AGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGATCAAAACTAACGGGTACGCAA
Found at i:40541693 original size:40 final size:40
Alignment explanation
Indices: 40541634--40541785 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
40541624 CATTGGAATG
* * * *
40541634 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
40541674 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
40541714 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
40541754 AAATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
40541786 GAATCACTAT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.03
40 91 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:40541736 original size:80 final size:80
Alignment explanation
Indices: 40541634--40541787 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
40541624 CATTGGAATG
* * ** *
40541634 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
40541699 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
40541714 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
40541779 ATCGTGCGA
66 ATCGTGCGA
40541788 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:40541802 original size:40 final size:40
Alignment explanation
Indices: 40541634--40541841 Score: 166
Period size: 40 Copynumber: 5.2 Consensus size: 40
40541624 CATTGGAATG
* ** * * * *
40541634 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACT
* * ***
40541674 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACT
* * * *
40541714 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAA-TCACT
* *
40541754 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACT
* * * * * * * *
40541794 ATAACCGGGCTAGGTCCCTAAGACAATCGAGCGAGTCGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACT
40541834 ATATCCGG
1 ATATCCGG
40541842 TTAAATCCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 134 0.98
41 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACT
Found at i:40541802 original size:80 final size:80
Alignment explanation
Indices: 40541638--40541805 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 80
40541628 GGAATGATAT
* * ** * *
40541638 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
40541703 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * *
40541718 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
40541783 TGCGAATCACTATAA
66 TGCGAATCACTATAA
40541798 CCGGGCTA
1 CCGGGCTA
40541806 GGTCCCTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:40547903 original size:39 final size:39
Alignment explanation
Indices: 40547849--40547974 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
40547839 TTCAGTGATG
40547849 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
40547888 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
40547927 TATATCCGGACTTAAGGTTCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
40547966 TATGTCCGG
1 TATATCCGG
40547975 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:40547989 original size:39 final size:39
Alignment explanation
Indices: 40547849--40548012 Score: 188
Period size: 39 Copynumber: 4.2 Consensus size: 39
40547839 TTCAGTGATG
* *
40547849 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
40547888 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
40547927 TATATCCGGACTTAAGGTTCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
40547966 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
40548005 TATA-CCGG
1 TATATCCGG
40548013 GTTTAAATTC
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 9 0.08
39 100 0.92
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:40551770 original size:12 final size:12
Alignment explanation
Indices: 40551749--40551783 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
40551739 CAAACATCTA
*
40551749 ATACAATTTCAC
1 ATACATTTTCAC
*
40551761 ATACATTTTCTC
1 ATACATTTTCAC
40551773 ATACATTTTCA
1 ATACATTTTCA
40551784 ATTTCATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (12 bp):
ATACATTTTCAC
Found at i:40554330 original size:24 final size:24
Alignment explanation
Indices: 40554255--40554331 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
40554245 TGGGATTTTC
40554255 ATGTTTGTTGAATCATCATCGAAT
1 ATGTTTGTTGAATCATCATCGAAT
* * *
40554279 ATGTTCT-TTGAA-C-CCA-AGATTTT
1 ATGTT-TGTTGAATCATCATCGA--AT
40554302 CATGTTTGTTGAATCATCATCGAAT
1 -ATGTTTGTTGAATCATCATCGAAT
40554327 ATGTT
1 ATGTT
40554332 CTTAGTCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 3 0.08
24 25 0.64
25 3 0.08
26 2 0.05
27 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (24 bp):
ATGTTTGTTGAATCATCATCGAAT
Found at i:40556176 original size:42 final size:43
Alignment explanation
Indices: 40556062--40556184 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 43
40556052 GATTACCGAG
40556062 ATGAGATTACATGTAAGACCATGTCTGGGACATTGACATCATT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGACATCATT
* * * *
40556105 AT-ATGATTTCGTGTAAGACCATGTTTGGGA-ATTGGCATCGA-T
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGACATC-ATT
* * *
40556147 ATGAGATAACATGTAAGACCATATCTGGGATA-TGACAT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGACAT
40556185 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
42 38 0.58
43 28 0.42
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGACATCATT
Found at i:40556663 original size:33 final size:33
Alignment explanation
Indices: 40556620--40556690 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
40556610 GTTACTGAAT
* * *
40556620 AAGACTATAGCTGGGCTAAGGCAATCGAATAAA
1 AAGACCATAGCTGGACTAAGACAATCGAATAAA
* * *
40556653 AAGACCATAGCTGGACTATGACAATTGACTAAA
1 AAGACCATAGCTGGACTAAGACAATCGAATAAA
40556686 AAGAC
1 AAGAC
40556691 AATAACTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (33 bp):
AAGACCATAGCTGGACTAAGACAATCGAATAAA
Found at i:40573506 original size:38 final size:38
Alignment explanation
Indices: 40573454--40573537 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
40573444 ACAAGGTATT
40573454 ACATGTAGGTGCATCACTTATTTGAAGAACAAATCTGCA
1 ACATG-AGGTGCATCACTTATTTGAAGAACAAATCTGCA
40573493 ACATGAGGTGCATCACTTATTTGAAGAACAAATCTGCA
1 ACATGAGGTGCATCACTTATTTGAAGAACAAATCTGCA
40573531 ACATGAG
1 ACATGAG
40573538 TAGCGTCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 40 0.89
39 5 0.11
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (38 bp):
ACATGAGGTGCATCACTTATTTGAAGAACAAATCTGCA
Found at i:40574601 original size:35 final size:36
Alignment explanation
Indices: 40574550--40574663 Score: 108
Period size: 35 Copynumber: 3.2 Consensus size: 36
40574540 GATGAAATTC
*
40574550 ATCTCTATTTCATGTTTATT-TCTCAGATGGACTTT
1 ATCTCTATTTCGTGTTTATTATCTCAGATGGACTTT
* * * * *
40574585 ATCTTTGTTTTGTGTTTATTATCCCA-ATGGATTTT
1 ATCTCTATTTCGTGTTTATTATCTCAGATGGACTTT
* ** *
40574620 AACTCTATTTCGTGTTTATTGCCTC-GATAGACTTT
1 ATCTCTATTTCGTGTTTATTATCTCAGATGGACTTT
*
40574655 ATCGCTATT
1 ATCTCTATT
40574664 GATGTAACAC
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
35 56 0.93
36 4 0.07
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (36 bp):
ATCTCTATTTCGTGTTTATTATCTCAGATGGACTTT
Found at i:40576837 original size:20 final size:20
Alignment explanation
Indices: 40576812--40576851 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
40576802 ATTAAATTCA
*
40576812 ATAACTTTTCTCACTAACCT
1 ATAACTTTTCTCAATAACCT
40576832 ATAACTTTTCTCAATAACCT
1 ATAACTTTTCTCAATAACCT
40576852 TACATCATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAACTTTTCTCAATAACCT
Found at i:40580141 original size:51 final size:51
Alignment explanation
Indices: 40580076--40580193 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
40580066 TATTTCATCT
* * *
40580076 ATGGGCTTACGCCATATGCCTTATACCAGACTACCATAGCCTCCTTCAACC
1 ATGGTCTTATGCCATATGCCTTATACCAGACTACCATAGCCTACTTCAACC
* * * * *
40580127 ATGGTCTTATGCCATATGCCTTATACTAGACTACCATTGCCTATTTCATCT
1 ATGGTCTTATGCCATATGCCTTATACCAGACTACCATAGCCTACTTCAACC
*
40580178 ATGATCTTATGCCATA
1 ATGGTCTTATGCCATA
40580194 AACCATTGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (51 bp):
ATGGTCTTATGCCATATGCCTTATACCAGACTACCATAGCCTACTTCAACC
Found at i:40582135 original size:19 final size:17
Alignment explanation
Indices: 40582111--40582222 Score: 63
Period size: 18 Copynumber: 6.4 Consensus size: 17
40582101 AAAAAATATT
40582111 TAAAAATATATAAGAATTG
1 TAAAAATAT-TAA-AATTG
* * *
40582130 TAAAAACATTTAAATTAT
1 TAAAAATATTAAAATT-G
40582148 TAAAAATATTAAAAATTG
1 TAAAAATATT-AAAATTG
*
40582166 TAAAAA-A--AATTATTG
1 TAAAAATATTAA-AATTG
40582181 TAAAAA-A-TAAATATTG
1 TAAAAATATTAAA-ATTG
*
40582197 TAAATAACTATTAAAAAATG
1 TAAA-AA-TATT-AAAATTG
40582217 TAAAAA
1 TAAAAA
40582223 GAATGTAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
14 2 0.03
15 11 0.15
16 10 0.14
17 7 0.09
18 17 0.23
19 16 0.22
20 8 0.11
21 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (17 bp):
TAAAAATATTAAAATTG
Found at i:40582171 original size:9 final size:9
Alignment explanation
Indices: 40582083--40582163 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
40582073 AAAATTTGTA
*
40582083 AAAAAAATT
1 AAAAATATT
40582092 -AAAATATT
1 AAAAATATT
40582100 AAAAAAATATTT
1 --AAAAATA-TT
40582112 AAAAATATAT
1 AAAAATAT-T
*
40582122 AAGAAT-TGT
1 AAAAATAT-T
*
40582131 AAAAACATT
1 AAAAATATT
* *
40582140 TAAATTATT
1 AAAAATATT
40582149 AAAAATATT
1 AAAAATATT
40582158 AAAAAT
1 AAAAAT
40582164 TGTAAAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
8 7 0.12
9 27 0.48
10 14 0.25
11 6 0.11
12 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:40582195 original size:16 final size:16
Alignment explanation
Indices: 40582157--40582200 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
40582147 TTAAAAATAT
*
40582157 TAAAAATTGTAAAAAA
1 TAAATATTGTAAAAAA
*
40582173 -AATTATTGTAAAAAA
1 TAAATATTGTAAAAAA
40582188 TAAATATTGTAAA
1 TAAATATTGTAAA
40582201 TAACTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
TAAATATTGTAAAAAA
Found at i:40583846 original size:17 final size:17
Alignment explanation
Indices: 40583824--40583863 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
40583814 TTTTCTTATT
*
40583824 TAAAATTTTA-AAAATAA
1 TAAAATTGTATAAAA-AA
40583841 TAAAATTGTATAAAAAA
1 TAAAATTGTATAAAAAA
40583858 TAAAAT
1 TAAAAT
40583864 CAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATTGTATAAAAAA
Found at i:40584464 original size:247 final size:248
Alignment explanation
Indices: 40584111--40585148 Score: 1187
Period size: 247 Copynumber: 4.2 Consensus size: 248
40584101 ATCTATTCTA
* * * * **
40584111 TTTAATTTTTTTAAATAATGTATGCATGTGTTCGATAAAAAACCATTCTATTATGTTTAACTTTT
1 TTTAATTTATTT-AATAATGTTTGCATGTGTTCGACAAAAAATCATTCTACCATGTTTAACTTTT
* * * * * *
40584176 TTTTTAACAATATCTACATGTGGCTAACAAAAATTCATTCAATTATATTGCCGTTATGATCGATA
65 CTTTTAACAATATCTGCACGTGTCTAACAAAAATTCATTCAATTATATTGCAGTTATGATCGACA
* * * * *
40584241 TTGAACTACTTCTTTATATGATGTGTTTATGTTTCTAAATATGTCCTAATCATATTTGGTTCACA
130 TTGAACTACTTCTTTACATGATGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACA
* * *
40584306 TTTA-ATTTTTTCGCAATGTCTGTGTGTGTCTGACAAAGATTTATTTTGTTCG-G
195 TTTACATTTTTTCACAATGTCTGCGCGTGTCTGACAAAGATTTATTTTGTT-GTG
* *
40584359 TTTAATTTATTTAATAATGTTTGCATGTATTCTG-CAAAAAATCATTTTACCATGTTTAACTTTT
1 TTTAATTTATTTAATAATGTTTGCATGTGTTC-GACAAAAAATCATTCTACCATGTTTAACTTTT
* * * * *
40584423 CATTTAACAATATCCGCACGTGTCTAACAAAAATTCATTCAATTGTATTGCAGTTATAATTGACA
65 CTTTTAACAATATCTGCACGTGTCTAACAAAAATTCATTCAATTATATTGCAGTTATGATCGACA
* * *
40584488 TTGAACTACTTCTTTATATGATGTGTTTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACG
130 TTGAACTACTTCTTTACATGATGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACA
* * * ** * *
40584553 TTTACAGTTTTTCACAATGTCTGTGTGTGTCCAACAAATATTTATTTTGTTTTG
195 TTTACATTTTTTCACAATGTCTGCGCGTGTCTGACAAAGATTTATTTTGTTGTG
* ** ** * *
40584607 TTTAATTTGTTTAATAATGTTTAAACATGCTCGATAAAAAATCATTCTACCATGTTTAACTTTTC
1 TTTAATTTATTTAATAATGTTTGCATGTGTTCGACAAAAAATCATTCTACCATGTTTAACTTTTC
* * ** * *
40584672 TTTTAATAATATCTGCACGTGCCCGACAAAAATTCATTCAATTGA-ATTGTAGTTATGATCGGCA
66 TTTTAACAATATCTGCACGTGTCTAACAAAAATTCATTCAATT-ATATTGCAGTTATGATCGACA
*
40584736 TTGAACTACTTCTTTACATGACT-TGTCTGTGTTTCTAAATATGTCTTAATCATATTTTGTCCAC
130 TTGAACTACTTCTTTACATGA-TGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCAC
* * * *
40584800 ACTTA-ATTTTTTCACAATTTTTGCGCGTGTCAGACAAAGATTTATTTTGTTGTG
194 ATTTACATTTTTTCACAATGTCTGCGCGTGTCTGACAAAGATTTATTTTGTTGTG
* * * * * ** *
40584854 TTTAATTTTTTTAAAAATGTTTGCAGGTGTCCGGCAAAAAATCATTCTAATATGTTCAACTTTTC
1 TTTAATTTATTTAATAATGTTTGCATGTGTTCGACAAAAAATCATTCTACCATGTTTAACTTTTC
* * * * * *
40584919 TTTTAACAATATATGCATGTGT-TCGACAAAATTTCATTCAATTGTATTGCAGTTATGATCAACA
66 TTTTAACAATATCTGCACGTGTCT-AACAAAAATTCATTCAATTATATTGCAGTTATGATCGACA
* * * *
40584983 TTGAACTACTTCTTTACATGATATGTCTGTGATTCTAAATATGTCATAATCATATTTTGTCCACG
130 TTGAACTACTTCTTTACATGATGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACA
* * *
40585048 TTTACA-TTTTTCACAATGTCTGCGCGTGTTCT-ACAAAAATCTATTATGTTGTG
195 TTTACATTTTTTCACAATGTCTGCGCGTG-TCTGACAAAGATTTATTTTGTTGTG
* * * * * *
40585101 TTT-ATTTATTTTTAATAATATTTGTAAGTGTCCAACAAAAATTCATTC
1 TTTAATTTA--TTTAATAATGTTTGCATGTGTTCGACAAAAAATCATTC
40585149 AATTATGTTA
Statistics
Matches: 673, Mismatches: 104, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
246 5 0.01
247 411 0.61
248 256 0.38
249 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.44
Consensus pattern (248 bp):
TTTAATTTATTTAATAATGTTTGCATGTGTTCGACAAAAAATCATTCTACCATGTTTAACTTTTC
TTTTAACAATATCTGCACGTGTCTAACAAAAATTCATTCAATTATATTGCAGTTATGATCGACAT
TGAACTACTTCTTTACATGATGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACAT
TTACATTTTTTCACAATGTCTGCGCGTGTCTGACAAAGATTTATTTTGTTGTG
Found at i:40585117 original size:495 final size:495
Alignment explanation
Indices: 40584142--40585119 Score: 1327
Period size: 495 Copynumber: 2.0 Consensus size: 495
40584132 ATGCATGTGT
** * * * *
40584142 TCGATAAAAAACCATTCTATTATGTTTAACTTTTTTTTTAACAATATCTACATGTGGCTAACAAA
1 TCGATAAAAAACCATTCTACCATGTTTAACTTTTCTTTTAACAATATCTACACGTGCCCAACAAA
* * * *
40584207 AATTCATTCAATTATATTGCCGTTATGATCGATATTGAACTACTTCTTTATATGATGTGTTTATG
66 AATTCATTCAATTATATTGCAGTTATGATCGACATTGAACTACTTCTTTACATGATGTGTCTATG
* * * * * *
40584272 TTTCTAAATATGTCCTAATCATATTTGGTTCACATTTAATTTTTTCGCAATGTCTGTGTGTGTCT
131 TTTCTAAATATGTCCTAATCATATTTGGTCCACACTTAATTTTTTCACAATGTCTGCGCGTGTCA
* * * *
40584337 GACAAAGATTTATTTTGTTCGGTTTAATTTATTTAATAATGTTTGCATGTATTCTGCAAAAAATC
196 GACAAAGATTTATTTTGTTCGGTTTAATTTATTTAAAAATGTTTGCAGGTATCCGGCAAAAAATC
* * * *
40584402 ATTTTACCATGTTTAACTTTTCATTTAACAATATCCGCACGTGTCTAACAAAAATTCATTCAATT
261 ATTCTAACATGTTCAACTTTTCATTTAACAATATACGCACGTGTCTAACAAAAATTCATTCAATT
** * * * *
40584467 GTATTGCAGTTATAATTGACATTGAACTACTTCTTTATATGATGTGTTTGTGTTTCTAAATATGT
326 GTATTGCAGTTATAATCAACATTGAACTACTTCTTTACATGATATGTCTGTGATTCTAAATATGT
* * * * *
40584532 CCTAATCATATTTTGTCCACGTTTACAGTTTTTCACAATGTCTGTGTGTGTCCAACAAATATTTA
391 CATAATCATATTTTGTCCACGTTTACAGTTTTTCACAATGTCTGCGCGTGTCCAACAAAAATCTA
* *
40584597 TTTTGTTTTGTTTAATTTGTTTAATAATGTTTAAACATGC
456 TTATGTTGTGTTTAATTTGTTTAATAATGTTTAAACATGC
* * * *
40584637 TCGATAAAAAATCATTCTACCATGTTTAACTTTTCTTTTAATAATATCTGCACGTGCCCGACAAA
1 TCGATAAAAAACCATTCTACCATGTTTAACTTTTCTTTTAACAATATCTACACGTGCCCAACAAA
* * *
40584702 AATTCATTCAATTGA-ATTGTAGTTATGATCGGCATTGAACTACTTCTTTACATGACT-TGTCTG
66 AATTCATTCAATT-ATATTGCAGTTATGATCGACATTGAACTACTTCTTTACATGA-TGTGTCTA
* * * *
40584765 TGTTTCTAAATATGTCTTAATCATATTTTGTCCACACTTAATTTTTTCACAATTTTTGCGCGTGT
129 TGTTTCTAAATATGTCCTAATCATATTTGGTCCACACTTAATTTTTTCACAATGTCTGCGCGTGT
* *
40584830 CAGACAAAGATTTATTTTGTT-GTGTTTAATTTTTTTAAAAATGTTTGCAGGTGTCCGGCAAAAA
194 CAGACAAAGATTTATTTTGTTCG-GTTTAATTTATTTAAAAATGTTTGCAGGTATCCGGCAAAAA
* * * * * *
40584894 ATCATTCTAATATGTTCAACTTTTCTTTTAACAATATATGCATGTGT-TCGACAAAATTTCATTC
258 ATCATTCTAACATGTTCAACTTTTCATTTAACAATATACGCACGTGTCT-AACAAAAATTCATTC
*
40584958 AATTGTATTGCAGTTATGATCAACATTGAACTACTTCTTTACATGATATGTCTGTGATTCTAAAT
322 AATTGTATTGCAGTTATAATCAACATTGAACTACTTCTTTACATGATATGTCTGTGATTCTAAAT
* *
40585023 ATGTCATAATCATATTTTGTCCACGTTTACA-TTTTTCACAATGTCTGCGCGTGTTCTACAAAAA
387 ATGTCATAATCATATTTTGTCCACGTTTACAGTTTTTCACAATGTCTGCGCGTGTCCAACAAAAA
* *
40585087 TCTATTATGTTGTGTTTATTTATTTTTAATAAT
452 TCTATTATGTTGTGTTTAATT-TGTTTAATAAT
40585120 ATTTGTAAGT
Statistics
Matches: 417, Mismatches: 61, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
494 47 0.11
495 368 0.88
496 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (495 bp):
TCGATAAAAAACCATTCTACCATGTTTAACTTTTCTTTTAACAATATCTACACGTGCCCAACAAA
AATTCATTCAATTATATTGCAGTTATGATCGACATTGAACTACTTCTTTACATGATGTGTCTATG
TTTCTAAATATGTCCTAATCATATTTGGTCCACACTTAATTTTTTCACAATGTCTGCGCGTGTCA
GACAAAGATTTATTTTGTTCGGTTTAATTTATTTAAAAATGTTTGCAGGTATCCGGCAAAAAATC
ATTCTAACATGTTCAACTTTTCATTTAACAATATACGCACGTGTCTAACAAAAATTCATTCAATT
GTATTGCAGTTATAATCAACATTGAACTACTTCTTTACATGATATGTCTGTGATTCTAAATATGT
CATAATCATATTTTGTCCACGTTTACAGTTTTTCACAATGTCTGCGCGTGTCCAACAAAAATCTA
TTATGTTGTGTTTAATTTGTTTAATAATGTTTAAACATGC
Found at i:40585693 original size:62 final size:63
Alignment explanation
Indices: 40585614--40585731 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 63
40585604 AAAAAGAGTA
* * * *
40585614 AACATTGTTAATGAAACATAACTCAGTTGATAAATTTACCAAAA-ACAAATCAAATTGAAGTT
1 AACATTGTCAATAAAACATAACTCAATTGATAAATTTACCAAAACAAAAATCAAATTGAAGTT
*
40585676 AACATTGTCAATAAAACATAATTCAATTGATAAATTTACCAAAACAAAAATCAAAT
1 AACATTGTCAATAAAACATAACTCAATTGATAAATTTACCAAAACAAAAATCAAAT
40585732 GCAATTTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
62 40 0.80
63 10 0.20
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (63 bp):
AACATTGTCAATAAAACATAACTCAATTGATAAATTTACCAAAACAAAAATCAAATTGAAGTT
Found at i:40585720 original size:28 final size:27
Alignment explanation
Indices: 40585627--40585721 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 27
40585617 ATTGTTAATG
*
40585627 AAACATAACTCAGTTGATAAATTTACCAA
1 AAACATAA-TCAATTGATAAATTTACC-A
**
40585656 AAACA-AATCAAATTGAAGTTAACATTGTCAATA
1 AAACATAATC-AATTG-A--TAA-ATT-T-ACCA
40585689 AAACATAATTCAATTGATAAATTTACCA
1 AAACATAA-TCAATTGATAAATTTACCA
40585717 AAACA
1 AAACA
40585722 AAAATCAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 19
0.68 0.07 0.25
Matches are distributed among these distances:
27 2 0.04
28 13 0.25
29 7 0.13
30 3 0.06
31 6 0.12
32 3 0.06
33 8 0.15
34 8 0.15
35 2 0.04
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (27 bp):
AAACATAATCAATTGATAAATTTACCA
Found at i:40586118 original size:3 final size:3
Alignment explanation
Indices: 40586110--40586171 Score: 99
Period size: 3 Copynumber: 21.0 Consensus size: 3
40586100 TCGGCCCTAC
* *
40586110 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
40586158 TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT
40586172 GAGAATTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:40593192 original size:17 final size:18
Alignment explanation
Indices: 40593150--40593198 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
40593140 AGTTGAAAAG
40593150 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
40593169 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
40593186 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
40593199 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:40594084 original size:40 final size:40
Alignment explanation
Indices: 40594018--40594168 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
40594008 AAATTGAATG
* * *
40594018 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
40594057 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
40594097 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
40594137 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
40594169 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:40601197 original size:17 final size:18
Alignment explanation
Indices: 40601155--40601203 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
40601145 AGTTGAAAAG
40601155 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
40601174 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
40601191 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
40601204 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:40602090 original size:40 final size:40
Alignment explanation
Indices: 40602024--40602174 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
40602014 AAATTGAATG
* * *
40602024 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
40602063 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
40602103 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
40602143 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
40602175 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:40614131 original size:46 final size:47
Alignment explanation
Indices: 40613999--40614167 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 47
40613989 TTATGAGAGC
* * *
40613999 CAGTGTAAGACCATGTCTGGGACATGGCATCAGC-ATTGAGACG-AGT
1 CAGTGTAAGACCATGTCTGGGACATAGCATCGGCTA-CGAGACGTAGT
*
40614045 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCT-CGAGACGTAAGT
1 -C-AGTGTAAGACCATGTCTGGGACATAGCATCGG-CTACGAGACGT-AGT
* * *
40614093 CAATGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT-TT
1 CAGTGTAAGACCATGTCTGGGACATAGCATCGGCTACGAGACGTAGT
*
40614137 CAGTATAAGACCATGTCTGGGACATAGCATC
1 CAGTGTAAGACCATGTCTGGGACATAGCATC
40614168 AGCACAGATA
Statistics
Matches: 105, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
44 9 0.09
45 16 0.15
46 52 0.50
47 16 0.15
48 12 0.11
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATAGCATCGGCTACGAGACGTAGT
Found at i:40615243 original size:41 final size:41
Alignment explanation
Indices: 40615186--40615296 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
40615176 ACACGGGCTA
*
40615186 GGACACGGGCATGTCATAGCCGTGTGAAGAACACAGGCCAG
1 GGACATGGGCATGTCATAGCCGTGTGAAGAACACAGGCCAG
* * *
40615227 GGACATGGGCATGTCATAGCCGTGTAAAGGACACGGGCCAG
1 GGACATGGGCATGTCATAGCCGTGTGAAGAACACAGGCCAG
*
40615268 GGACATGGGCGTGTGC-TAGGCCGTGTGAA
1 GGACATGGGCATGT-CATA-GCCGTGTGAA
40615297 AACCCCTGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
41 52 0.84
42 10 0.16
ACGTcount: A:0.25, C:0.22, G:0.38, T:0.15
Consensus pattern (41 bp):
GGACATGGGCATGTCATAGCCGTGTGAAGAACACAGGCCAG
Found at i:40622692 original size:18 final size:19
Alignment explanation
Indices: 40622656--40622695 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
40622646 GTTTAAAGAC
*
40622656 TTTTAAATTATTATTTTTA
1 TTTTAAATTATTATCTTTA
*
40622675 TTTTAACTT-TTATCTTTA
1 TTTTAAATTATTATCTTTA
40622693 TTT
1 TTT
40622696 ATCTTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAAATTATTATCTTTA
Found at i:40622724 original size:25 final size:26
Alignment explanation
Indices: 40622689--40622746 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
40622679 AACTTTTATC
40622689 TTTA-TTTATCTT-CTTTAAGTACT-T
1 TTTATTTTATCTTCCTTTAA-TACTAT
40622713 TTTATTTTATCTTCCTTTAATACTAT
1 TTTATTTTATCTTCCTTTAATACTAT
*
40622739 TTCATTTT
1 TTTATTTT
40622747 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 12 0.40
26 14 0.47
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATCTTCCTTTAATACTAT
Found at i:40627197 original size:19 final size:20
Alignment explanation
Indices: 40627173--40627210 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40627163 GGTACCACCA
40627173 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40627192 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40627211 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40630932 original size:40 final size:39
Alignment explanation
Indices: 40630866--40631016 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
40630856 AAATTGAATG
* * *
40630866 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
40630905 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
40630945 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
40630985 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
40631017 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:40631030 original size:40 final size:39
Alignment explanation
Indices: 40630903--40631032 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
40630893 ATGCTGGAAA
* *
40630903 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
40630943 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
40630983 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
40631023 TTATATCCGG
1 TTATATCCGG
40631033 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:40637956 original size:19 final size:20
Alignment explanation
Indices: 40637932--40637969 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40637922 GGTACCACCA
40637932 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40637951 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40637970 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40638307 original size:91 final size:92
Alignment explanation
Indices: 40638198--40638366 Score: 304
Period size: 91 Copynumber: 1.8 Consensus size: 92
40638188 CGCCCTAAGT
* *
40638198 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40638263 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
40638290 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40638354 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40638367 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 68 0.92
92 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:40638363 original size:46 final size:46
Alignment explanation
Indices: 40638193--40638363 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
40638183 TAACCCGCCC
* * *
40638193 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
40638239 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
40638285 TTCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
40638330 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40638364 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 30 0.28
46 63 0.59
47 6 0.06
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Done.