Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 138 of 344
Found at i:46321590 original size:27 final size:27
Alignment explanation
Indices: 46321377--46321570 Score: 280
Period size: 27 Copynumber: 7.2 Consensus size: 27
46321367 ATATATACAA
* * * * *
46321377 CACACAAGGGAAAAATACTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
46321404 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
46321431 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
46321458 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
46321485 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
46321512 CACATAAGAGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
46321539 CACATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
46321566 CACAT
1 CACAT
46321571 CAGGCTAAGA
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:46333349 original size:46 final size:47
Alignment explanation
Indices: 46333296--46333610 Score: 395
Period size: 46 Copynumber: 7.0 Consensus size: 47
46333286 TTTAGGATTT
** * * *
46333296 ATGTGATGAATGTGAATGTGGATATATGAGATAAGGCCGAATGG-AA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
46333342 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
46333389 ATGTGATGAATGTGAACATGCATATGTGTGATAAGG-CGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
46333435 ATGTGATGAATGTGAACATGC--GTA-G-GGTAAGG-CG-AT-G-C-
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
46333473 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
46333520 ATGTGATGAATGTGAACATGCATATATGTGA-AAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
46333566 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGC
46333611 TAATACGAAA
Statistics
Matches: 238, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
38 21 0.09
39 1 0.00
40 3 0.01
41 3 0.01
42 14 0.06
43 3 0.01
44 3 0.01
45 1 0.00
46 108 0.45
47 81 0.34
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:46333370 original size:25 final size:25
Alignment explanation
Indices: 46333342--46333420 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
46333332 CCGAATGGAA
46333342 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
46333367 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
46333389 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
46333414 GTGTGAT
1 ATGTGAT
46333421 AAGGCGAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 14 0.35
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:46333393 original size:93 final size:94
Alignment explanation
Indices: 46333296--46333610 Score: 395
Period size: 93 Copynumber: 3.5 Consensus size: 94
46333286 TTTAGGATTT
** * * *
46333296 ATGTGATGAATGTGAATGTGGATATATGAGATAAGGCCGAATGG-AAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
46333360 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
*
46333389 ATGTGATGAATGTGAACATGCATATGTGTGATAAGG-CGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
46333453 TGC--GTA-G-GGTAAGG-CG-AT-G-C-
66 TGCATATATGTGATAAGGCCGAATGGCCA
*
46333473 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
46333538 TGCATATATGTGA-AAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
46333566 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGC
46333611 TAATACGAAA
Statistics
Matches: 192, Mismatches: 18, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
84 35 0.18
85 32 0.17
86 1 0.01
87 4 0.02
88 7 0.04
89 8 0.04
90 3 0.02
91 3 0.02
92 8 0.04
93 88 0.46
94 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCCGAATGGCCA
Found at i:46333639 original size:46 final size:46
Alignment explanation
Indices: 46333589--46333725 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
46333579 GGAAGTGTAT
* *
46333589 ATATGTGGTAAAGCCGAATGGCTAATACGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
46333635 ATATGAAGTAAAGCCGAATGGCTAATGCGAAACGTGTATAAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * * *
46333681 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
46333726 TGTATATATA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:46350634 original size:21 final size:21
Alignment explanation
Indices: 46350608--46350652 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
46350598 CATAGAAGCG
46350608 ATTCACCCTTTTGCCTGTTTA
1 ATTCACCCTTTTGCCTGTTTA
46350629 ATTCACCCTTTTGCCTGTTTA
1 ATTCACCCTTTTGCCTGTTTA
46350650 ATT
1 ATT
46350653 GATTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.27, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTCACCCTTTTGCCTGTTTA
Found at i:46352612 original size:2 final size:2
Alignment explanation
Indices: 46352605--46352636 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46352595 ATAAGAACGA
46352605 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46352637 GGATTCGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46360836 original size:31 final size:31
Alignment explanation
Indices: 46360798--46360860 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
46360788 CCATCCTATG
46360798 TTCAAAAAAAAATAATTTAAATTAATAAGAT
1 TTCAAAAAAAAATAATTTAAATTAATAAGAT
* * *
46360829 TTCAAAAATAAATAGTTTAAATTAATCAGAT
1 TTCAAAAAAAAATAATTTAAATTAATAAGAT
46360860 T
1 T
46360861 AAAGAGAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (31 bp):
TTCAAAAAAAAATAATTTAAATTAATAAGAT
Found at i:46362470 original size:21 final size:22
Alignment explanation
Indices: 46362422--46362471 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
46362412 ACAATGTAAA
46362422 AGCAAAATGACAACAAAACAAC
1 AGCAAAATGACAACAAAACAAC
* *
46362444 ATCAAAATGACAAC-AAACAAT
1 AGCAAAATGACAACAAAACAAC
46362465 AGCAAAA
1 AGCAAAA
46362472 CAATAGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (22 bp):
AGCAAAATGACAACAAAACAAC
Found at i:46362488 original size:11 final size:11
Alignment explanation
Indices: 46362458--46362488 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46362448 AAATGACAAC
46362458 AAACAATAGCA
1 AAACAATAGCA
46362469 AAACAATAGCA
1 AAACAATAGCA
*
46362480 AAATAATAG
1 AAACAATAG
46362489 TAATCAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.13, G:0.10, T:0.13
Consensus pattern (11 bp):
AAACAATAGCA
Found at i:46366903 original size:27 final size:26
Alignment explanation
Indices: 46366855--46366914 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
46366845 GCGAGGCTGC
*
46366855 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46366882 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
46366908 CAGATAT
1 CAGATAT
46366915 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46374686 original size:27 final size:27
Alignment explanation
Indices: 46374656--46374717 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
46374646 TCAAATGGAC
46374656 AAAAATGGATGGGAATGATATAGTTAG
1 AAAAATGGATGGGAATGATATAGTTAG
46374683 AAAAATGGATGGGAATGATATAGTTAG
1 AAAAATGGATGGGAATGATATAGTTAG
*
46374710 AAATATGG
1 AAAAATGG
46374718 GTTACATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (27 bp):
AAAAATGGATGGGAATGATATAGTTAG
Found at i:46375436 original size:42 final size:42
Alignment explanation
Indices: 46375377--46375460 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
46375367 TCCTACTGAA
46375377 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
1 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
46375419 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
1 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
46375461 TTCAAGCTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (42 bp):
AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
Found at i:46377571 original size:40 final size:40
Alignment explanation
Indices: 46377516--46377595 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
46377506 GTTGTCATGA
46377516 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
1 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
46377556 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
1 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
46377596 ATTTTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (40 bp):
TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
Found at i:46378055 original size:15 final size:15
Alignment explanation
Indices: 46378029--46378068 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
46378019 AATTTCTTAT
46378029 GATTTCCCCAAAAATC
1 GATTT-CCCAAAAATC
46378045 GATTTCCCAAAAATC
1 GATTTCCCAAAAATC
46378060 GATTTCCCA
1 GATTTCCCA
46378069 TTTGTCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (15 bp):
GATTTCCCAAAAATC
Found at i:46380113 original size:47 final size:47
Alignment explanation
Indices: 46380056--46380152 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
46380046 TTAAGTTAAT
*
46380056 TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGCA
1 TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGAA
*
46380103 TTAATGTCAAGGCAAGCTATGTAAATTTCATAGGGAATTACTAAGAA
1 TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGAA
46380150 TTA
1 TTA
46380153 GTAATGCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (47 bp):
TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGAA
Found at i:46386033 original size:46 final size:46
Alignment explanation
Indices: 46385968--46386079 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
46385958 TTATCTTTGA
* * * * * * *
46385968 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACCCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACCCATTTCATGC
***
46386014 CATGTTGCCATGGTATCTTTCAACCATGGTCCTGTTCATTTCATGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACCCATTTCATGC
*
46386060 CACGTTGCCATGGTATCTTT
1 CATGTTGCCATGGTATCTTT
46386080 TGTAACATCC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCCTACCCATTTCATGC
Found at i:46396814 original size:46 final size:45
Alignment explanation
Indices: 46396744--46396911 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 45
46396734 GGGCTATTAC
**
46396744 ATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGAT
1 ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATG-T
* *
46396790 ATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATCGT
1 ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCAT-GT
** *
46396836 ATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCAT-GT
* **
46396882 ATCTTTCAACCATGGTTTTACACATTTCAT
1 ATCTTTCAACCATGGTCTTATTCATTTCAT
46396912 TTCAGAAAGC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 109 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.41
Consensus pattern (45 bp):
ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGT
Found at i:46396908 original size:92 final size:92
Alignment explanation
Indices: 46396744--46396911 Score: 246
Period size: 92 Copynumber: 1.8 Consensus size: 92
46396734 GGGCTATTAC
** * *
46396744 ATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGATATCTTTCAACCATGGTCTT
1 ATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGCCATGATATCTTTCAACCATGGTCTT
***
46396809 GTTCATTTCATGTCACGTTGCCATCGT
66 ACACATTTCATGTCACGTTGCCATCGT
* * *
46396836 ATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTTTT
1 ATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGCCATGATATCTTTCAACCATGGTCTT
46396901 ACACATTTCAT
66 ACACATTTCAT
46396912 TTCAGAAAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 66 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.41
Consensus pattern (92 bp):
ATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGCCATGATATCTTTCAACCATGGTCTT
ACACATTTCATGTCACGTTGCCATCGT
Found at i:46401131 original size:33 final size:34
Alignment explanation
Indices: 46401081--46401168 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
46401071 TTTCTGATTG
* * * *
46401081 CATACT-ATACTGATACTGTAATGTGCTTAGGAC
1 CATACTGATACTGTTACTGAAATGGGCTCAGGAC
*
46401114 C-TACTGATACTGTTACTGAAATGGGCTCAGGTC
1 CATACTGATACTGTTACTGAAATGGGCTCAGGAC
* *
46401147 CAGACTGCTACTGTTACTGAAA
1 CATACTGATACTGTTACTGAAA
46401169 AGGGTTAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
32 4 0.09
33 24 0.52
34 18 0.39
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (34 bp):
CATACTGATACTGTTACTGAAATGGGCTCAGGAC
Found at i:46404944 original size:947 final size:948
Alignment explanation
Indices: 46403078--46404974 Score: 3564
Period size: 947 Copynumber: 2.0 Consensus size: 948
46403068 AATCTAATAG
* *
46403078 ATATATTTATGAATCATGTCTTTTTTTTTTAGAATATGAATTCTTCATTCAGACTGTCTATCTAT
1 ATATATTTATGAATCATGTCTTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCTATCTAT
* *
46403143 TTACCCGTGGATACAAAAAATTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAAT
66 TTACCCGTGAATACAAAAAAGTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAAT
*
46403208 TTATTTTTCAACTGAATAACCCGTTTTGATTAAAACAGAGTCTATCTTAGCTGTCAAATAATAAC
131 TTATTTTTCAACTGAATAACCCGTTCTGATTAAAACAGAGTCTATCTTAGCTGTCAAATAATAAC
46403273 ATTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCT
196 ATTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCT
*
46403338 TCAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCTGAATTTGGGGCTAGAAGTAT
261 TCAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTAT
*
46403403 TGGGCCTTTAGCATGGGTCTGTAAGGAGGTTGTATATAAGCATTTAATTGTACAACGAAATGACA
326 TGGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAACGAAATGACA
46403468 CAATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTGTTAGAGAAATCTTAGGTTCAAAC
391 CAATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTGTTAGAGAAATCTTAGGTTCAAAC
46403533 CTGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTT
456 CTGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTT
*
46403598 TAAATTGTTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAA
521 TAAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAA
*
46403663 TTTGCAAGGGAGCCTGGGTTCAAGTCTTGGCTCTTGCAATTTATTTTGGTTTTTCTTTTAAAGGA
586 TTTGCAAGGGAACCTGGGTTCAAGTCTTGGCTCTTGCAATTTATTTTGGTTTTTCTTTTAAAGGA
46403728 ACCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTG
651 ACCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTG
* *
46403793 TGGTGGAGTGGCAAGGTGGCGTGTTGTGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGTGC
716 TGGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGCGC
*
46403858 AATGGAGTATTTATTTTGCTAATTTAGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTT
781 AATAGAGTATTTATTTTGCTAATTTAGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTT
46403923 GAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCGGCTTGGCCAGTTA
846 GAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCGGCTTGGCCAGTTA
*
46403988 CTCGAGATTCGCGATTATTTCATTTCCTGATGCTAGCA
911 CTCGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
46404026 ATATATTTATGAATCATGTC-TCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCTATCTAT
1 ATATATTTATGAATCATGTCTTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCTATCTAT
*
46404090 TTACCCGTGAATACAAAAAAGTTATTTCCAAACTTGAGGGTAAAATTAAATGGATATAACTCAAT
66 TTACCCGTGAATACAAAAAAGTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAAT
*
46404155 TTATTTTTCAACTGAATAACTCGTTCTGATTAAAACAGAGTCTATCTTAGCTGTCAAATAATAAC
131 TTATTTTTCAACTGAATAACCCGTTCTGATTAAAACAGAGTCTATCTTAGCTGTCAAATAATAAC
46404220 ATTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCT
196 ATTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCT
46404285 TCAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTAT
261 TCAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTAT
* *
46404350 TGGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAAGGAAATTACA
326 TGGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAACGAAATGACA
* *
46404415 CAATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTGTTGGAGAAATCTTGGGTTCAAAC
391 CAATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTGTTAGAGAAATCTTAGGTTCAAAC
46404480 CTGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTT
456 CTGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTT
46404545 TAAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAA
521 TAAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAA
46404610 TTTGCAAGGGAACCTGGGTTCAAGTCTTGGCTCTTGCAATTTATTTTGGTTTTTCTTTTAAAGGA
586 TTTGCAAGGGAACCTGGGTTCAAGTCTTGGCTCTTGCAATTTATTTTGGTTTTTCTTTTAAAGGA
46404675 ACCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTG
651 ACCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTG
* *
46404740 TGGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAGGTCTAAGGTTCAAGTTTTGGGATGCGC
716 TGGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGCGC
*
46404805 AATAGAGTATTTATTTTGCT-ATTTGAGCTGTGTAGGAGGTGGAGTTGGACTGGAACTCTGTGGT
781 AATAGAGTATTTATTTTGCTAATTT-AGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGT
46404869 TGAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCGGCTTGGCCAGTT
845 TGAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCGGCTTGGCCAGTT
*
46404934 ACTTGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
910 ACTCGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
46404973 AT
1 AT
46404975 TTACAGTGGT
Statistics
Matches: 925, Mismatches: 23, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
946 4 0.00
947 901 0.97
948 20 0.02
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (948 bp):
ATATATTTATGAATCATGTCTTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCTATCTAT
TTACCCGTGAATACAAAAAAGTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAAT
TTATTTTTCAACTGAATAACCCGTTCTGATTAAAACAGAGTCTATCTTAGCTGTCAAATAATAAC
ATTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCT
TCAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTAT
TGGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAACGAAATGACA
CAATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTGTTAGAGAAATCTTAGGTTCAAAC
CTGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTT
TAAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAA
TTTGCAAGGGAACCTGGGTTCAAGTCTTGGCTCTTGCAATTTATTTTGGTTTTTCTTTTAAAGGA
ACCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTG
TGGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGCGC
AATAGAGTATTTATTTTGCTAATTTAGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTT
GAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCGGCTTGGCCAGTTA
CTCGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
Found at i:46407766 original size:21 final size:21
Alignment explanation
Indices: 46407742--46407785 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
46407732 GAATCTTTAG
*
46407742 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
46407763 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
46407784 TA
1 TA
46407786 ATTAGGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:46408593 original size:28 final size:28
Alignment explanation
Indices: 46408508--46408599 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
46408498 TGGGAAGTAG
*
46408508 TTGGTCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
46408536 TTAGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
46408564 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
46408592 TTGGGCCT
1 TTGGGCCT
46408600 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:46408944 original size:27 final size:27
Alignment explanation
Indices: 46408915--46409360 Score: 476
Period size: 27 Copynumber: 16.6 Consensus size: 27
46408905 TAATAAAGAG
*
46408915 AAATTACTGAAATACCC-CTGATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
46408942 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46408969 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** **
46408996 AAATTACCAAAACCCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46409023 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
46409050 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
46409077 AAATTA-TCAAAATACCCTC-AATTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
46409103 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
46409130 AAATTACTGAAATACCC-CTGATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
* * * *
46409157 AAATTACTAAAACACCCTCGATTTTTT
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
46409184 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46409211 AAATTATTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46409238 AAAATACTGAAATACCCTCGATTTGTC
1 AAATTACTGAAATACCCTCGATTTGTA
*
46409265 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
46409292 AAATTA-TCGAAACACCCCCGATTTGT-
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
46409318 AAATTA-TCGAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
46409345 AAATTACTGAAATACC
1 AAATTACTGAAATACC
46409361 TTTGTAGTGT
Statistics
Matches: 364, Mismatches: 45, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.01
26 42 0.12
27 317 0.87
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:46409368 original size:27 final size:27
Alignment explanation
Indices: 46409288--46409402 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
46409278 ACCATCGATT
* ** *
46409288 TGTAAAATTATCGAAACACCCCCGAT-T
1 TGTAAAATTATCGAAATA-CCCTTATAG
46409315 TGT-AAATTATCGAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTATAG
* *
46409341 TGTAAAATTA-CTGAAATACCTTTGTAG
1 TGTAAAATTATC-GAAATACCCTTATAG
*** * *
46409368 TGTAAAATGGCCGACATACCCCTATAG
1 TGTAAAATTATCGAAATACCCTTATAG
*
46409395 GGTAAAAT
1 TGTAAAAT
46409403 GTCTGTTTTG
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
25 5 0.07
26 17 0.24
27 48 0.68
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTATAG
Found at i:46410925 original size:30 final size:29
Alignment explanation
Indices: 46410891--46410954 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
46410881 ATGAATCGGA
*
46410891 AGCTTTGGCACTAAGTGGGCGATTTAAACT
1 AGCTTTGGCACTAAGTGCGCGATTT-AACT
46410921 AGCTTTGGCACTAAGTGCGCGATTTAACT
1 AGCTTTGGCACTAAGTGCGCGATTTAACT
46410950 AGCTT
1 AGCTT
46410955 CGGTTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGCGCGATTTAACT
Found at i:46429742 original size:40 final size:40
Alignment explanation
Indices: 46429563--46429782 Score: 150
Period size: 40 Copynumber: 5.5 Consensus size: 40
46429553 TCGTTCAAGT
* * * *
46429563 GCCTTCGGGACATAGCCCGG--TTATAGTAACTCATAC-AAT
1 GCCTTCGGGACTTAACCCGGAATTA-A-TAACTCACACAAAG
* * **
46429602 GCCTTCGGGACTTAACCC-GAATTTTAA-AACTCGCACGATT
1 GCCTTCGGGACTTAACCCGGAA--TTAATAACTCACACAAAG
* * * *
46429642 GCCTTCGGGACTTAACCCAGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAAG
*
46429682 GCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAAT
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAAG
** * * *
46429722 GCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAAT-TAATAACTCA-CACAAAG
*
46429762 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
46429783 CAGCATTCAA
Statistics
Matches: 148, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 31 0.21
40 100 0.68
41 13 0.09
42 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAAG
Found at i:46432969 original size:27 final size:27
Alignment explanation
Indices: 46432939--46433116 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46432929 ATATTGAGTC
* * * *
46432939 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46432966 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46432993 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46433021 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46433048 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46433075 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46433102 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46433117 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46433078 original size:82 final size:81
Alignment explanation
Indices: 46432960--46433115 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46432950 TGCTATATAA
* *
46432960 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46433025 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46433042 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46433106 CACTTAGTGC
65 CACTTAGTGC
46433116 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46433130 original size:82 final size:83
Alignment explanation
Indices: 46432939--46433130 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
46432929 ATATTGAGTC
* * * * *
46432939 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
46433003 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
46433021 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
46433082 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
46433102 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
46433131 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:46436344 original size:26 final size:26
Alignment explanation
Indices: 46436315--46436437 Score: 88
Period size: 27 Copynumber: 4.7 Consensus size: 26
46436305 TTAGTTTACC
*
46436315 AAATTACTGAAATACCCCTAGTTGTA
1 AAATTACCGAAATACCCCTAGTTGTA
** *
46436341 AAATTACC-AAAGTACCCCCGGTTATA
1 AAATTACCGAAA-TACCCCTAGTTGTA
* * * *
46436367 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATA-CCCCTAGTTGTA
* *
46436394 AGATTACCGAAATA-CCCTCAGTTTGCA
1 AAATTACCGAAATACCCCT-AG-TTGTA
* *
46436421 AAATTACTGAAACACCC
1 AAATTACCGAAATACCC
46436438 TCACATGTAA
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
25 5 0.07
26 29 0.40
27 37 0.51
28 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (26 bp):
AAATTACCGAAATACCCCTAGTTGTA
Found at i:46436418 original size:27 final size:27
Alignment explanation
Indices: 46436315--46436466 Score: 102
Period size: 26 Copynumber: 5.7 Consensus size: 27
46436305 TTAGTTTACC
*
46436315 AAATTACTGAAATACCC-CTAG-TTGTA
1 AAATTACCGAAATACCCTC-AGTTTGTA
* * *
46436341 AAATTACC-AAAGTACCC-CCGGTTATA
1 AAATTACCGAAA-TACCCTCAGTTTGTA
* *
46436367 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCGAAATACCCTCAG-TTTGTA
* *
46436394 AGATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCTCAGTTTGTA
* * **
46436421 AAATTACTGAAACACCCTCA-CATGTA
1 AAATTACCGAAATACCCTCAGTTTGTA
*
46436447 AAATTAAC-AAAGTACCCTCA
1 AAATTACCGAAA-TACCCTCA
46436467 AATTACAAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
25 7 0.07
26 46 0.46
27 46 0.46
28 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.26
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAGTTTGTA
Found at i:46436497 original size:27 final size:27
Alignment explanation
Indices: 46436459--46436653 Score: 214
Period size: 27 Copynumber: 7.2 Consensus size: 27
46436449 ATTAACAAAG
* *
46436459 TACCCTCAAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTATTT
* * *
46436487 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
46436514 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
46436541 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * *
46436568 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
46436595 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
*
46436622 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
46436649 TACCC
1 TACCC
46436654 CTATGGTGTT
Statistics
Matches: 144, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 129 0.90
28 14 0.10
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:46436532 original size:54 final size:54
Alignment explanation
Indices: 46436459--46436653 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
46436449 ATTAACAAAG
* * * *
46436459 TACCCTCAAATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTA-CTGTTT
1 TACCCTCAATTTA-TAAAATTACCATTTTACCCTCGATTTACAGAATTATC-GTTT
*
46436514 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * **
46436568 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* *
46436622 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCAATTTATAAAATTACCATTTTACCC
46436654 CTATGGTGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
54 112 0.90
55 13 0.10
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (54 bp):
TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
Found at i:46436559 original size:81 final size:81
Alignment explanation
Indices: 46436459--46436653 Score: 248
Period size: 81 Copynumber: 2.4 Consensus size: 81
46436449 ATTAACAAAG
* * *
46436459 TACCCTCAAATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCAAT
1 TACCCTCGATTTAC-AAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAAT
*
46436524 TTATAAAATTACCATTT
65 TTACAAAATTACCATTT
* * * * *
46436541 TACCCTCGATTTACAAAATTA-TCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACT-ATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAAT
* * *
46436605 TTACAGAATTATCGTTT
65 TTACAAAATTACCATTT
*
46436622 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTATTTTACCC
46436654 CTATGGTGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 84 0.87
82 12 0.12
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAATT
TACAAAATTACCATTT
Found at i:46436934 original size:27 final size:26
Alignment explanation
Indices: 46436890--46436941 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46436880 CTCACTGCAA
*
46436890 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
46436917 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
46436942 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:46436979 original size:67 final size:68
Alignment explanation
Indices: 46436871--46437009 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 68
46436861 GAGGAAGCGT
* * * * *
46436871 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCC-ACATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCAACATATATCTATTCTGGTGACCTAGCCACA
46436935 ATA
66 ATA
** * *
46436938 TCTGGCAGCCTTGCTGCAATCTAGTGGCTTCGCCATATATATATCTATTCTGGTGACCTAGCCAC
1 TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCA-ACATATATCTATTCTGGTGACCTAGCCAC
46437003 AATA
65 AATA
46437007 TCT
1 TCT
46437010 ATATCTGGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 30 0.49
69 31 0.51
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (68 bp):
TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCAACATATATCTATTCTGGTGACCTAGCCACA
ATA
Found at i:46437008 original size:26 final size:27
Alignment explanation
Indices: 46436978--46437036 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
46436968 CGCCATATAT
46436978 ATATCTAT-TCTGGTGACCTAGCCACA
1 ATATCTATATCTGGTGACCTAGCCACA
* * *
46437004 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTATATCTGGTGACCTAGCCACA
46437031 ATATCT
1 ATATCT
46437037 GGCAGCCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (27 bp):
ATATCTATATCTGGTGACCTAGCCACA
Found at i:46437187 original size:6 final size:6
Alignment explanation
Indices: 46437156--46437204 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
46437146 TTGCATTCAC
* *
46437156 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
46437205 TCACCTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 30 0.83
7 3 0.08
8 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46437235 original size:31 final size:31
Alignment explanation
Indices: 46437156--46437228 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
46437146 TTGCATTCAC
* * * *
46437156 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
*
46437187 ATTCTGATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
46437218 ATTCTGATTCT
1 ATTCTGATTCT
46437229 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTA
Found at i:46438790 original size:27 final size:27
Alignment explanation
Indices: 46438751--46438928 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
46438741 ATATTGAGCC
* * *
46438751 CGCACACTCAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46438778 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46438805 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46438833 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46438860 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46438887 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46438914 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46438929 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46438890 original size:82 final size:81
Alignment explanation
Indices: 46438772--46438927 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46438762 TGCTACATAA
* *
46438772 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46438837 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46438854 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46438918 CACTTAGTGC
65 CACTTAGTGC
46438928 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46439497 original size:13 final size:13
Alignment explanation
Indices: 46439479--46439503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46439469 TACTAAATTT
46439479 TCATGGATTCAAG
1 TCATGGATTCAAG
46439492 TCATGGATTCAA
1 TCATGGATTCAA
46439504 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:46446830 original size:27 final size:27
Alignment explanation
Indices: 46446791--46446968 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46446781 ATATTGAGCC
* * *
46446791 CGCACACTCAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46446818 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46446845 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46446873 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46446900 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
46446927 CGTACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46446954 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46446969 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46446934 original size:82 final size:81
Alignment explanation
Indices: 46446812--46446967 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
46446802 TGCTACATAA
* *
46446812 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46446877 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
46446894 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGTACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46446958 CACTTAGTGC
65 CACTTAGTGC
46446968 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46447537 original size:13 final size:13
Alignment explanation
Indices: 46447519--46447543 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46447509 TACTAAATTT
46447519 TCATGGATTCAAG
1 TCATGGATTCAAG
46447532 TCATGGATTCAA
1 TCATGGATTCAA
46447544 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:46450097 original size:27 final size:27
Alignment explanation
Indices: 46450046--46450167 Score: 127
Period size: 27 Copynumber: 4.5 Consensus size: 27
46450036 ATATTGAGTC
* * * * *
46450046 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAATT
** *
46450073 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
46450100 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
* *
46450127 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCAACATAGTCAATT
46450154 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46450168 TGTACAATTT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:46453400 original size:26 final size:26
Alignment explanation
Indices: 46453371--46453493 Score: 72
Period size: 27 Copynumber: 4.7 Consensus size: 26
46453361 TTAGTTTACC
46453371 AAATTACTGAAATACCCCTAGTTGTA
1 AAATTACTGAAATACCCCTAGTTGTA
* ** *
46453397 AAATTAC-CAAAGTACCCCCGGTTATA
1 AAATTACTGAAA-TACCCCTAGTTGTA
** * * *
46453423 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATA-CCCCTAGTTGTA
* *
46453450 AGATTA-TCGAAATA-CCCTCAGTTTGCA
1 AAATTACT-GAAATACCCCT-AG-TTGTA
*
46453477 AAATTACTGAAACACCC
1 AAATTACTGAAATACCC
46453494 TCACATGTAA
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
25 5 0.07
26 28 0.39
27 35 0.49
28 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (26 bp):
AAATTACTGAAATACCCCTAGTTGTA
Found at i:46453553 original size:27 final size:27
Alignment explanation
Indices: 46453515--46453709 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
46453505 ATTAACAAAG
* *
46453515 TACCCTCAAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTATTT
* * * *
46453543 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
46453570 CACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
46453597 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * *
46453624 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
46453651 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
*
46453678 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
46453705 TACCC
1 TACCC
46453710 CTATGGTGTT
Statistics
Matches: 142, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 128 0.90
28 13 0.09
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:46453588 original size:54 final size:54
Alignment explanation
Indices: 46453515--46453709 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
46453505 ATTAACAAAG
* * * * *
46453515 TACCCTCAAATTACAAAAATTACTATTTTACCCTCAATTTATAGAATTA-CTGTTT
1 TACCCTCAATTTA-TAAAATTACCATTTTACCCTCGATTTACAGAATTATC-GTTT
* *
46453570 CACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * **
46453624 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* *
46453678 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCAATTTATAAAATTACCATTTTACCC
46453710 CTATGGTGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
54 110 0.90
55 12 0.10
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (54 bp):
TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
Found at i:46453656 original size:81 final size:81
Alignment explanation
Indices: 46453515--46453709 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 81
46453505 ATTAACAAAG
* * * *
46453515 TACCCTCAAATTACAAAAATTACTATTTTACCCTCAATTTATAGAATTACTGTTTCACCCTCAAT
1 TACCCTCGATTTAC-AAAATTACCATTTTACCCTCAATTTATAGAATTACTATTTCACCCTCAAT
*
46453580 TTATAAAATTACCATTT
65 TTACAAAATTACCATTT
* * * * * *
46453597 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTATAGAATTACTATTTCACCCTCAATT
* * *
46453662 TACAGAATTATCGTTT
66 TACAAAATTACCATTT
46453678 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
46453710 CTATGGTGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 85 0.88
82 12 0.12
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTATAGAATTACTATTTCACCCTCAATT
TACAAAATTACCATTT
Found at i:46453990 original size:27 final size:26
Alignment explanation
Indices: 46453946--46453997 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46453936 CTCACTGCAA
*
46453946 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
46453973 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
46453998 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:46454035 original size:67 final size:68
Alignment explanation
Indices: 46453927--46454065 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 68
46453917 GAGGAAGCGT
* * * *
46453927 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCC-ACATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
46453991 ATA
66 ATA
** * *
46453994 TCTGGCAGCCTTGCTGCAATCTAGTGGCTTCGCCATATATATATCTGTTCTGGTGACCTAGCCAC
1 TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCA-ACATATATCTGTTCTGGTGACCTAGCCAC
46454059 AATA
65 AATA
46454063 TCT
1 TCT
46454066 ATATCTGGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 30 0.48
69 32 0.52
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (68 bp):
TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:46454074 original size:27 final size:26
Alignment explanation
Indices: 46454034--46454092 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
46454024 CGCCATATAT
*
46454034 ATATCTGTTCTGGTGACCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
46454060 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
46454087 ATATCT
1 ATATCT
46454093 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:46454243 original size:6 final size:6
Alignment explanation
Indices: 46454212--46454260 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
46454202 TTGCATTCAC
* *
46454212 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
46454261 TCACCTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 30 0.83
7 3 0.08
8 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46454282 original size:31 final size:31
Alignment explanation
Indices: 46454212--46454284 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
46454202 TTGCATTCAC
* * * *
46454212 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
*
46454243 ATTCTGATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
*
46454274 ATTTTGATTCT
1 ATTCTGATTCT
46454285 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTA
Found at i:46458360 original size:47 final size:47
Alignment explanation
Indices: 46458301--46458430 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
46458291 TGTGAGGAAA
* * * *
46458301 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTTGTGAAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAG-GAAAAGT
* *
46458348 TACCTTGATTTGGCTACGGGCCATAGTATAAGTACTCTAGGAAAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAAAAGT
*
46458395 TACCATGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
46458431 TATTGATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 70 0.96
48 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAAAAGT
Found at i:46476522 original size:29 final size:28
Alignment explanation
Indices: 46476490--46476557 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
46476480 ATAATATCAT
46476490 TATAATTTAATTATCATAAATTCA-T-ATTA
1 TATAATTTAATT-T-ATAAA-TCATTAATTA
* *
46476519 TATAAATTATATTTATATATCATTAATTA
1 TATAATTTA-ATTTATAAATCATTAATTA
46476548 TATAATTTAA
1 TATAATTTAA
46476558 AACAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 6 0.18
29 21 0.64
30 3 0.09
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
TATAATTTAATTTATAAATCATTAATTA
Found at i:46476523 original size:15 final size:14
Alignment explanation
Indices: 46476490--46476552 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
46476480 ATAATATCAT
*
46476490 TATAATTTA-ATTA
1 TATAAATTATATTA
46476503 TCATAAATTCATATTA
1 T-ATAAATT-ATATTA
46476519 TATAAATTATATTTA
1 TATAAATTATA-TTA
*
46476534 TATATCATTA-ATTA
1 TATA-AATTATATTA
46476548 TATAA
1 TATAA
46476553 TTTAAAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 1 0.02
14 16 0.38
15 16 0.38
16 9 0.21
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
TATAAATTATATTA
Found at i:46492135 original size:38 final size:38
Alignment explanation
Indices: 46491997--46492173 Score: 148
Period size: 37 Copynumber: 4.6 Consensus size: 38
46491987 ATTCAAGATG
* * * * *
46491997 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
46492037 TCCGGACTAAGATCTGAAGGCATTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAA
46492076 TCCGGGCTAAGCCCGAA-GCATTGGTGCGAG-TACTAAA
1 TCCGGGCTAAGCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
46492113 TCCGGGTTAAGTCCGAAGGCATT-TGTCGAGTTACTATAA
1 TCCGGGCTAAGCCCGAAGGCATTGTG-CGAGTTACTA-AA
*
46492152 T-C-GGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATT
46492174 TGAACTAGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
36 2 0.02
37 35 0.31
38 33 0.29
39 19 0.17
40 23 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:46498721 original size:25 final size:25
Alignment explanation
Indices: 46498687--46498734 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46498677 TAAAGAAATG
* *
46498687 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGAAAAAAAAAATGAT
*
46498712 GAAAACAAAAGAAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAAATG
46498735 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (25 bp):
GAAAAAAAAAGAAAAAAAAAATGAT
Found at i:46499367 original size:37 final size:37
Alignment explanation
Indices: 46499326--46499413 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
46499316 AACATAGACA
46499326 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
46499363 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
46499400 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
46499414 TAGGTAGCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (37 bp):
TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
Found at i:46500121 original size:39 final size:40
Alignment explanation
Indices: 46500013--46500195 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
46500003 TCGAATGATG
* * * *
46500013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAT
* * *
46500052 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAAT
*
46500093 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
*
46500132 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
* *
46500171 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
46500196 TAAACGAGTA
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:46500219 original size:79 final size:79
Alignment explanation
Indices: 46500068--46500230 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
46500058 ACTAAGATCT
* * ***
46500068 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGAAACGAGTTACTAAAT
*
46500133 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
46500147 GAAGGCATTGGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTAAACGAG-TAGCTA
1 GAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGAAACGAGTTA-CTA
* *
46500210 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
46500226 GAAGG
1 GAAGG
46500231 TACGTGATTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGAAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:46505504 original size:20 final size:20
Alignment explanation
Indices: 46505466--46505504 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46505456 TATGTGGGCC
46505466 ATATGGGCGTGTAGGCCCACA
1 ATATGGGCGTG-AGGCCCACA
46505487 ATATGGGCCGTG-GGCCCA
1 ATATGGG-CGTGAGGCCCA
46505505 TTTTCACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.18
Consensus pattern (20 bp):
ATATGGGCGTGAGGCCCACA
Found at i:46506668 original size:40 final size:40
Alignment explanation
Indices: 46506606--46506723 Score: 200
Period size: 40 Copynumber: 2.9 Consensus size: 40
46506596 TTACATAGCT
* *
46506606 GAAGCTATCTCGATCTCGTACACTAAGTGCCACATATAACC
1 GAAGCTATGTCGA-ATCGTACACTAAGTGCCACATATAACC
46506647 GAAGCTATGTCGAATCGTACACTAAGTGCCACATATAACC
1 GAAGCTATGTCGAATCGTACACTAAGTGCCACATATAACC
*
46506687 GAAGCTATGTCGAATCGTACACTAAGTGCCATATATA
1 GAAGCTATGTCGAATCGTACACTAAGTGCCACATATA
46506724 TATAGCCAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 62 0.84
41 12 0.16
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
GAAGCTATGTCGAATCGTACACTAAGTGCCACATATAACC
Found at i:46508087 original size:22 final size:24
Alignment explanation
Indices: 46508059--46508102 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
46508049 TATGGCAAGA
46508059 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
46508081 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
46508103 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:46511212 original size:10 final size:10
Alignment explanation
Indices: 46511197--46511235 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
46511187 TGCTTTTGTA
46511197 CATGATATGC
1 CATGATATGC
46511207 CATGATATGC
1 CATGATATGC
46511217 ACATGATATGC
1 -CATGATATGC
46511228 CATGATAT
1 CATGATAT
46511236 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:46511221 original size:21 final size:21
Alignment explanation
Indices: 46511196--46511235 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
46511186 CTGCTTTTGT
46511196 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
46511217 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
46511236 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:46511318 original size:25 final size:25
Alignment explanation
Indices: 46511280--46511349 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
46511270 AGGAAGTGCT
* *
46511280 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
46511305 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
46511330 AAAAGGGCTTTGCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46511350 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:46511362 original size:24 final size:24
Alignment explanation
Indices: 46511305--46511376 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
46511295 CAGTTTACCG
*
46511305 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCTCCAG-TTATC
*
46511329 AAAA-AGGGCTTTGCTCCAGTTATT
1 AAAAGA-GGCTTTGCTCCAGTTATC
**
46511353 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTG-CTCCAGTTAT
46511377 AAGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 17 0.43
25 23 0.57
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCTCCAGTTATC
Found at i:46516523 original size:27 final size:27
Alignment explanation
Indices: 46516492--46516669 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
46516482 TAAATTGTAC
*
46516492 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
46516519 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
46516545 ATGCACCAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGAATTGACT-ATGT
* *
46516573 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * **
46516601 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
46516628 AGCACTAAGTGTGCGAATTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
46516655 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46516670 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 22 0.17
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:46516660 original size:82 final size:81
Alignment explanation
Indices: 46516489--46516669 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
46516479 GATTAAATTG
* *
46516489 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACCAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCATGCACCAA
46516554 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** * *
46516570 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCAT-GCACC
*
46516634 AAGTGTGCGAATTGATTA
64 AAGTGTGCGAATTGATCA
* *
46516652 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46516670 GGCTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 19 0.22
82 66 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCATGCACCAA
GTGTGCGAATTGATCA
Found at i:46522706 original size:49 final size:50
Alignment explanation
Indices: 46522537--46522728 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
46522527 TGTGAGGTTG
* ** * *
46522537 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTAGGTCA
* * * * **
46522588 CATGTTTAGTACTAATTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCA
* * * *
46522638 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCA
*
46522687 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
46522729 CTTCGGCTAC
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 42 0.36
50 43 0.36
51 33 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCA
Found at i:46522726 original size:99 final size:101
Alignment explanation
Indices: 46522539--46522726 Score: 263
Period size: 99 Copynumber: 1.9 Consensus size: 101
46522529 TGAGGTTGCA
* ** * *
46522539 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGATAACTTCGATCACATGTTTAGTACTAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTCGATCACATGTGTAGTACTAAG
* *
46522604 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
* * *
46522640 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTCGATCACATGTGTAGTACTAAG
*
46522703 TGCAGGCTACTATGCGTACCAGAT
66 TGCAGGCTACTACGCGTACCAGAT
46522727 AACTTCGGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 38 0.50
100 2 0.03
101 36 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
Found at i:46524918 original size:21 final size:21
Alignment explanation
Indices: 46524893--46524942 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
46524883 TGCTTTTGTA
46524893 CATGATATGCACATGATATGC
1 CATGATATGCACATGATATGC
46524914 CATGATATGCACATGATATGC
1 CATGATATGCACATGATATGC
46524935 CATGATAT
1 CATGATAT
46524943 ATTCACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (21 bp):
CATGATATGCACATGATATGC
Found at i:46524919 original size:10 final size:11
Alignment explanation
Indices: 46524892--46524942 Score: 88
Period size: 11 Copynumber: 4.8 Consensus size: 11
46524882 CTGCTTTTGT
46524892 ACATGATATGC
1 ACATGATATGC
46524903 ACATGATATGC
1 ACATGATATGC
46524914 -CATGATATGC
1 ACATGATATGC
46524924 ACATGATATGC
1 ACATGATATGC
46524935 -CATGATAT
1 ACATGATAT
46524943 ATTCACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.46
11 21 0.54
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (11 bp):
ACATGATATGC
Found at i:46525063 original size:24 final size:25
Alignment explanation
Indices: 46524987--46525053 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
46524977 AGGAGGTGCT
* *
46524987 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
46525012 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
46525037 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
46525054 ATTATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:46526274 original size:7 final size:8
Alignment explanation
Indices: 46526257--46526282 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
46526247 GTTCACACAC
46526257 AAAAATAA
1 AAAAATAA
46526265 AAAAATAA
1 AAAAATAA
46526273 AAAAATAA
1 AAAAATAA
46526281 AA
1 AA
46526283 TTTGGAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:46526857 original size:18 final size:18
Alignment explanation
Indices: 46526834--46526877 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
46526824 ACAATTCAAT
46526834 CCAAAATTGACATTGTTA
1 CCAAAATTGACATTGTTA
*
46526852 CCAAAATTGACATTTTTA
1 CCAAAATTGACATTGTTA
46526870 CCAAAATT
1 CCAAAATT
46526878 CACTTTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (18 bp):
CCAAAATTGACATTGTTA
Found at i:46544062 original size:52 final size:51
Alignment explanation
Indices: 46543946--46544123 Score: 236
Period size: 51 Copynumber: 3.5 Consensus size: 51
46543936 CGGATACCCG
* * * *
46543946 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAACCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTATCTTCTTCACAAA
46543997 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATC-TTCTTCACAAA
** * *
46544049 GTGGTATTCACATAGTACCACACTTGTGA-CCAAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAAA
*
46544098 GTGGCCTTCACATAGAACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
46544124 AGTCACTAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 32 0.28
51 43 0.38
52 39 0.34
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAAA
Found at i:46546189 original size:27 final size:27
Alignment explanation
Indices: 46546159--46546226 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
46546149 TACTAAGGGG
46546159 ATTGGCGATTTTATCACATTATATATT
1 ATTGGCGATTTTATCACATTATATATT
* * * *
46546186 ATTGGTGATATTATCACATTATTTGTT
1 ATTGGCGATTTTATCACATTATATATT
*
46546213 ATTTGGCAATTTTA
1 A-TTGGCGATTTTA
46546227 CTGCATTGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (27 bp):
ATTGGCGATTTTATCACATTATATATT
Found at i:46548540 original size:27 final size:27
Alignment explanation
Indices: 46548496--46548581 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
46548486 ATACATCTCA
*
46548496 TAGGGG-ATAACAGTCATTTTATCAAC
1 TAGGGGCATAATAGTCATTTTATCAAC
*
46548522 TAGGGGCATAATAGCCATTTTATCAAC
1 TAGGGGCATAATAGTCATTTTATCAAC
46548549 TAGGGGCATAATAGTCATTTTATCAAC
1 TAGGGGCATAATAGTCATTTTATCAAC
46548576 TAGGGG
1 TAGGGG
46548582 GTCCAGGTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 6 0.11
27 50 0.89
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (27 bp):
TAGGGGCATAATAGTCATTTTATCAAC
Found at i:46550107 original size:28 final size:26
Alignment explanation
Indices: 46550034--46550107 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 26
46550024 AGTAACATAA
* *
46550034 CAAAGCTACTAATAACAATAAACGTGG
1 CAAAGCCACTAAT-ACAGTAAACGTGG
*
46550061 CAAAGCCACCAGAGT--AGTAATTACGTGG
1 CAAAGCCACTA-A-TACAGTAA--ACGTGG
46550089 CAAAGCCACTAATACAGTA
1 CAAAGCCACTAATACAGTA
46550108 CTTCCTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
26 5 0.14
27 10 0.27
28 21 0.57
29 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
CAAAGCCACTAATACAGTAAACGTGG
Found at i:46558539 original size:28 final size:28
Alignment explanation
Indices: 46558499--46558572 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
46558489 ATACTTTTGG
*
46558499 CCCACTAGGCCCAATCTCAT-TCATATGA
1 CCCACTAGGCCCAATCACATCT-ATATGA
* *
46558527 CCCATTAGGCCCAAATCACATCTATATGG
1 CCCACTAGGCCC-AATCACATCTATATGA
46558556 CCCACTAGGCCCAATCA
1 CCCACTAGGCCCAATCA
46558573 ATTTTATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 16 0.40
29 23 0.57
30 1 0.03
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (28 bp):
CCCACTAGGCCCAATCACATCTATATGA
Found at i:46561983 original size:40 final size:39
Alignment explanation
Indices: 46561889--46562113 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
46561879 TATTCGAATG
* * * *
46561889 ATATCCAGGCTAAGCCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG-CT
* * * * *
46561930 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGGGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGCT
* * *
46561970 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-CT
* * * *
46562010 ATATCCGGGATAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-CT
* * * *
46562050 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-CT
*
46562090 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46562114 CTTGCGCAAG
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.82
41 27 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGCT
Found at i:46562062 original size:80 final size:80
Alignment explanation
Indices: 46561889--46562113 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 80
46561879 TATTCGAATG
* * * * *
46561889 ATATCCAGGCTAAGCCCCGAAGGCTTTTGTGCTAGGTGACTATAACC-GGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGA-TAAGACCCGAAGG
* *
46561953 CATTCGTGCGGGTTGCT
64 CATTCGTGCGAGTCGCT
* * *
46561970 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGATAAAACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGATAAGACCCGAAGGCA
* *
46562035 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
46562050 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGATAAGACCCGAAGGC
46562114 CTTGCGCAAG
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 87 0.71
81 34 0.28
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGATAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:46568403 original size:7 final size:7
Alignment explanation
Indices: 46568391--46568422 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
46568381 TAAAGAATTT
46568391 TTTTATC
1 TTTTATC
46568398 TTTTATC
1 TTTTATC
46568405 TTTTATC
1 TTTTATC
46568412 TTTTAT-
1 TTTTATC
46568418 TTTTA
1 TTTTA
46568423 GATATGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTATC
Found at i:46568983 original size:21 final size:22
Alignment explanation
Indices: 46568929--46568992 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
46568919 GACTTTTGAT
* *
46568929 CCAATAACTATAATT-TATCAAC
1 CCAATAAATATTATTCTATC-AC
**
46568951 CCAATATTTATT-TTCTATCAC
1 CCAATAAATATTATTCTATCAC
*
46568972 CCAATAAATATTATTCAATCA
1 CCAATAAATATTATTCTATCA
46568993 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (22 bp):
CCAATAAATATTATTCTATCAC
Found at i:46570396 original size:32 final size:32
Alignment explanation
Indices: 46570360--46570423 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
46570350 TTGTTAAGTA
46570360 AATTTGATGAATTTAACAATTAGGGATTAAAT
1 AATTTGATGAATTTAACAATTAGGGATTAAAT
46570392 AATTTGATGAATTTAACAATTAGGGATTAAAT
1 AATTTGATGAATTTAACAATTAGGGATTAAAT
46570424 TTGAGGTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.38
Consensus pattern (32 bp):
AATTTGATGAATTTAACAATTAGGGATTAAAT
Found at i:46576761 original size:20 final size:21
Alignment explanation
Indices: 46576736--46576775 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46576726 CTCTTAAAAT
46576736 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
46576756 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCCCGTGTGG
46576776 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:46578217 original size:46 final size:46
Alignment explanation
Indices: 46577981--46578335 Score: 197
Period size: 46 Copynumber: 7.5 Consensus size: 46
46577971 AGTCGATGTA
* * * * * *
46577981 ATGTCCCAGACATGGTCTTACACTGACTATTGAAATAGAGGCCGACGTC
1 ATGTCCCAGACAT-GTCTTACACTGGCT-CTCATATCGAGGCCGATG-C
** * * *
46578030 ATGTCCCAGACATGGTCTTACACTAACTCTCACATATCCATGTCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCT--CATATCGAGGCCGATG-C
* * ** *
46578080 ATGTTCGAGACATGGTCTTACACTAAAAC-CTC-TATACGTA--CTGATGCC
1 ATGTCCCAGACAT-GTCTTACACT--GGCTCTCATAT-CG-AGGCCGATG-C
* * * *
46578128 AGGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCATATCG-AGGCCGATGC
46578173 ATGTCCCAGACATGTCTTACACTGGCT-TACATATCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGGCTCT-CATATCGAGGCCGATGC
* * * * **
46578219 ATGTGCCAGACATGTCTTACACTAGCTCTCATCTCAATACCGATGCC
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATATCGAGGCCGATG-C
* * * *
46578266 ATGTCCTAGACATGGTCTTACACTGGCTCTCAGAAT-GTGGCTGATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCA-TATCGAGGCCGATGC
*
46578313 ATGTCCCAAACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
46578336 AGCACACAAA
Statistics
Matches: 245, Mismatches: 44, Indels: 37
0.75 0.13 0.11
Matches are distributed among these distances:
44 10 0.04
45 21 0.09
46 68 0.28
47 25 0.10
48 53 0.22
49 30 0.12
50 33 0.13
51 2 0.01
52 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTCATATCGAGGCCGATGC
Found at i:46578312 original size:94 final size:92
Alignment explanation
Indices: 46578130--46578343 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 92
46578120 CTGATGCCAG
*
46578130 GTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTAC
1 GTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCTTAC
*
46578193 ACTGGCTTACATATCGAGGCCGATGCAT
65 ACTGGCTTACAAATCGAGGCCGATGCAT
* * * *
46578221 GTGCCAGACATGTCTTACACTAGCTCTCATCTCAATA-CCGATGCCATGTCCTAGACATGGTCTT
1 GTCCCAGACATGTCTTACACTAGCACACATCTC-ATAGCCGATG-CATGTCCCAGACAT-GTCTT
* *
46578285 ACACTGGCTCT-CAGAAT-GTGGCTGATGCAT
63 ACACTGGCT-TACA-AATCGAGGCCGATGCAT
*
46578315 GTCCCAAACATGTCTTACACTAGCACACA
1 GTCCCAGACATGTCTTACACTAGCACACA
46578344 AATAACCTAA
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
90 10 0.10
91 11 0.11
92 13 0.12
93 15 0.14
94 52 0.50
95 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (92 bp):
GTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCTTACA
CTGGCTTACAAATCGAGGCCGATGCAT
Found at i:46587528 original size:13 final size:13
Alignment explanation
Indices: 46587510--46587534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46587500 AATTGATATC
46587510 TGTGAAAATTTTG
1 TGTGAAAATTTTG
46587523 TGTGAAAATTTT
1 TGTGAAAATTTT
46587535 ATCGTTTGTG
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:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:46593526 original size:27 final size:27
Alignment explanation
Indices: 46593488--46593567 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
46593478 CTCAGATCGA
46593488 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
46593515 TAAAATAACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
46593542 TAAGATGACTGTTTTGCCCTTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
46593568 ATGTATGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:46594974 original size:48 final size:48
Alignment explanation
Indices: 46594917--46595141 Score: 333
Period size: 48 Copynumber: 4.7 Consensus size: 48
46594907 AATGTGTGCT
46594917 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* *
46594965 GGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* * *
46595013 AATGTAAGACCATGTTGGGAGCATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* * * ** *
46595061 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* *
46595109 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGC
46595142 CTCGACATGT
Statistics
Matches: 161, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
Found at i:46595075 original size:25 final size:24
Alignment explanation
Indices: 46594951--46595075 Score: 55
Period size: 25 Copynumber: 5.2 Consensus size: 24
46594941 GGCATCGGCA
*
46594951 ATGTTATGAGAGCCGGTGTAAGACC
1 ATGTTATGAGAGCC-ATGTAAGACC
* * * *
46594976 ATGTT-TG-GA-ACATGGCATCGACA
1 ATGTTATGAGAGCCAT-GTA-AGACC
46594999 ATGTTATGAGAGCCAATGTAAGACC
1 ATGTTATGAGAGCC-ATGTAAGACC
* * * * *
46595024 ATG-T-TGGGAG-CATGGCATCGGCA
1 ATGTTATGAGAGCCAT-GTA-AGACC
46595047 ATGTTATGAGAGCCAGTGTAAGACC
1 ATGTTATGAGAGCCA-TGTAAGACC
46595072 ATGT
1 ATGT
46595076 CTGGGACATG
Statistics
Matches: 69, Mismatches: 19, Indels: 24
0.62 0.17 0.21
Matches are distributed among these distances:
21 3 0.04
22 6 0.09
23 20 0.29
24 6 0.09
25 24 0.35
26 7 0.10
27 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (24 bp):
ATGTTATGAGAGCCATGTAAGACC
Found at i:46595085 original size:96 final size:95
Alignment explanation
Indices: 46594919--46595187 Score: 333
Period size: 96 Copynumber: 2.8 Consensus size: 95
46594909 TGTGTGCTAG
* * *
46594919 TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCCGGTGTAAGACCATGTTTGG
1 TGTAAGACCATG-TTGGGACATGGCATCGGCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGG
* **
46594984 AACATGGCATCGACAATGTTATGAGAGCCAA
65 GACATGGCATCGACAATGAGATGAGAGCCAA
46595015 TGTAAGACCATGTTGGGAGCATGGCATCGGCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTTGGGA-CATGGCATCGGCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
46595080 GACATGGCATCGGCATTGAGATGAGAGCTAG
65 GACATGGCATCGACAATGAGATGAGAGCCAA
* ** * * * * *
46595111 TGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGACATGTGAGACATTGTAAGACCATGCCTA
1 TGTAAGACCATGT-TGGGACATGGCATCGGCAAT-GTTATGAGAGCCAGTGTAAGACCATGTCTG
46595175 GGACATGGCATCG
64 GGACATGGCATCG
46595188 GTAATTTACC
Statistics
Matches: 152, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
95 6 0.04
96 141 0.93
97 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
TGTAAGACCATGTTGGGACATGGCATCGGCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGACAATGAGATGAGAGCCAA
Found at i:46595163 original size:48 final size:46
Alignment explanation
Indices: 46594917--46595188 Score: 267
Period size: 48 Copynumber: 5.7 Consensus size: 46
46594907 AATGTGTGCT
* * **
46594917 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGACATGAGAG-C
* * * * **
46594965 GGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGACATGAGAG-C
* **
46595013 AATGTAAGACCATGT-TGGGAGCATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGA-CATGGCATCGGC-ATGACATGAGAG-C
*
46595061 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGACATGAGAGC
* *
46595108 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GACATGAGAG-C
* * *
46595157 ATTGTAAGACCATGCCTAGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
46595189 TAATTTACCC
Statistics
Matches: 203, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
47 7 0.03
48 190 0.94
49 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGACATGAGAGC
Found at i:46595182 original size:144 final size:144
Alignment explanation
Indices: 46594917--46595188 Score: 350
Period size: 144 Copynumber: 1.9 Consensus size: 144
46594907 AATGTGTGCT
* ** * *
46594917 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCCGGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCAATGAGATGAGAGCCAGTGTAAGACCATGTCT
** * * *
46594982 GGAACATGGCATCGACAATGTTATGAGAGCCAATGTAAGACCATGTTGGGAGCATGGCATCGGCA
66 GGAACATGGCATCGACAATGACATGAGAGACAATGTAAGACCATGCTAGGAGCATGGCATCGGCA
46595047 ATGTTATGAGAGCC
131 ATGTTATGAGAGCC
* * *
46595061 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCAATGAGATGAGAGCCAGTGTAAGACCATGTCT
* * * * *
46595126 GGGACATGGCATCGGC-CTCGACATGTGAGACATTGTAAGACCATGCCTAGGA-CATGGCATCGG
66 GGAACATGGCATCGACAAT-GACATGAGAGACAATGTAAGACCATG-CTAGGAGCATGGCATCGG
46595189 TAATTTACCC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
143 1 0.01
144 103 0.95
145 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCAATGAGATGAGAGCCAGTGTAAGACCATGTCT
GGAACATGGCATCGACAATGACATGAGAGACAATGTAAGACCATGCTAGGAGCATGGCATCGGCA
ATGTTATGAGAGCC
Found at i:46600955 original size:79 final size:81
Alignment explanation
Indices: 46600813--46600995 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
46600803 TACTCGTTCA
* *
46600813 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
46600877 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
46600893 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGTCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
46600955 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
46600972 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
46600996 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:46600995 original size:40 final size:40
Alignment explanation
Indices: 46600792--46600995 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
46600782 CGGAATTTAA
** *
46600792 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46600832 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46600872 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
46600911 CCGGA-ATTAGTAACTCGCACAAATGTCTT-TGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46600951 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46600991 CCGGA
1 CCGGA
46600996 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46609058 original size:79 final size:80
Alignment explanation
Indices: 46608916--46609096 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
46608906 TACTCGTTCA
* **
46608916 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
46608981 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
46608996 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
46609058 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
46609075 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
46609097 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.67
80 26 0.30
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:46609098 original size:40 final size:40
Alignment explanation
Indices: 46608895--46609098 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
46608885 CGGAATTTAA
** *
46608895 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46608935 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46608975 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46609014 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46609054 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46609094 CCGGA
1 CCGGA
46609099 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46611362 original size:39 final size:40
Alignment explanation
Indices: 46611319--46611486 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
46611309 CTCGTTCAAG
* * * *
46611319 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
46611358 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
46611398 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
46611438 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
46611478 TGCCTTCGG
1 TGCCTTCGG
46611487 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:46611499 original size:40 final size:40
Alignment explanation
Indices: 46611356--46611486 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
46611346 TAACTCATAC
* *
46611356 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
46611396 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
46611436 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
46611476 AATGCCTTCGG
1 AATGCCTTCGG
46611487 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:46611499 original size:80 final size:80
Alignment explanation
Indices: 46611319--46611539 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
46611309 CTCGTTCAAG
* * * * * * * *
46611319 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
46611383 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
*
46611398 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
46611460 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** * *
46611478 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAGAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
46611540 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 72 0.61
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:46612567 original size:10 final size:10
Alignment explanation
Indices: 46612552--46612580 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46612542 ATGAGAAATT
46612552 TTTTTCTTTG
1 TTTTTCTTTG
46612562 TTTTTCTTTG
1 TTTTTCTTTG
46612572 TTTTTCTTT
1 TTTTTCTTT
46612581 CTAGTTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTG
Found at i:46619335 original size:79 final size:77
Alignment explanation
Indices: 46619236--46619455 Score: 237
Period size: 79 Copynumber: 2.8 Consensus size: 77
46619226 CTCGTTCAAG
* * *
46619236 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAATGCCTTCGGGACTTAACCCGGATTTT
1 TGCCTTCGGGACTTAGCCCGG-TATAGTAACTCACACAA-GCCTTCGGGACTTAACCCGGA-ATT
*
46619301 AA-AACTCGCACGAA
63 AATAACTCGCACAAA
* * * *
46619315 TGCCTTCGGGACTTAACCCGGAATTCGTATCTCACACAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCACACAA-GCCTTCGGGACTTAACCCGGAATTA
46619380 ATAACTCGCACAAA
64 ATAACTCGCACAAA
* * * *
46619394 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAGAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAGCCCGG-TATAGTAACTCA-CACA-AGCCTTCGGGACTTAACCCGGA
46619456 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
78 8 0.07
79 84 0.71
80 25 0.21
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
TGCCTTCGGGACTTAGCCCGGTATAGTAACTCACACAAGCCTTCGGGACTTAACCCGGAATTAAT
AACTCGCACAAA
Found at i:46619415 original size:40 final size:39
Alignment explanation
Indices: 46619236--46619402 Score: 178
Period size: 39 Copynumber: 4.2 Consensus size: 39
46619226 CTCGTTCAAG
* * **
46619236 TGCCTTCGGGACATAGCCCGG--TTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAA
*
46619275 TGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCAC-AA
** * *
46619315 TGCCTTCGGGACTTAACCCGGAATTCGTATCTCACACAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAA
*
46619354 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCAC-AA
46619394 TGCCTTCGG
1 TGCCTTCGG
46619403 ATCTTAGTCC
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
39 62 0.58
40 41 0.38
41 1 0.01
42 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAA
Found at i:46620483 original size:10 final size:10
Alignment explanation
Indices: 46620468--46620496 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46620458 ATGAGAAATT
46620468 TTTTTCTTTG
1 TTTTTCTTTG
46620478 TTTTTCTTTG
1 TTTTTCTTTG
46620488 TTTTTCTTT
1 TTTTTCTTT
46620497 CTAGTTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTG
Found at i:46625636 original size:3 final size:3
Alignment explanation
Indices: 46625620--46625653 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
46625610 TGTATAACTG
*
46625620 TGA TGA T-A TTA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
46625654 TTAAGTCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.38
Consensus pattern (3 bp):
TGA
Found at i:46629999 original size:21 final size:21
Alignment explanation
Indices: 46629973--46630020 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
46629963 TCAACTTAGA
* *
46629973 GCGGAGGCAGCAGCGAGGTAG
1 GCGGAGGCAGCAACGAGGGAG
46629994 GCGGAGGCAGCAACGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
46630015 GCGGAG
1 GCGGAG
46630021 CAGAACAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.54, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:46630361 original size:43 final size:43
Alignment explanation
Indices: 46630314--46630603 Score: 350
Period size: 43 Copynumber: 6.7 Consensus size: 43
46630304 ACTGGGCAAA
* *
46630314 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAT-GTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGT-CCTGGTCT
* *
46630357 TTAGCGACGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGT-T
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * ** *
46630399 TCTAGCGGCGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
1 T-TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* *
46630443 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGGGCCTGGTCT
1 TTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * *
46630487 CTAGCGGCATTTTTTATAAAATCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * *
46630530 CTAGCGGAGTTTTTTATAGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
*
46630573 TTAGCGGCGTTTTTTATAAAAGTGCCGCTAA
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAA
46630604 TTTTTGTGGC
Statistics
Matches: 212, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
42 4 0.02
43 173 0.82
44 35 0.17
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:46630500 original size:86 final size:86
Alignment explanation
Indices: 46630315--46630603 Score: 398
Period size: 86 Copynumber: 3.3 Consensus size: 86
46630305 CTGGGCAAAT
* *
46630315 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACATGTCTTTAGCGACGTTTTTTATAAAAGC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCGTTTTTTATAAAAGC
*
46630380 GCCGCTAAAGGTCCTGGTTTC
66 GCCGCTAAAGGTCCTGGTCTC
* *
46630401 TAGCGGCGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTATTTAGCGGCGTTTTTTTATAAAAG
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCG-TTTTTTATAAAAG
*
46630466 CGCCGCTAAAGGGCCTGGTCTC
65 CGCCGCTAAAGGTCCTGGTCTC
* * * * * ** * * *
46630488 TAGCGGCATTTTTTATAAAATCGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTATAGAAGC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCGTTTTTTATAAAAGC
*
46630553 GCCGCTAAAGGTCCTGGTCTT
66 GCCGCTAAAGGTCCTGGTCTC
* *
46630574 TAGCGGCGTTTTTTATAAAAGTGCCGCTAA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAA
46630604 TTTTTGTGGC
Statistics
Matches: 179, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 106 0.59
87 73 0.41
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (86 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCGTTTTTTATAAAAGC
GCCGCTAAAGGTCCTGGTCTC
Found at i:46630518 original size:130 final size:128
Alignment explanation
Indices: 46630314--46630603 Score: 382
Period size: 130 Copynumber: 2.2 Consensus size: 128
46630304 ACTGGGCAAA
* * * *
46630314 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACATGTCTTTAGCGACGTTTTTTATAAAAG
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGGACATGTCTCTAGCGACATTTTTTATAAAAG
* *
46630379 CGCCGCTAAAGGTCCTGGTTTCTAGCGGCGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
65 CGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
* * *
46630443 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGGGCCTGGTCTCTAGCGGCATTTTTTATAAAA
1 TTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGGACAT-GTCTCTAGCGACATTTTTTATAAAA
* * * * * * ** *
46630508 TCGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTATAGAAGCGCCGCTAAAGGTCCTGGTCT
64 GCGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
*
46630573 TTAGCGGCGTTTTTTATAAAAGTGCCGCTAA
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAA
46630604 TTTTTGTGGC
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
129 36 0.26
130 104 0.74
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (128 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGACATGTCTCTAGCGACATTTTTTATAAAAGC
GCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
Found at i:46633521 original size:43 final size:42
Alignment explanation
Indices: 46633423--46633543 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
46633413 TAGGGTTGCT
* * *
46633423 GAGATTACGTTTAAGACCATATCTGGGATATGGCGTCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* *
46633465 GAGGCTT-CGTGTAAGACCAT-TCCTGGGCTATTGGCATCGATAC
1 GA-GATTACGTGTAAGACCATAT-CTGGGATA-TGGCATCGATAC
*
46633508 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
46633544 TGGTACAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.45
43 34 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:46635652 original size:27 final size:27
Alignment explanation
Indices: 46635614--46635813 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
46635604 TGGATAAATT
*
46635614 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46635641 GTAGAATTACCGAAATACACCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
46635668 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46635695 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
46635722 ATAGAATTACCGAAATACACTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
46635749 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
46635776 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46635803 GTAAAATTACC
1 GTAGAATTACC
46635814 ATTTTGCCCC
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:46641070 original size:18 final size:18
Alignment explanation
Indices: 46641033--46641071 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46641023 TTGGAAATCA
*
46641033 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
46641051 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
46641069 AAA
1 AAA
46641072 ATCATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:46655835 original size:43 final size:42
Alignment explanation
Indices: 46655788--46655947 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
46655778 ATATATAATG
* **
46655788 CTGTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCA
1 CTGTCCCAAACGTGGTCTTACATAAAATCAAA-ATCGATGCCA
* * *
46655831 CTGTCCCAGACAG-GGTCTTACACAAAATC-AGATACGATGCCGA
1 CTGTCCCAAAC-GTGGTCTTACATAAAATCAAAAT-CGATGCC-A
*
46655874 -TGTCCCAAACATGGTCTTACACTTAAAA-CAAAAGTCGATGCCA
1 CTGTCCCAAACGTGGTCTTACA--TAAAATCAAAA-TCGATGCCA
* *
46655917 ATGTCCCAAACTTGGT-TTACATAAAATCAAA
1 CTGTCCCAAACGTGGTCTTACATAAAATCAAA
46655948 TAATGGAATC
Statistics
Matches: 98, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
41 7 0.07
42 30 0.31
43 32 0.33
44 28 0.29
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
CTGTCCCAAACGTGGTCTTACATAAAATCAAAATCGATGCCA
Done.