Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 22 of 320
Found at i:6292483 original size:15 final size:15
Alignment explanation
Indices: 6292465--6292505 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6292455 GAGAAACCCG
6292465 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
6292480 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
6292495 GGATAAAGAAA
1 GAATAAAGAAA
6292506 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:6292514 original size:15 final size:15
Alignment explanation
Indices: 6292467--6292514 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
6292457 GAAACCCGGA
6292467 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
6292481 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
6292497 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
6292512 ATA
1 ATA
6292515 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:6295545 original size:93 final size:93
Alignment explanation
Indices: 6295433--6295604 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
6295423 GCCCATAAGT
* *
6295433 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6295498 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
6295526 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
6295591 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
6295605 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:6295600 original size:46 final size:46
Alignment explanation
Indices: 6295425--6295600 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
6295415 TGTAACCCGC
* *
6295425 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
6295471 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
6295517 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
6295564 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
6295601 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
46 74 0.67
47 36 0.33
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:6297080 original size:31 final size:32
Alignment explanation
Indices: 6297027--6297086 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
6297017 AATTCGTTCA
*
6297027 CACCTATGTTCACATGGCAAGACTATTCAGTT
1 CACCTATGTTCACATAGCAAGACTATTCAGTT
*
6297059 CACCT-TGTTCACACTAG-AAGACTCTTCA
1 CACCTATGTTCACA-TAGCAAGACTATTCA
6297087 ACATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (32 bp):
CACCTATGTTCACATAGCAAGACTATTCAGTT
Found at i:6298681 original size:19 final size:19
Alignment explanation
Indices: 6298657--6298696 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6298647 TTTAATTTTG
*
6298657 ATCAAGTTAATTTAAATTA
1 ATCAAGTTAATTAAAATTA
6298676 ATCAAGTTAATTAAAATTA
1 ATCAAGTTAATTAAAATTA
6298695 AT
1 AT
6298697 ATGATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
ATCAAGTTAATTAAAATTA
Found at i:6303930 original size:120 final size:118
Alignment explanation
Indices: 6303683--6303932 Score: 256
Period size: 120 Copynumber: 2.1 Consensus size: 118
6303673 GGCTTATTTA
* * * *
6303683 TGAAAGTAATGAATGAGAAAAAGGTTCGAAAGATTAATGAAAGATTAAAGGAACTTTTTTGTTAA
1 TGAAAGTAATGAATGAGAAAAAGGTTCAAAAGATTAATGAAAGATTAAAGGAACATATTTGCTAA
* * **
6303748 TACATTGAACCTAAAGATAGAACCAATTGGCTATTTACTTGCAGGCTTATTTC
66 TACATTGAACATAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTACCTC
* * *
6303801 TGAAGGTAATGAATGAGAAAAAAATGGTGT-AAAAGATTAGTGAAAGTTTAAAGGAA-ATATTTG
1 TGAAAGTAATGAATGAG--AAAAA-GGT-TCAAAAGATTAATGAAAGATTAAAGGAACATATTTG
* * * * * * *
6303864 CTAATACA-TGAAACATAAAGATGGAATCAGTTAG-TAATTTTCTTGTAGGCTTGCCTG
62 CTAATACATTG-AACATAAAGATAGAACCAATTAGCT-ATTTACTTGCAGGCTTACCTC
6303921 TGAAAGTAATGA
1 TGAAAGTAATGA
6303933 TTTTGGATGA
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
118 16 0.15
119 3 0.03
120 61 0.57
121 26 0.24
122 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (118 bp):
TGAAAGTAATGAATGAGAAAAAGGTTCAAAAGATTAATGAAAGATTAAAGGAACATATTTGCTAA
TACATTGAACATAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTACCTC
Found at i:6306765 original size:31 final size:31
Alignment explanation
Indices: 6306730--6306798 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
6306720 ACTTTCAAAA
6306730 GTTACATAATAGTAACTAATGTTATCAAATT
1 GTTACATAATAGTAACTAATGTTATCAAATT
* * * *
6306761 GTTACATAGTAGTCATTAATGTTATCAACTT
1 GTTACATAATAGTAACTAATGTTATCAAATT
*
6306792 GTAACAT
1 GTTACAT
6306799 TTTCATCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
GTTACATAATAGTAACTAATGTTATCAAATT
Found at i:6307789 original size:21 final size:21
Alignment explanation
Indices: 6307764--6307809 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6307754 TCTCTCTTTA
6307764 TTTTA-TAATAATTTTTAATTT
1 TTTTAGTAATAA-TTTTAATTT
**
6307785 TTTTAGTTTTAATTTTAATTT
1 TTTTAGTAATAATTTTAATTT
6307806 TTTT
1 TTTT
6307810 TAGATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAGTAATAATTTTAATTT
Found at i:6307810 original size:22 final size:21
Alignment explanation
Indices: 6307776--6307817 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
6307766 TTATAATAAT
*
6307776 TTTTAATTTTTTTAGTTTTAA
1 TTTTAATTTTTTTAGATTTAA
6307797 TTTTAATTTTTTTTAGATTTA
1 TTTTAA-TTTTTTTAGATTTA
6307818 TATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTAATTTTTTTAGATTTAA
Found at i:6317263 original size:54 final size:53
Alignment explanation
Indices: 6317179--6317340 Score: 182
Period size: 54 Copynumber: 3.0 Consensus size: 53
6317169 CCATGGCAAC
* * * *
6317179 ATGTGATATGTGATTTTCATATAAGGCCATAGCTGGGTTATGGCATCGGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
* * * * *
6317232 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGCTATGTCATCAGAGAG
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
* * * *
6317286 ATATGATTATGT-ACTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
6317339 AT
1 AT
6317341 ATGTGCCACT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 42 0.47
54 47 0.52
55 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
Found at i:6317362 original size:47 final size:47
Alignment explanation
Indices: 6317302--6317392 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
6317292 TTATGTACTT
*
6317302 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCCA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGCCA
* *
6317349 CTGTATAAGACCATATTTGGGATATGGCATTAGTGTGATATGTG
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG
6317393 ATCCGTGTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGCCA
Found at i:6319311 original size:6 final size:6
Alignment explanation
Indices: 6319302--6319339 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
6319292 CAGCTACTGC
*
6319302 TATTGT TATTGT TATTGT TATTGT TACTGT TATTGT TA
1 TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT TA
6319340 CCGTTACGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.16, T:0.63
Consensus pattern (6 bp):
TATTGT
Found at i:6319340 original size:12 final size:12
Alignment explanation
Indices: 6319305--6319345 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
6319295 CTACTGCTAT
*
6319305 TGTTATTGTTAT
1 TGTTATTGTTAC
6319317 TGTTATTGTTAC
1 TGTTATTGTTAC
6319329 TGTTATTGTTAC
1 TGTTATTGTTAC
*
6319341 CGTTA
1 TGTTA
6319346 CGGTGTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.59
Consensus pattern (12 bp):
TGTTATTGTTAC
Found at i:6319345 original size:18 final size:18
Alignment explanation
Indices: 6319306--6319346 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6319296 TACTGCTATT
* **
6319306 GTTATTGTTATTGTTATT
1 GTTACTGTTATTGTTACC
6319324 GTTACTGTTATTGTTACC
1 GTTACTGTTATTGTTACC
6319342 GTTAC
1 GTTAC
6319347 GGTGTATTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.56
Consensus pattern (18 bp):
GTTACTGTTATTGTTACC
Found at i:6319477 original size:18 final size:18
Alignment explanation
Indices: 6319454--6319497 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6319444 TAAATAAAGG
6319454 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
6319472 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
6319490 TACTGAAT
1 TACTGAAT
6319498 TAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:6323402 original size:23 final size:21
Alignment explanation
Indices: 6323350--6323445 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
6323340 CCTGATTAGT
** * *
6323350 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
* *
6323371 AAACGACACACGAGGTGTCTG
1 ATACGACACACGAGGTGCCTG
6323392 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
6323413 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
6323434 AAATACGACACA
1 --ATACGACACA
6323446 TAAAGTGCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 55 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:6323410 original size:42 final size:43
Alignment explanation
Indices: 6323350--6323455 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
6323340 CCTGATTAGT
* *
6323350 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGTCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * *
6323392 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
6323436 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
6323456 GATCAGTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 36 0.68
44 17 0.32
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:6368147 original size:28 final size:28
Alignment explanation
Indices: 6368088--6368149 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
6368078 CCTATTCATT
*
6368088 AACAGT-ACAGTCTGGGCCTAAACCCTA
1 AACAGTAACAGTCTGGGCCTAAACCCAA
* * **
6368115 TACAGTAACAGTGTGGGCCTATGCCCAA
1 AACAGTAACAGTCTGGGCCTAAACCCAA
6368143 AACAGTA
1 AACAGTA
6368150 TAATCATAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (28 bp):
AACAGTAACAGTCTGGGCCTAAACCCAA
Found at i:6368278 original size:20 final size:22
Alignment explanation
Indices: 6368253--6368303 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
6368243 AGCCAACTCA
*
6368253 CTAATA-T-CGCAACACAACTG
1 CTAATAGTACGCAACAAAACTG
6368273 CTAATAGTAACGCAACAAAACTG
1 CTAATAGT-ACGCAACAAAACTG
6368296 CTAATAGT
1 CTAATAGT
6368304 GGTAAACATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
23 20 0.74
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.22
Consensus pattern (22 bp):
CTAATAGTACGCAACAAAACTG
Found at i:6368288 original size:23 final size:23
Alignment explanation
Indices: 6368260--6368303 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6368250 TCACTAATAT
*
6368260 CGCAACACAACTGCTAATAGTAA
1 CGCAACAAAACTGCTAATAGTAA
6368283 CGCAACAAAACTGCTAATAGT
1 CGCAACAAAACTGCTAATAGT
6368304 GGTAAACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (23 bp):
CGCAACAAAACTGCTAATAGTAA
Found at i:6371052 original size:25 final size:24
Alignment explanation
Indices: 6370964--6371106 Score: 90
Period size: 25 Copynumber: 5.8 Consensus size: 24
6370954 GGCTCTTTAT
*
6370964 GAGCTTCCCGATTAATGGCTCTCCA
1 GAGCTTCCCG-TTAATGGCTTTCCA
* * * ** **
6370989 GAGCTCCCCGATATTGGCTCACTT
1 GAGCTTCCCGTTAATGGCTTTCCA
* * *
6371013 GAAACTTTCTGTTAATGGCTTTCCA
1 G-AGCTTCCCGTTAATGGCTTTCCA
* *
6371038 GAGCTTCCCGATTAATGACTTTTCA
1 GAGCTTCCCG-TTAATGGCTTTCCA
* * *
6371063 GAGCTACCCGTTATTGGC-TTACA
1 GAGCTTCCCGTTAATGGCTTTCCA
6371086 TGAGCTTCCCGTTATATGGCT
1 -GAGCTTCCCGTTA-ATGGCT
6371107 CGAAAGAGCT
Statistics
Matches: 86, Mismatches: 27, Indels: 9
0.70 0.22 0.07
Matches are distributed among these distances:
23 4 0.05
24 34 0.40
25 48 0.56
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTTTCCA
Found at i:6371105 original size:74 final size:74
Alignment explanation
Indices: 6370964--6371106 Score: 180
Period size: 74 Copynumber: 1.9 Consensus size: 74
6370954 GGCTCTTTAT
* * * * *
6370964 GAGCTTCCCGATTAATGGCTCTCCAGAGCTCCCCGATATTGGCTCACTTGAAACTTTCTGTTAAT
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
6371029 GGCTTTCCA
66 GGCTTTCCA
* * * * *
6371038 GAGCTTCCCGATTAATGACTTTTCAGAGCTACCCGTTATTGGCTTACATG-AGCTTCCCGTTATA
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTA-A
6371102 TGGCT
65 TGGCT
6371107 CGAAAGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 9 0.16
74 49 0.84
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (74 bp):
GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
GGCTTTCCA
Found at i:6371115 original size:25 final size:24
Alignment explanation
Indices: 6371062--6371123 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
6371052 ATGACTTTTC
* *
6371062 AGAGCTACCCGTTATTGGCTTACA
1 AGAGCTTCCCGTTATTGGCTGACA
*
6371086 TGAGCTTCCCGTTATATGGCTCGA-A
1 AGAGCTTCCCGTTAT-TGGCT-GACA
6371111 AGAGCTTCCCGTT
1 AGAGCTTCCCGTT
6371124 TAAATGCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.41
25 18 0.56
26 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (24 bp):
AGAGCTTCCCGTTATTGGCTGACA
Found at i:6371115 original size:74 final size:74
Alignment explanation
Indices: 6370964--6371126 Score: 175
Period size: 74 Copynumber: 2.2 Consensus size: 74
6370954 GGCTCTTTAT
* * * * *
6370964 GAGCTTCCCGATTAATGGCTCTCCAGAGCTCCCCGATATTGGCTCACTTGAAACTTTCTGTTAAT
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
****
6371029 GGCTTTCCA
66 GGCTCGAAA
* * * * *
6371038 GAGCTTCCCGATTAATGACTTTTCAGAGCTACCCGTTATTGGCTTACATG-AGCTTCCCGTTATA
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTA-A
6371102 TGGCTCGAAA
65 TGGCTCGAAA
*
6371112 GAGCTTCCCGTTTAA
1 GAGCTTCCCGATTAA
6371127 ATGCTCAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
73 9 0.12
74 64 0.88
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (74 bp):
GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
GGCTCGAAA
Found at i:6371144 original size:25 final size:25
Alignment explanation
Indices: 6371085--6371144 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
6371075 ATTGGCTTAC
*
6371085 ATGAGCTTCCCGTTATATGGCTCGA
1 ATGAGCTTCCCGTTAAATGGCTCGA
*
6371110 AAGAGCTTCCCGTTTAAAT-GCTC-A
1 ATGAGCTTCCCG-TTAAATGGCTCGA
6371134 ATGAGCATTCC
1 ATGAGC-TTCC
6371145 TGAATACGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
25 19 0.63
26 5 0.17
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTAAATGGCTCGA
Found at i:6374202 original size:28 final size:28
Alignment explanation
Indices: 6374170--6374224 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
6374160 CAGTAGAAAA
*
6374170 CCCTAAACCCTTCCAAAAATTAAACTAG
1 CCCTAAACCCTTCCAAAAATAAAACTAG
6374198 CCCTAAACCCTTCCAAAAATAAAACTA
1 CCCTAAACCCTTCCAAAAATAAAACTA
6374225 ATTAGGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (28 bp):
CCCTAAACCCTTCCAAAAATAAAACTAG
Found at i:6378722 original size:18 final size:18
Alignment explanation
Indices: 6378699--6378741 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6378689 ATTCAAGGTG
6378699 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
6378717 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
6378735 TAATTAA
1 TAATTAA
6378742 AAATTATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:6378776 original size:13 final size:13
Alignment explanation
Indices: 6378758--6378784 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6378748 TTCTCGTCCC
6378758 AGTTGGACATTCA
1 AGTTGGACATTCA
6378771 AGTTGGACATTCA
1 AGTTGGACATTCA
6378784 A
1 A
6378785 AACCCAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (13 bp):
AGTTGGACATTCA
Found at i:6381093 original size:45 final size:45
Alignment explanation
Indices: 6381043--6381149 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
6381033 GTAGCAGTAG
* * *
6381043 CAGTAACAGTAATAGTATTCAACACACAAAGCG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGCGTC-GAATCGGTAA
* * * *
6381088 CAGTAATGGTAACAATATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGCGTCGAATCGGTAA
6381133 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
6381150 ACAGTAGTCG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGCGTCGAATCGGTAA
Found at i:6381144 original size:12 final size:12
Alignment explanation
Indices: 6381127--6381151 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6381117 AGTGTCGAAT
6381127 CGGTAACAGTAA
1 CGGTAACAGTAA
6381139 CGGTAACAGTAA
1 CGGTAACAGTAA
6381151 C
1 C
6381152 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:6382231 original size:5 final size:5
Alignment explanation
Indices: 6382221--6382286 Score: 104
Period size: 5 Copynumber: 14.0 Consensus size: 5
6382211 TGTTTCTTTT
6382221 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
6382269 ATAT- A-ATA ATATA ATATA
1 ATATA ATATA ATATA ATATA
6382287 CTTAATTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
3 4 0.07
4 4 0.07
5 49 0.86
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:6382241 original size:15 final size:14
Alignment explanation
Indices: 6382221--6382286 Score: 100
Period size: 13 Copynumber: 4.7 Consensus size: 14
6382211 TGTTTCTTTT
6382221 ATATAATATAATATA
1 ATATAATATAA-ATA
6382236 ATATAATATAATATA
1 ATATAATATAA-ATA
6382251 ATATAATAT-AATA
1 ATATAATATAAATA
6382264 ATATAATAT-AATA
1 ATATAATATAAATA
6382277 ATATAATATA
1 ATATAATATA
6382287 CTTAATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
13 25 0.50
14 1 0.02
15 24 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAATATAAATA
Found at i:6382784 original size:33 final size:33
Alignment explanation
Indices: 6382671--6382784 Score: 83
Period size: 33 Copynumber: 3.5 Consensus size: 33
6382661 TTCTTTGTGT
* *
6382671 CATAGTCCAACTATGGTCTTACACAG-CAT--TGC
1 CATAGCCCAACTATGGCCTT--ACAGTCATAATGC
* * * * *
6382703 CATGGCCCAACCATGGTCTTACAGTCGTAGTGC
1 CATAGCCCAACTATGGCCTTACAGTCATAATGC
* **
6382736 CATAACCCAGTTATGGCCTTATCA-TCATAATGC
1 CATAGCCCAACTATGGCCTTA-CAGTCATAATGC
6382769 CATAGCCCAACTATGG
1 CATAGCCCAACTATGG
6382785 TCTAACATAT
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
30 4 0.06
31 2 0.03
32 17 0.27
33 38 0.60
34 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (33 bp):
CATAGCCCAACTATGGCCTTACAGTCATAATGC
Found at i:6382969 original size:117 final size:117
Alignment explanation
Indices: 6382763--6382995 Score: 369
Period size: 117 Copynumber: 2.0 Consensus size: 117
6382753 CTTATCATCA
*
6382763 TAATGCCATAGCCCAACTATGGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
1 TAATGCCATAGCCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
* *
6382828 TCAAAGTGTCATAACCTAGTTATGGT-TATTTCCGTCAATTCATCCTTTACAT
66 TCAAAGTGCCATAACCTAGTTATGGTCT-TATCCGTCAATTCATCCTTTACAT
* *
6382880 TAATGCCATAGCCCAACTATAGTCTTACATATAAATACTGCCATGGTCCAACCATGGTCTTACAT
1 TAATGCCATAGCCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
*** *
6382945 TTTTAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCCTCCTTTACA
66 TCAAAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCATCCTTTACA
6382996 CTGAACAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
117 105 0.99
118 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (117 bp):
TAATGCCATAGCCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
TCAAAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCATCCTTTACAT
Found at i:6387818 original size:3 final size:3
Alignment explanation
Indices: 6387810--6387870 Score: 65
Period size: 3 Copynumber: 21.3 Consensus size: 3
6387800 GAAAAATAAA
* * *
6387810 AAG AAG AAG AAG AAG -AG GAG AAG AAG AA- AA- AAA AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
6387855 AAG AAG AAG GAG AAG A
1 AAG AAG AAG AAG AAG A
6387871 GGAATTGAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6389172 original size:30 final size:32
Alignment explanation
Indices: 6389104--6389172 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
6389094 ACTGTTAATT
* **
6389104 AGTGACTATTTTGTCACTTTTTTATAACATTG
1 AGTGACTATTTTGTAACTTTTCGATAACATTG
*
6389136 -GTGACTATTTTGTAACTTTTCGA-AA-GTTG
1 AGTGACTATTTTGTAACTTTTCGATAACATTG
6389165 AGTGACTA
1 AGTGACTA
6389173 AAATGAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 9 0.28
31 20 0.62
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (32 bp):
AGTGACTATTTTGTAACTTTTCGATAACATTG
Found at i:6396879 original size:29 final size:29
Alignment explanation
Indices: 6396831--6396887 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
6396821 AAAATGGATC
6396831 AAATCAAAATTTTAGGTATAAAATTACACA
1 AAATCAAAATTTTA-GTATAAAATTACACA
*
6396861 AAATCAAAATTTTTA-TATAGAATTACA
1 AAATCAAAA-TTTTAGTATAAAATTACA
6396888 TGTTAAACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATCAAAATTTTAGTATAAAATTACACA
Found at i:6398216 original size:12 final size:14
Alignment explanation
Indices: 6398190--6398223 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6398180 AAACATTGAT
6398190 AATATAAATTAAAA
1 AATATAAATTAAAA
6398204 AATA-AAATTAAAA
1 AATATAAATTAAAA
6398217 AAT-TAAA
1 AATATAAA
6398224 AGTATAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATATAAATTAAAA
Found at i:6399551 original size:18 final size:18
Alignment explanation
Indices: 6399528--6399570 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6399518 ATTTAAGGTG
6399528 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
6399546 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
6399564 TAATTAA
1 TAATTAA
6399571 AAATCTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:6404257 original size:18 final size:18
Alignment explanation
Indices: 6404236--6404300 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
6404226 ATGCTGCTGC
6404236 TGATGATGACAACGATGA
1 TGATGATGACAACGATGA
*
6404254 TGATGATGACAATGATAATGA
1 TGATGATGACAACG---ATGA
* * *
6404275 AGATGATGACGACGACGA
1 TGATGATGACAACGATGA
6404293 TGATGATG
1 TGATGATG
6404301 GCAGTGAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 23 0.61
21 15 0.39
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.23
Consensus pattern (18 bp):
TGATGATGACAACGATGA
Found at i:6407828 original size:22 final size:22
Alignment explanation
Indices: 6407800--6407863 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 22
6407790 AAAACATAAT
6407800 ATAATATTTATCATAAAGGTAA
1 ATAATATTTATCATAAAGGTAA
* * *
6407822 ATAATATTTAATTAAAACAAAGTTAA
1 ATAATATTT-A-T--CATAAAGGTAA
6407848 ATAATATTTATCATAA
1 ATAATATTTATCATAA
6407864 TATTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 12 0.36
23 1 0.03
24 2 0.06
25 1 0.03
26 17 0.52
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATATTTATCATAAAGGTAA
Found at i:6407911 original size:31 final size:31
Alignment explanation
Indices: 6407876--6407940 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
6407866 TTTAAATTAA
*
6407876 ATTTTAAAAAATAAAAAATATTTTAAGCTTT
1 ATTTTAAAAAATAAAAAATATTTAAAGCTTT
* * * *
6407907 ATTTTTAAAATTAAAGATTATTTAAAGCTTT
1 ATTTTAAAAAATAAAAAATATTTAAAGCTTT
6407938 ATT
1 ATT
6407941 ATAACAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (31 bp):
ATTTTAAAAAATAAAAAATATTTAAAGCTTT
Found at i:6408493 original size:20 final size:20
Alignment explanation
Indices: 6408470--6408529 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
6408460 AAAAAATACC
* *
6408470 AATAATATATAAACATAAAA
1 AATAATAAATAAAAATAAAA
6408490 AAT-ATAAA-AATAAATATAAA
1 AATAATAAATAA-AAATA-AAA
6408510 AATAAATAAATAAAAATAAA
1 AAT-AATAAATAAAAATAAA
6408530 TATATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 9 0.27
21 2 0.06
22 10 0.30
23 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AATAATAAATAAAAATAAAA
Found at i:6408495 original size:17 final size:15
Alignment explanation
Indices: 6408476--6408529 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 15
6408466 TACCAATAAT
*
6408476 ATATAAACATAAAAA
1 ATATAAAAATAAAAA
6408491 ATATAAAAAT---AA
1 ATATAAAAATAAAAA
*
6408503 ATATAAAAATAAATA
1 ATATAAAAATAAAAA
6408518 A-ATAAAAATAAA
1 ATATAAAAATAAA
6408530 TATATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 12 0.35
14 11 0.32
15 11 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
ATATAAAAATAAAAA
Found at i:6408506 original size:12 final size:12
Alignment explanation
Indices: 6408489--6408533 Score: 72
Period size: 12 Copynumber: 3.6 Consensus size: 12
6408479 TAAACATAAA
6408489 AAATATAAAAAT
1 AAATATAAAAAT
6408501 AAATATAAAAAT
1 AAATATAAAAAT
6408513 AAATAAATAAAAAT
1 AAAT--ATAAAAAT
6408527 AAATATA
1 AAATATA
6408534 TTAAAATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATAAAAAT
Found at i:6408529 original size:26 final size:27
Alignment explanation
Indices: 6408470--6408533 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
6408460 AAAAAATACC
*
6408470 AATAATATATAAACATAAAAAATATAAA
1 AATAA-ATATAAAAATAAAAAATATAAA
*
6408498 AATAAATATAAAAATAAATAA-ATAAA
1 AATAAATATAAAAATAAAAAATATAAA
6408524 AATAAATATA
1 AATAAATATA
6408534 TTAAAATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 15 0.44
27 14 0.41
28 5 0.15
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (27 bp):
AATAAATATAAAAATAAAAAATATAAA
Found at i:6408539 original size:14 final size:14
Alignment explanation
Indices: 6408473--6408540 Score: 77
Period size: 14 Copynumber: 4.9 Consensus size: 14
6408463 AAATACCAAT
*
6408473 AATATATAAACATAA
1 AATATATAAAAAT-A
*
6408488 AAAATATAAAAAT-
1 AATATATAAAAATA
6408501 AA-ATATAAAAATA
1 AATATATAAAAATA
*
6408514 AATAAATAAAAATA
1 AATATATAAAAATA
*
6408528 AATATATTAAAAT
1 AATATATAAAAAT
6408541 CTACTGAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.22
13 4 0.09
14 21 0.46
15 11 0.24
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (14 bp):
AATATATAAAAATA
Found at i:6412216 original size:5 final size:6
Alignment explanation
Indices: 6412199--6412223 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6412189 TTTAAAAATA
6412199 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
6412224 CCGTTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:6412941 original size:23 final size:23
Alignment explanation
Indices: 6412912--6412955 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6412902 TCATGTATTT
*
6412912 TTTTTTAAATTTTAAATTTTAAA
1 TTTTTTAAATTTTAAAATTTAAA
*
6412935 TTTTTTATATTTTAAAATTTA
1 TTTTTTAAATTTTAAAATTTA
6412956 GGTTGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTAAATTTTAAAATTTAAA
Found at i:6412955 original size:7 final size:7
Alignment explanation
Indices: 6412914--6412938 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6412904 ATGTATTTTT
6412914 TTTTAAA
1 TTTTAAA
6412921 TTTTAAA
1 TTTTAAA
6412928 TTTTAAA
1 TTTTAAA
6412935 TTTT
1 TTTT
6412939 TTATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:6414962 original size:3 final size:3
Alignment explanation
Indices: 6414954--6414981 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6414944 CAATTTTGTT
6414954 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
6414982 GAACGTACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6416751 original size:8 final size:8
Alignment explanation
Indices: 6416738--6416767 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6416728 CAACCTGGTT
6416738 TTTTTTTC
1 TTTTTTTC
6416746 TTTTTTTC
1 TTTTTTTC
6416754 -TTTTTTC
1 TTTTTTTC
6416761 TTTTTTT
1 TTTTTTT
6416768 GTAGGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:6416759 original size:15 final size:15
Alignment explanation
Indices: 6416739--6416767 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6416729 AACCTGGTTT
6416739 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
6416754 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
6416768 GTAGGCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:6417639 original size:43 final size:42
Alignment explanation
Indices: 6417504--6417663 Score: 153
Period size: 43 Copynumber: 3.8 Consensus size: 42
6417494 GCGTTTATTT
* * *
6417504 AAAAAAACGTCGCTAAAAGCCATGACTTTTAGCAGA-GTTTGT
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGC-GACATTTGC
* * * * * *
6417546 AAAAAAGCGCGGCTAAAAGTCATGGCTTTTAGTGGCATTTGC
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGACATTTGC
*** * * *
6417588 TGGGAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGACATTTGC
1 -AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGACATTTGC
6417631 AAAAAAA-GCCGCTAAAAGCCATGACTTTTAGCG
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCG
6417664 GCGTTTTTCC
Statistics
Matches: 95, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 25 0.26
42 34 0.36
43 36 0.38
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGACATTTGC
Found at i:6417659 original size:41 final size:41
Alignment explanation
Indices: 6417504--6417663 Score: 135
Period size: 41 Copynumber: 3.8 Consensus size: 41
6417494 GCGTTTATTT
* *
6417504 AAAAAAACGTCGCTAAAAGCCATGACTTTTAGCAGA-GTTTG-
1 AAAAAAA-GCCGCTAAAAGCCATGACTTTTAGC-GACATTTGC
* * * * *
6417545 TAAAAAAGCGCGGCTAAAAGTCATGGCTTTTAGTGGCATTTGC
1 AAAAAAAGC-C-GCTAAAAGCCATGACTTTTAGCGACATTTGC
** ** * *
6417588 TGGGAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGACATTTGC
1 --AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGACATTTGC
6417631 AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCG
1 AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCG
6417664 GCGTTTTTCC
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 35 0.37
42 23 0.24
43 29 0.31
44 1 0.01
45 5 0.05
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (41 bp):
AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGACATTTGC
Found at i:6417796 original size:31 final size:33
Alignment explanation
Indices: 6417743--6417823 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 33
6417733 TTCATGCATT
* *
6417743 AAATCCAACCAAATACAACAAATATAGCA-T-A
1 AAATACAACCAAAAACAACAAATATAGCATTAA
* * * *
6417774 AAATGCAGCCAAAAACAGCAAATTTAGCATTAA
1 AAATACAACCAAAAACAACAAATATAGCATTAA
6417807 AAATACAACCAAAAACA
1 AAATACAACCAAAAACA
6417824 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 24 0.59
32 1 0.02
33 16 0.39
ACGTcount: A:0.58, C:0.21, G:0.06, T:0.15
Consensus pattern (33 bp):
AAATACAACCAAAAACAACAAATATAGCATTAA
Found at i:6418112 original size:21 final size:21
Alignment explanation
Indices: 6418058--6418112 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
6418048 GCTGCCATTG
* *
6418058 CTGCTGCCCCTACCTTCCTCA
1 CTGCTGCCCCTGCCTCCCTCA
** *
6418079 CTGCTGCAGCTGCCTCCCTCT
1 CTGCTGCCCCTGCCTCCCTCA
*
6418100 CTGCTGCCTCTGC
1 CTGCTGCCCCTGC
6418113 TCTAAGTTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.05, C:0.49, G:0.16, T:0.29
Consensus pattern (21 bp):
CTGCTGCCCCTGCCTCCCTCA
Found at i:6418548 original size:13 final size:14
Alignment explanation
Indices: 6418523--6418551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6418513 TGATGAATTG
6418523 AATTAAACAATTAT
1 AATTAAACAATTAT
6418537 AATTAAAC-ATTAT
1 AATTAAACAATTAT
6418550 AA
1 AA
6418552 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:6423053 original size:9 final size:9
Alignment explanation
Indices: 6423039--6423092 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
6423029 TATTTATGTA
6423039 TTATGTAAG
1 TTATGTAAG
*
6423048 TTATGTAAA
1 TTATGTAAG
6423057 TTATGTAAG
1 TTATGTAAG
* * **
6423066 TTGTTTATC
1 TTATGTAAG
*
6423075 TTATGTAAA
1 TTATGTAAG
6423084 TTATGTAAG
1 TTATGTAAG
6423093 ATATAATATA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6423061 original size:18 final size:18
Alignment explanation
Indices: 6423038--6423091 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
6423028 ATATTTATGT
6423038 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
6423056 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
6423074 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
6423092 GATATAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:6424616 original size:25 final size:25
Alignment explanation
Indices: 6424588--6424726 Score: 83
Period size: 25 Copynumber: 5.6 Consensus size: 25
6424578 CGATATATGA
*
6424588 CTCTTTTGAGCTTCCTGATTAATGG
1 CTCTCTTGAGCTTCCTGATTAATGG
** *
6424613 CTCTCCAGAGCTTCCTGA-TATTGG
1 CTCTCTTGAGCTTCCTGATTAATGG
* * * *
6424637 CTCGCTTGAACCTTCCT-AATATTGG
1 CTCTCTTG-AGCTTCCTGATTAATGG
* *
6424662 CTCGT-ATGAGCTTCCCG-TTAATGG
1 CTC-TCTTGAGCTTCCTGATTAATGG
* *
6424686 CTCTCTGGAGCTTCCCG-TTACATGG
1 CTCTCTTGAGCTTCCTGATTA-ATGG
*
6424711 CT-TACATGAGCTTCCT
1 CTCT-CTTGAGCTTCCT
6424727 ATTTATATGC
Statistics
Matches: 88, Mismatches: 19, Indels: 14
0.73 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 39 0.44
25 48 0.55
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
CTCTCTTGAGCTTCCTGATTAATGG
Found at i:6424686 original size:24 final size:25
Alignment explanation
Indices: 6424659--6424712 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
6424649 TTCCTAATAT
6424659 TGGCTCGTAT-GAGCTTCCCGTTA-A
1 TGGCTC-TATGGAGCTTCCCGTTACA
*
6424683 TGGCTCTCTGGAGCTTCCCGTTACA
1 TGGCTCTATGGAGCTTCCCGTTACA
6424708 TGGCT
1 TGGCT
6424713 TACATGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.07
24 19 0.70
25 6 0.22
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.33
Consensus pattern (25 bp):
TGGCTCTATGGAGCTTCCCGTTACA
Found at i:6440132 original size:5 final size:5
Alignment explanation
Indices: 6440118--6440159 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
6440108 TATTTCCAAA
*
6440118 AAAAT AAAA- ATAA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
6440160 GAACATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 6 0.18
5 28 0.82
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:6447985 original size:18 final size:19
Alignment explanation
Indices: 6447950--6447990 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6447940 TTAAAAGAAT
6447950 AAAAAAAAGAGATCATTGA
1 AAAAAAAAGAGATCATTGA
6447969 CAAAAAAAA-AGAT-ATTGA
1 -AAAAAAAAGAGATCATTGA
6447987 AAAA
1 AAAA
6447991 CAGCTCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 4 0.19
20 8 0.38
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (19 bp):
AAAAAAAAGAGATCATTGA
Found at i:6456412 original size:66 final size:64
Alignment explanation
Indices: 6456225--6456474 Score: 190
Period size: 66 Copynumber: 3.8 Consensus size: 64
6456215 ATATAGTTCG
* * *
6456225 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAG--ACA-ATTTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACACA-TAATCTCG
6456286 TA
63 TA
* * * * *
6456288 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT--ACATAATCCC
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTACACATAATCTC
6456351 GTA
62 GTA
* *
6456354 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACA-CATAA--TCTC
6456419 GTA
62 GTA
* * * ** *
6456422 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACA
6456475 TACTATCTGT
Statistics
Matches: 149, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
62 2 0.01
63 41 0.28
65 1 0.01
66 53 0.36
67 4 0.03
68 47 0.32
69 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACACATAATCTCGTA
Found at i:6459839 original size:17 final size:18
Alignment explanation
Indices: 6459807--6459842 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
6459797 AAAATCCTAA
6459807 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
6459826 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
6459843 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:6459844 original size:25 final size:25
Alignment explanation
Indices: 6459816--6459863 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6459806 ACTTTTTCTC
* * *
6459816 CTTTCTTTCTCTTTTTCTTTTCTTT
1 CTTTCCTTCTCTGTTTCGTTTCTTT
6459841 CTTTCCTTCTCTGTTTCGTTTCT
1 CTTTCCTTCTCTGTTTCGTTTCT
6459864 GCTTTGGCTT
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:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (25 bp):
CTTTCCTTCTCTGTTTCGTTTCTTT
Found at i:6459862 original size:21 final size:21
Alignment explanation
Indices: 6459816--6459863 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6459806 ACTTTTTCTC
*
6459816 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
6459837 CTTTCTTTC-C-TTCTCTGTTT
1 CTTTCTTTCTCTTTCTCT-TTT
6459857 CGTTTCT
1 C-TTTCT
6459864 GCTTTGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:6461910 original size:6 final size:6
Alignment explanation
Indices: 6461901--6461934 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
6461891 ATAATAATAA
6461901 TATTTT TATTTT TATTTT TATTATGT TATTTT TA
1 TATTTT TATTTT TATTTT TATT-T-T TATTTT TA
6461935 ATGTAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:6465990 original size:21 final size:21
Alignment explanation
Indices: 6465964--6466010 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
6465954 CTGAACTACT
*
6465964 TTCTTCTAATCGATCTGAACA
1 TTCTTCTAATCGATCCGAACA
6465985 TTCTTCTAATCGATCCGAACA
1 TTCTTCTAATCGATCCGAACA
6466006 TTCTT
1 TTCTT
6466011 GAAATTCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (21 bp):
TTCTTCTAATCGATCCGAACA
Found at i:6473819 original size:9 final size:9
Alignment explanation
Indices: 6473802--6473835 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6473792 GCCATATACT
6473802 GTTTCTATA
1 GTTTCTATA
*
6473811 GTTTTTATA
1 GTTTCTATA
*
6473820 ATTTCTATA
1 GTTTCTATA
6473829 GTTTCTA
1 GTTTCTA
6473836 ATAGGCATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (9 bp):
GTTTCTATA
Found at i:6474905 original size:17 final size:16
Alignment explanation
Indices: 6474879--6474913 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6474869 AGGATAACAA
6474879 TTTATCCAATTCATCAT
1 TTTATCCAATTCA-CAT
*
6474896 TTTATTCAATTCACAT
1 TTTATCCAATTCACAT
6474912 TT
1 TT
6474914 CATCATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATCCAATTCACAT
Found at i:6476635 original size:25 final size:25
Alignment explanation
Indices: 6476590--6476663 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
6476580 TACTAATCTA
* * **
6476590 AAAAATATATAATAAAT-AAAATTT
1 AAAAATATACAAAAAATAAAAATAG
6476614 AAAAATATACAAAAAATAAAAATAG
1 AAAAATATACAAAAAATAAAAATAG
* *
6476639 AGAAATTTACAAAAAATGAAAAATA
1 AAAAATATACAAAAAAT-AAAAATA
6476664 AAACAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.36
25 20 0.48
26 7 0.17
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAATATACAAAAAATAAAAATAG
Found at i:6477551 original size:24 final size:23
Alignment explanation
Indices: 6477475--6477560 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
6477465 AATGTTCACT
* * *
6477475 AACATGTTCATTTAAC-TTAATCG
1 AACATGTTCA-TGAACATTAAACA
* *
6477498 AACATGTTTAAGAACATTAAACA
1 AACATGTTCATGAACATTAAACA
**
6477521 AACATGTTCATGAACATATAATTA
1 AACATGTTCATGAACAT-TAAACA
6477545 AACATGTTCATGAACA
1 AACATGTTCATGAACA
6477561 ATGTTAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 29 0.56
24 20 0.38
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.31
Consensus pattern (23 bp):
AACATGTTCATGAACATTAAACA
Found at i:6478006 original size:40 final size:40
Alignment explanation
Indices: 6477951--6478030 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
6477941 AATTCATCCA
6477951 ACATTCTATCCCTTCCTTCTACACGCTTGGATGTTTTCAC
1 ACATTCTATCCCTTCCTTCTACACGCTTGGATGTTTTCAC
6477991 ACATTCTATCCCTTCCTTCTACACGCTTGGATGTTTTCAC
1 ACATTCTATCCCTTCCTTCTACACGCTTGGATGTTTTCAC
6478031 CTTTTTATTT
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:0.17, C:0.33, G:0.10, T:0.40
Consensus pattern (40 bp):
ACATTCTATCCCTTCCTTCTACACGCTTGGATGTTTTCAC
Found at i:6485580 original size:10 final size:9
Alignment explanation
Indices: 6485566--6485683 Score: 55
Period size: 9 Copynumber: 12.7 Consensus size: 9
6485556 TTTTAATTTG
6485566 TTTTTATAA
1 TTTTTATAA
*
6485575 TATTTTGTAA
1 T-TTTTATAA
6485585 TTTTTA-ATA
1 TTTTTATA-A
* *
6485594 TATTTATAG
1 TTTTTATAA
*
6485603 TTTTTAAATAG
1 TTTTT--ATAA
*
6485614 TTTTTGTAA
1 TTTTTATAA
6485623 TTTGTTAT-A
1 TTT-TTATAA
6485632 TTTTTCATAA
1 TTTTT-ATAA
*
6485642 TTCTATATAA
1 TT-TTTATAA
*
6485652 -TTTTAT-T
1 TTTTTATAA
*
6485659 TTTTTGTAA
1 TTTTTATAA
6485668 TTTTCTATAA
1 TTTT-TATAA
*
6485678 TATTTA
1 TTTTTA
6485684 AATAAATTTC
Statistics
Matches: 82, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
8 12 0.15
9 33 0.40
10 26 0.32
11 11 0.13
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6493859 original size:19 final size:22
Alignment explanation
Indices: 6493820--6493859 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
6493810 AGAAACCCAA
6493820 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
6493842 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
6493860 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:6493983 original size:27 final size:26
Alignment explanation
Indices: 6493925--6494062 Score: 150
Period size: 27 Copynumber: 5.1 Consensus size: 26
6493915 TGGCTGCCAA
* *
6493925 AACAGATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
*
6493951 ATACAGATAATCGTAGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
*
6493979 AACAGATATATGTTGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* *
6494006 ATCAGATATTTGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* * *
6494033 ATCAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
6494060 AAC
1 AAC
6494063 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.83
28 16 0.16
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:6493984 original size:54 final size:54
Alignment explanation
Indices: 6493925--6494060 Score: 168
Period size: 54 Copynumber: 2.5 Consensus size: 54
6493915 TGGCTGCCAA
*
6493925 AACAGATA-ATG-TGACAGAGTCACCAGATACAGATAATCGTAGCAGAGCCACCAG
1 AACAGATATATGTTG-CAGAGCCACCAGAT-CAGATAATCGTAGCAGAGCCACCAG
* * *
6493979 AACAGATATATGTTGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAG
1 AACAGATATATGTTGCAGAGCCACCAGATCAGATAATCGTAGCAGAGCCACCAG
* * * *
6494033 ATCAGATATTTGTGGCATAGCCACCAGA
1 AACAGATATATGTTGCAGAGCCACCAGA
6494061 ACGCTTCCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
54 54 0.75
55 16 0.22
56 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
AACAGATATATGTTGCAGAGCCACCAGATCAGATAATCGTAGCAGAGCCACCAG
Found at i:6495715 original size:26 final size:26
Alignment explanation
Indices: 6495679--6495788 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
6495669 CATGAAATTC
6495679 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
6495705 TTATCATGAAACATTTACCTAGCCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
6495731 TTATCATGGAACATTTACTTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
6495757 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
6495783 TTATCA
1 TTATCA
6495789 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 75 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6496915 original size:15 final size:15
Alignment explanation
Indices: 6496895--6496926 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6496885 GTAGCTTAGG
6496895 AGTAAGATTTAGATT
1 AGTAAGATTTAGATT
6496910 AGTAAGATTTAGATT
1 AGTAAGATTTAGATT
6496925 AG
1 AG
6496927 GTTTTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (15 bp):
AGTAAGATTTAGATT
Found at i:6499186 original size:138 final size:138
Alignment explanation
Indices: 6498938--6499214 Score: 410
Period size: 138 Copynumber: 2.0 Consensus size: 138
6498928 AAAAAAAAAG
* * * *
6498938 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACCAAAATTAATTAA
* * *
6499003 TAGAACTGTTTATATTAATAAATTCAGTAAAATATGTACAATTAATTTTTTACATGAATCAACTT
66 TAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTACATGAATCAAATT
6499068 CATATATT
131 CATATATT
**
6499076 AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACCAAAATTAATTAA
* * ** * **
6499141 TATAATTGTTTATATTAATAAATTTGGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
66 TAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTACATGAATCAAATT
6499206 CATATATT
131 CATATATT
6499214 A
1 A
6499215 GTTTTATCTA
Statistics
Matches: 123, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 123 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACCAAAATTAATTAA
TAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTACATGAATCAAATT
CATATATT
Found at i:6501290 original size:55 final size:55
Alignment explanation
Indices: 6501190--6501316 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 55
6501180 GCAATCTTGC
* * * * *
6501190 CAAATTAACACGGGCGTGCAACACGCCTGTGTCTATAAGCCGTGGTAGAAATTGA
1 CAAATTAACACGGGCGTACAACACGCCCGTGCCCATAAGCCGTGGTAGAAACTGA
* * * *
6501245 GAAATTAACACGGGCGTACGACACGCCCGTGCCCACT-A-CCTGTGGTCGAAACTGT
1 CAAATTAACACGGGCGTACAACACGCCCGTGCCCA-TAAGCC-GTGGTAGAAACTGA
*
6501300 CAAAATAACACGGGCGT
1 CAAATTAACACGGGCGT
6501317 GCGCATATGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 2 0.03
55 56 0.95
56 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (55 bp):
CAAATTAACACGGGCGTACAACACGCCCGTGCCCATAAGCCGTGGTAGAAACTGA
Found at i:6502553 original size:32 final size:32
Alignment explanation
Indices: 6502512--6502580 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
6502502 CTGTGAGACT
6502512 TTATTGGTTATGAGTGTGTCAACATTGAATTG
1 TTATTGGTTATGAGTGTGTCAACATTGAATTG
6502544 TTATTGGTTATGAGTGTGTCAACATTGAATTG
1 TTATTGGTTATGAGTGTGTCAACATTGAATTG
6502576 TTATT
1 TTATT
6502581 CTAGAACTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (32 bp):
TTATTGGTTATGAGTGTGTCAACATTGAATTG
Found at i:6502920 original size:4 final size:4
Alignment explanation
Indices: 6502911--6502936 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6502901 TCTTAAAAAA
6502911 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
6502937 TTTAGTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:6504188 original size:14 final size:14
Alignment explanation
Indices: 6504154--6504193 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
6504144 CTTGTTACTA
*
6504154 TATTCTGAATTATG
1 TATTCTTAATTATG
6504168 TATTTCTTAATTATG
1 TA-TTCTTAATTATG
6504183 TATTCTTAATT
1 TATTCTTAATT
6504194 CTTGCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTCTTAATTATG
Found at i:6512518 original size:68 final size:65
Alignment explanation
Indices: 6512402--6512658 Score: 220
Period size: 68 Copynumber: 3.9 Consensus size: 65
6512392 TGGACGATAC
** * * *
6512402 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTA
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGATGTGTACACCATGTAG-ACAAGAGAGCTA
6512465 CAAG
64 C--G
* * *
6512469 ACATTATGATGTAGCTAGGTCACATGGGTGTTACT-ATGTGTACACCATGTAGACAACAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGATGTGTACACCATGTAGACAAGAGAGCTA
6512533 CG
64 CG
* * * * * * *
6512535 AGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCACATGGGTGG-TACTGATG-TGTACACCATGTAGACAAGAGAGCTA
6512600 CG
64 CG
* * * *
6512602 AGATAAAT-TGGCTAGGTCACATGGGTGGAACTGAT-TGTTCACCATGT-GTACAAGAGA
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGATGTGTACACCATGTAG-ACAAGAGA
6512659 CCCGAACTAT
Statistics
Matches: 153, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 20 0.13
65 8 0.05
66 22 0.14
67 36 0.24
68 48 0.31
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (65 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:6512957 original size:151 final size:151
Alignment explanation
Indices: 6512683--6512987 Score: 601
Period size: 151 Copynumber: 2.0 Consensus size: 151
6512673 TGGGTGGAGC
6512683 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGAGAGACTCTCTATGTA
1 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGAGAGACTCTCTATGTA
6512748 TTGCTTTGTGAGTTTTGTGATGAATAAGTGCAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
66 TTGCTTTGTGAGTTTTGTGATGAATAAGTGCAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
6512813 GTGACCAGGATGTGGTAAGGT
131 GTGACCAGGATGTGGTAAGGT
*
6512834 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGGGAGACTCTCTATGTA
1 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGAGAGACTCTCTATGTA
6512899 TTGCTTTGTGAGTTTTGTGATGAATAAGTGCAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
66 TTGCTTTGTGAGTTTTGTGATGAATAAGTGCAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
6512964 GTGACCAGGATGTGGTAAGGT
131 GTGACCAGGATGTGGTAAGGT
6512985 TAT
1 TAT
6512988 AAACAAGTAA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 153 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (151 bp):
TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGAGAGACTCTCTATGTA
TTGCTTTGTGAGTTTTGTGATGAATAAGTGCAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
GTGACCAGGATGTGGTAAGGT
Found at i:6515217 original size:22 final size:22
Alignment explanation
Indices: 6515192--6515237 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6515182 CCAAATTGTG
*
6515192 GAAAT-GTTAGAATGGATGTTTA
1 GAAATGGTTA-AATGAATGTTTA
6515214 GAAATGGTTAAATGAATGTTTA
1 GAAATGGTTAAATGAATGTTTA
6515236 GA
1 GA
6515238 CATGCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (22 bp):
GAAATGGTTAAATGAATGTTTA
Found at i:6516787 original size:3 final size:3
Alignment explanation
Indices: 6516781--6516809 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6516771 ATTATTATTA
6516781 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
6516810 ATTAAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6521588 original size:16 final size:16
Alignment explanation
Indices: 6521567--6521600 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6521557 GAAATAAACT
* *
6521567 AAAATTAATATTTAAA
1 AAAATTAAAAATTAAA
6521583 AAAATTAAAAATTAAA
1 AAAATTAAAAATTAAA
6521599 AA
1 AA
6521601 TATAAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAAAAATTAAA
Found at i:6528218 original size:79 final size:80
Alignment explanation
Indices: 6528135--6528295 Score: 297
Period size: 79 Copynumber: 2.0 Consensus size: 80
6528125 TTATTCGAGT
6528135 ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAAT-AAAAAATATTTTA
1 ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAATAAAAAAATATTTTA
*
6528199 AATTTAACATTTTCA
66 AATTTAACATTTCCA
*
6528214 ATTATAATCTAAATTTGAATTAAATATCATTATTTTTCAAATATCTGAAATAAAAAAATATTTTA
1 ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAATAAAAAAATATTTTA
6528279 AATTTAACATTTCCA
66 AATTTAACATTTCCA
6528294 AT
1 AT
6528296 CATATGTTGA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 50 0.63
80 29 0.37
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (80 bp):
ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAATAAAAAAATATTTTA
AATTTAACATTTCCA
Found at i:6528978 original size:20 final size:20
Alignment explanation
Indices: 6528941--6528979 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6528931 TTTCAATATC
*
6528941 AAACACATTCATTTCAAGTT
1 AAACACATTAATTTCAAGTT
6528961 AAACA-ATTAATTTCCAAGT
1 AAACACATTAATTT-CAAGT
6528980 CTTAATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (20 bp):
AAACACATTAATTTCAAGTT
Found at i:6531450 original size:19 final size:20
Alignment explanation
Indices: 6531414--6531457 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6531404 TATATATACT
* *
6531414 TTAATTAAATCTTTAATTAC
1 TTAATTAAATCCTTAATTAA
6531434 TTAATTAAA-CCTTAATTAA
1 TTAATTAAATCCTTAATTAA
6531453 TTAAT
1 TTAAT
6531458 CTTACACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATTAAATCCTTAATTAA
Found at i:6532450 original size:57 final size:55
Alignment explanation
Indices: 6532389--6532764 Score: 247
Period size: 54 Copynumber: 6.7 Consensus size: 55
6532379 AATATTAGAA
* *
6532389 AAAATTTTTTTGGTGCTGG-CTTTCTAATGGCTGGCACCACTGTAGGAAAAAGAATTC
1 AAAATTTTTTGGGTGCTGGTC-TTCTAATGGCCGGCACCACTGTA-GAAAAA-AATTC
*
6532446 AAAATTTTTTGGGTACTGGTCTTCTAATGGCCGGCACCA--GTA-AAAAAAATATC
1 AAAATTTTTTGGGTGCTGGTCTTCTAATGGCCGGCACCACTGTAGAAAAAAAT-TC
* * * *
6532499 AGGGAAAACTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTTGTAAAAAA-TC
1 ----AAAA--TTTTTTGGGTGCTGGTCTTCTAATGGCCGGCACCACTGTAGAAAAAAATTC
* ** * * * *
6532559 AAAATTTTTTGGGTGCTGGTCTTCTAATGGCAGGAACAAAAATATCAG-GAAATATT-
1 AAAATTTTTTGGGTGCTGGTCTTCTAATGGCCGG--CACCACTGT-AGAAAAAAATTC
** * *
6532615 --TTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAAATTC
1 AAAATTTTTTGGGTGCTGGTCTTCTAATGGCCGGCACCACTGTAG---AAAAAAATTC
* * * * *
6532671 AAAATTTTCTGGGTGTTGGTCTTCTAATGGTCGGCACCA--GTACAAAAATA-TC
1 AAAATTTTTTGGGTGCTGGTCTTCTAATGGCCGGCACCACTGTAGAAAAAAATTC
* **
6532723 AGGAATTTTCTTTTTGTGCT-GTCTTTCTAATGGCCGGCACCA
1 A--AAATTT-TTTGGGTGCTGGTC-TTCTAATGGCCGGCACCA
6532765 AACCTTATAT
Statistics
Matches: 249, Mismatches: 44, Indels: 54
0.72 0.13 0.16
Matches are distributed among these distances:
51 2 0.01
52 11 0.04
53 13 0.05
54 62 0.25
55 32 0.13
56 16 0.06
57 40 0.16
58 31 0.12
59 32 0.13
60 2 0.01
61 2 0.01
62 6 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (55 bp):
AAAATTTTTTGGGTGCTGGTCTTCTAATGGCCGGCACCACTGTAGAAAAAAATTC
Found at i:6532642 original size:108 final size:108
Alignment explanation
Indices: 6532323--6532700 Score: 379
Period size: 114 Copynumber: 3.4 Consensus size: 108
6532313 CACTCTAATA
* * * * * *
6532323 AAAAAAATCAAAAATTTTTGGGTGCTGGTCTTCTAATAATTGACCCCAGTACAAAAAATATTA--
1 AAAAAATTCAAAATTTTTTGGGTGCTGGTCTTC---TAA-TG--GCCAGGAAAAAAAATATCAGG
** * * *
6532386 GAAAAAATTTTTTTGGTGCTGGCTTTCTAATGGCTGGCACCACTGTAGGA
60 GAAAACTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTA-GT
* *
6532436 AAAAGAATTCAAAATTTTTTGGGTACTGGTCTTCTAATGGCCGGCACCAGTAAAAAAAATATCAG
1 AAAA-AATTCAAAATTTTTTGGGTGCTGGTCTTCTAAT----GG--CCAGGAAAAAAAATATCAG
*
6532501 GGAAAACTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTTGT
59 GGAAAACTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGT
*
6532551 AAAAAA-TCAAAATTTTTTGGGTGCTGGTCTTCTAATGG-CAGGAACAAAAATATCA-GGAAATA
1 AAAAAATTCAAAATTTTTTGGGTGCTGGTCTTCTAATGGCCAGGAAAAAAAATATCAGGGAAA-A
*
6532613 TTTTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGT
65 --CTTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGT
* *
6532659 AAAAAAAAATTCAAAATTTTCTGGGTGTTGGTCTTCTAATGG
1 ---AAAAAATTCAAAATTTTTTGGGTGCTGGTCTTCTAATGG
6532701 TCGGCACCAG
Statistics
Matches: 230, Mismatches: 19, Indels: 33
0.82 0.07 0.12
Matches are distributed among these distances:
105 5 0.02
106 16 0.07
108 42 0.18
109 2 0.01
110 1 0.00
111 9 0.04
112 30 0.13
113 33 0.14
114 45 0.20
115 5 0.02
116 42 0.18
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (108 bp):
AAAAAATTCAAAATTTTTTGGGTGCTGGTCTTCTAATGGCCAGGAAAAAAAATATCAGGGAAAAC
TTTTTTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGT
Found at i:6532906 original size:28 final size:28
Alignment explanation
Indices: 6532875--6532962 Score: 113
Period size: 28 Copynumber: 3.0 Consensus size: 28
6532865 TCATCAAATG
* *
6532875 AGTTTTTTTTTAGTGGGTTGTATAAGTA
1 AGTTTTTTTTTAGTGGATTGTATAAGGA
*
6532903 AGTTTTTTTGTAGTGGATTGTATAAGGA
1 AGTTTTTTTTTAGTGGATTGTATAAGGA
6532931 AGTTTTTTTTTTGTAGTGGATTGTATATAGGA
1 AG--TTTTTTTT-TAGTGGATTGTATA-AGGA
6532963 GTTATTTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
28 27 0.52
30 7 0.13
31 14 0.27
32 4 0.08
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (28 bp):
AGTTTTTTTTTAGTGGATTGTATAAGGA
Found at i:6532943 original size:31 final size:29
Alignment explanation
Indices: 6532875--6532962 Score: 117
Period size: 31 Copynumber: 3.0 Consensus size: 29
6532865 TCATCAAATG
* *
6532875 AGTTTTTTTT-TAGTGGGTTGTATAAGTA
1 AGTTTTTTTTGTAGTGGATTGTATAAGGA
6532903 AG-TTTTTTTGTAGTGGATTGTATAAGGA
1 AGTTTTTTTTGTAGTGGATTGTATAAGGA
6532931 AGTTTTTTTTTTGTAGTGGATTGTATATAGGA
1 AG--TTTTTTTTGTAGTGGATTGTATA-AGGA
6532963 GTTATTTGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.13
28 20 0.38
31 22 0.42
32 4 0.08
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (29 bp):
AGTTTTTTTTGTAGTGGATTGTATAAGGA
Found at i:6541332 original size:5 final size:5
Alignment explanation
Indices: 6541324--6541353 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6541314 AATTTTTTTC
6541324 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
6541354 CTATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:6541643 original size:5 final size:5
Alignment explanation
Indices: 6541635--6541688 Score: 63
Period size: 5 Copynumber: 10.2 Consensus size: 5
6541625 TCTTTCCCTC
* *
6541635 TAATT TAATT TCATT TCAATT TTATT TCCAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT T-AATT TAATT T--AATT TAATT TAATT TAATT
6541683 TAATT T
1 TAATT T
6541689 CTATTTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 34 0.81
6 4 0.10
7 4 0.10
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:6541677 original size:38 final size:38
Alignment explanation
Indices: 6541635--6541713 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
6541625 TCTTTCCCTC
*
6541635 TAATTTAATTTCATTTC-AATTTTATTTCCAATTTAATT
1 TAATTTAATTTAATTTCTAATTTTATTTCC-ATTTAATT
* * *
6541673 TAATTTAATTTAATTTCTATTTTTATTTGCATTTCATT
1 TAATTTAATTTAATTTCTAATTTTATTTCCATTTAATT
6541711 TAA
1 TAA
6541714 ATCAAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 26 0.72
39 10 0.28
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.59
Consensus pattern (38 bp):
TAATTTAATTTAATTTCTAATTTTATTTCCATTTAATT
Found at i:6541747 original size:21 final size:21
Alignment explanation
Indices: 6541721--6541764 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6541711 TAAATCAAAA
6541721 TTTTTGAAATTAAAAATTTAT
1 TTTTTGAAATTAAAAATTTAT
** *
6541742 TTTTTGCGATTTAAAATTTAT
1 TTTTTGAAATTAAAAATTTAT
6541763 TT
1 TT
6541765 CCATTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTTGAAATTAAAAATTTAT
Found at i:6541876 original size:15 final size:15
Alignment explanation
Indices: 6541858--6541928 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 15
6541848 GTTTATATAT
6541858 ATTTATTTCATTTTA
1 ATTTATTTCATTTTA
6541873 ATTTATTTCA-TTTA
1 ATTTATTTCATTTTA
*
6541887 A--TATTTCCA-TTAA
1 ATTTATTT-CATTTTA
6541900 ATTT-TTTCATTTTA
1 ATTTATTTCATTTTA
6541914 TATTTTATTTTCATT
1 -A-TTTA-TTTCATT
6541929 AAAATTATCT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
12 5 0.11
13 8 0.17
14 11 0.24
15 12 0.26
16 3 0.07
18 7 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTATTTCATTTTA
Found at i:6542150 original size:23 final size:22
Alignment explanation
Indices: 6542120--6542163 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
6542110 CCCTCCAATT
*
6542120 TAATTTAATTTCAATTTCATTTC
1 TAATTTAATTT-AATTTAATTTC
6542143 TAATTTAATTTAATTTAATTT
1 TAATTTAATTTAATTTAATTT
6542164 AATTTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTAATTTAATTTAATTTC
Found at i:6542163 original size:38 final size:37
Alignment explanation
Indices: 6542116--6542195 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 37
6542106 CTTTCCCTCC
*
6542116 AATTTAATTTAATTTCAATTT-CATTTCTAATTTAATTT
1 AATTTAATTTAATTTCAATTTGCATTTC--ATTTAAATT
*
6542154 AATTTAATTTAATTTCTATTTGCATTTCATTTAAATT
1 AATTTAATTTAATTTCAATTTGCATTTCATTTAAATT
6542191 AATTT
1 AATTT
6542196 TTTTGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
37 13 0.33
38 20 0.51
39 6 0.15
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (37 bp):
AATTTAATTTAATTTCAATTTGCATTTCATTTAAATT
Found at i:6542170 original size:27 final size:27
Alignment explanation
Indices: 6542116--6542195 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
6542106 CTTTCCCTCC
*
6542116 AATTTAATTTAATTTCAATTTCATTTCT
1 AATTTAATTTAATTT-AATTTAATTTCT
6542144 AATTTAATTTAATTTAATTTAATTTCT
1 AATTTAATTTAATTTAATTTAATTTCT
* * *
6542171 -ATTTGCATTTCATTTAAATTAATTT
1 AATTT-AATTTAATTTAATTTAATTT
6542196 TTTTGAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 4 0.09
27 28 0.60
28 15 0.32
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (27 bp):
AATTTAATTTAATTTAATTTAATTTCT
Found at i:6542185 original size:5 final size:5
Alignment explanation
Indices: 6542116--6542168 Score: 70
Period size: 5 Copynumber: 10.0 Consensus size: 5
6542106 CTTTCCCTCC
*
6542116 AATTT AATTT AATTT CAATTT CATTTCT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT -AATTT -AATT-T AATTT AATTT AATTT AATTT
6542164 AATTT
1 AATTT
6542169 CTATTTGCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 31 0.70
6 12 0.27
7 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:6542206 original size:21 final size:20
Alignment explanation
Indices: 6542182--6542230 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
6542172 TTTGCATTTC
6542182 ATTTAAATTAATTTTTTTGAA
1 ATTTAAATTAA-TTTTTTGAA
* *
6542203 ATTTAACATTTATTTTTTGCA
1 ATTTAA-ATTAATTTTTTGAA
6542224 ATTTAAA
1 ATTTAAA
6542231 ATTTATTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTAAATTAATTTTTTGAA
Found at i:6542234 original size:21 final size:21
Alignment explanation
Indices: 6542194--6542238 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
6542184 TTAAATTAAT
*
6542194 TTTTTTGAAATTTAACATTTA
1 TTTTTTGAAATTTAAAATTTA
*
6542215 TTTTTTGCAATTTAAAATTTA
1 TTTTTTGAAATTTAAAATTTA
6542236 TTT
1 TTT
6542239 CCATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTTGAAATTTAAAATTTA
Found at i:6542363 original size:26 final size:27
Alignment explanation
Indices: 6542332--6542395 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
6542322 TATATATATT
6542332 TATTTCATTTTAA-TTTTTTCACTTAA
1 TATTTCATTTTAATTTTTTTCACTTAA
* * *
6542358 TATTTCCA-TTAAATTTTTTTCATTTTA
1 TATTT-CATTTTAATTTTTTTCACTTAA
*
6542385 TATTTTATTTT
1 TATTTCATTTT
6542396 CATTAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTTCATTTTAATTTTTTTCACTTAA
Found at i:6545746 original size:54 final size:52
Alignment explanation
Indices: 6545600--6545752 Score: 182
Period size: 52 Copynumber: 2.9 Consensus size: 52
6545590 TATCATACCG
* * * * * * *
6545600 ATGCCATATCCCAGATATGGTCGTACACGGGAGCACTTATCACTT-TTCTCCG
1 ATGCCAAAGCCCAGCTATGGTCTTATAC-GGATCACTTATCACTTGTTCTCCA
*
6545652 ATGCCAAAGCCCAGCTATGGTCTTATACGGATCACTTATCACTTGTTTTCCA
1 ATGCCAAAGCCCAGCTATGGTCTTATACGGATCACTTATCACTTGTTCTCCA
* *
6545704 ATGCCATAGCCCAGCTATGGTCTTATATGGATATCACTTATCACTTGTT
1 ATGCCAAAGCCCAGCTATGGTCTTATACGG--ATCACTTATCACTTGTT
6545753 GCCATGGTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 15 0.17
52 56 0.64
54 17 0.19
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (52 bp):
ATGCCAAAGCCCAGCTATGGTCTTATACGGATCACTTATCACTTGTTCTCCA
Found at i:6548693 original size:113 final size:111
Alignment explanation
Indices: 6548537--6548943 Score: 451
Period size: 113 Copynumber: 3.6 Consensus size: 111
6548527 GACTAGCACT
* * *
6548537 CAAAAAA-TTTAAA-TTTTTTTTACAAGTGTGGT-CTTGGCTATTAGAAGACCAGCACCAATTTT
1 CAAAAAATTTTAAATTTTTTTTTACTAGAGTGGTGC-TGGCCATTAGAAGACCAGCACCAATTTT
* *
6548599 TTTTTTTGGTATTTTTGTATTGGTGCCGGCCATTAGACGGCCAACACC
65 TTTTTTTGATATTTTTGTACTGGTGCCGGCCATTAGA-GGCCAACACC
* * * *
6548647 AAAAAAATTTTGAAATATTTTTTTACTACAGTGGTGTTGGCCATTAGAAGACCAGCACCAAAATT
1 CAAAAAATTTT-AAATTTTTTTTTACTAGAGTGGTGCTGGCCATTAGAAGACCAGCACC--AATT
* * * *
6548712 TTTTTTTTTGATATTTTCGTACTGGTGCCGGGCATTAGAAGACCAGCACC
63 TTTTTTTTTGATATTTTTGTACTGGTGCCGGCCATTAG-AGGCCAACACC
* * * * ****
6548762 CAAAAAATTTTAAATTTTTTTTTACTATAGTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAA
1 CAAAAAATTTTAAATTTTTTTTTACTAGAGTGGTGCTGGCCATTAGAAGACCAGCAC-CAATTTT
* * ** * *
6548827 ATTTCTTGATATTTTTGTACTGGTGCTTGCCATTAGAAGACAAGCACC
65 TTTTTTTGATATTTTTGTACTGGTGCCGGCCATTAGAGGCCAA-CACC
* * *
6548875 CAAAAAATTTTGAATTTTTTTTTACTAGAGTGGTGCTAGCCATTAGAAGGCCAGCACCAATTTTT
1 CAAAAAATTTTAAATTTTTTTTTACTAGAGTGGTGCTGGCCATTAGAAGACCAGCACCAATTTTT
6548940 TTTT
66 TTTT
6548944 CAAATACTCG
Statistics
Matches: 243, Mismatches: 45, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
110 6 0.02
111 3 0.01
112 11 0.05
113 125 0.51
114 41 0.17
115 56 0.23
116 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (111 bp):
CAAAAAATTTTAAATTTTTTTTTACTAGAGTGGTGCTGGCCATTAGAAGACCAGCACCAATTTTT
TTTTTTGATATTTTTGTACTGGTGCCGGCCATTAGAGGCCAACACC
Found at i:6548786 original size:227 final size:219
Alignment explanation
Indices: 6548492--6548943 Score: 507
Period size: 227 Copynumber: 2.0 Consensus size: 219
6548482 AAAGAAAAGA
* * * * *
6548492 TTTTTCTTGATATTTTTGTACCGGTGCCTGTTAAAGACTAGCACTCAAAAAATTTAAATTTTTTT
1 TTTTTTTTGATATTTTCGTACCGGTGCCGGTTAAAGACCAGCACCCAAAAAATTTAAATTTTTTT
* * * ***** * * *
6548557 TACAAGT-GTGGT-CTTGGCTATTAGAAGACCAGCAC-CAATTTTTTTTTTTGGTATTTTTGTAT
66 TACAA-TAGTGGTGC-CGGCCATTAGAAGACCAGCACAAAAAAAAATTTCTTGATATTTTTGTAC
* *
6548619 TGGTGCCGGCCATTAGACGGCCAA-CACCAAAAAAATTTTGAAATATTTTTTTACTACAGTGGTG
129 TGGTGCCGGCCATTAGA-AGACAAGCACCAAAAAAATTTTG-AATATTTTTTTACTACAGTGGTG
* *
6548683 TTGGCCATTAGAAGACCAGCACCAAAATTT
192 CTAGCCATTAGAAGACCAGCACC--AATTT
*
6548713 TTTTTTTTGATATTTTCGTACTGGTGCCGGGCATTAGAAGACCAGCACCCAAAAAATTTTAAATT
1 TTTTTTTTGATATTTTCGTACCGGTGCC-GG--TTA-AAGACCAGCACCCAAAAAA-TTTAAA-T
* *
6548778 TTTTTTTACTATAGTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAAATTTCTTGATATTTTT
60 TTTTTTTACAATAGTGGTGCCGGCCATTAGAAGACCAGCACAAAAAAAAATTTCTTGATATTTTT
** * * *
6548843 GTACTGGTGCTTGCCATTAGAAGACAAGCACCCAAAAAATTTTGAATTTTTTTTTACTAGAGTGG
125 GTACTGGTGCCGGCCATTAGAAGACAAGCACCAAAAAAATTTTGAATATTTTTTTACTACAGTGG
*
6548908 TGCTAGCCATTAGAAGGCCAGCACCAATTT
190 TGCTAGCCATTAGAAGACCAGCACCAATTT
6548938 TTTTTT
1 TTTTTT
6548944 CAAATACTCG
Statistics
Matches: 192, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
221 25 0.13
222 1 0.01
224 3 0.02
225 28 0.15
226 7 0.04
227 79 0.41
228 49 0.26
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (219 bp):
TTTTTTTTGATATTTTCGTACCGGTGCCGGTTAAAGACCAGCACCCAAAAAATTTAAATTTTTTT
TACAATAGTGGTGCCGGCCATTAGAAGACCAGCACAAAAAAAAATTTCTTGATATTTTTGTACTG
GTGCCGGCCATTAGAAGACAAGCACCAAAAAAATTTTGAATATTTTTTTACTACAGTGGTGCTAG
CCATTAGAAGACCAGCACCAATTT
Found at i:6548810 original size:58 final size:58
Alignment explanation
Indices: 6548619--6548932 Score: 243
Period size: 58 Copynumber: 5.5 Consensus size: 58
6548609 ATTTTTGTAT
* * * * * *
6548619 TGGTGCCGGCCATTAGACGGCCAACACCAAAAAAATTTTGAAATATTTTTTTACTACAG
1 TGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAATTTT-AAATTTTTTTTTACTATAG
** ** * * *
6548678 TGGTGTTGGCCATTAGAAGACCAGCA-CC--AAAATTTT-TTTTTTTGATATTTTC-GTAC
1 TGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAATTTTAAATTTTT--T-TTTACTATAG
*
6548734 TGGTGCCGGGCATTAGAAGACCAGCACCCAAAAAATTTTAAATTTTTTTTTACTATAG
1 TGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAATTTTAAATTTTTTTTTACTATAG
* ** ** * *
6548792 TGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAAATTTCTTGATATTTTTGTAC-----
1 TGGTGCCGGCCATTAGAAGACCAGCAC-CCAAAAAATTT-TAAATTTTTTTTTACTATAG
** * * *
6548847 TGGTGCTTGCCATTAGAAGACAAGCACCCAAAAAATTTTGAATTTTTTTTTACTAGAG
1 TGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAATTTTAAATTTTTTTTTACTATAG
** *
6548905 TGGTGCTAGCCATTAGAAGGCCAGCACC
1 TGGTGCCGGCCATTAGAAGACCAGCACC
6548933 AATTTTTTTT
Statistics
Matches: 198, Mismatches: 42, Indels: 31
0.73 0.15 0.11
Matches are distributed among these distances:
53 11 0.06
54 13 0.07
55 23 0.12
56 33 0.17
57 10 0.05
58 54 0.27
59 38 0.19
60 16 0.08
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (58 bp):
TGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAATTTTAAATTTTTTTTTACTATAG
Found at i:6548880 original size:55 final size:54
Alignment explanation
Indices: 6548601--6548893 Score: 186
Period size: 59 Copynumber: 5.3 Consensus size: 54
6548591 CCAATTTTTT
* * * * *
6548601 TTTTTGGTATTTTTGTATTGGTGCCGGCCATTAGACGGCCAACA-CCAAAAAAA
1 TTTTTGATATTTTTGTACTGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAAA
* ** ***
6548654 -TTTTGAAATATTTTTTTACTACAGTGGTGTTGGCCATTAGAAGACCAGCA-CCAAAATTTTTT
1 TTTTTG--ATA--TTTTT-GTAC--TGGTGCCGGCCATTAGAAGACCAGCACCCAAAA---AAA
* *
6548716 TTTTTGATATTTTCGTACTGGTGCCGGGCATTAGAAGACCAGCACCC-AAAAAA
1 TTTTTGATATTTTTGTACTGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAAA
** * * * **
6548769 TTTTAAATTTTTTTTTACTATAGTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAAA
1 TTTTTGATATTTTTGTAC-----TGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAAA
** *
6548828 TTTCTTGATATTTTTGTACTGGTGCTTGCCATTAGAAGACAAGCACCC-AAAAAA
1 TTT-TTGATATTTTTGTACTGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAAA
6548882 -TTTTGA-ATTTTT
1 TTTTTGATATTTTT
6548894 TTTTACTAGA
Statistics
Matches: 183, Mismatches: 38, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
51 6 0.03
52 9 0.05
53 15 0.08
54 8 0.04
55 23 0.13
56 31 0.17
57 4 0.02
58 28 0.15
59 40 0.22
60 11 0.06
61 3 0.02
63 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (54 bp):
TTTTTGATATTTTTGTACTGGTGCCGGCCATTAGAAGACCAGCACCCAAAAAAA
Found at i:6549930 original size:29 final size:32
Alignment explanation
Indices: 6549888--6549953 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 32
6549878 TAATATAAAT
*
6549888 AAAATTACACTTTACTCCCTT-AAAATTATAA
1 AAAATTACACTTTAATCCCTTAAAAATTATAA
**
6549919 AAAATTA-A-TTTAATCTTTTAAAAATTATAA
1 AAAATTACACTTTAATCCCTTAAAAATTATAA
6549949 AAAAT
1 AAAAT
6549954 ATATACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.26
30 16 0.52
31 7 0.23
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAATTACACTTTAATCCCTTAAAAATTATAA
Found at i:6549970 original size:26 final size:30
Alignment explanation
Indices: 6549909--6549971 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
6549899 TTACTCCCTT
* *
6549909 AAAATTATAAAAAATTAATTTAATCTTTTA
1 AAAATTATAAAAAATTAATATAATCTATTA
6549939 AAAATTATAAAAAA-T-ATAT-A-CTATTA
1 AAAATTATAAAAAATTAATATAATCTATTA
6549965 AAAATTA
1 AAAATTA
6549972 AAATTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 12 0.39
27 1 0.03
28 3 0.10
29 1 0.03
30 14 0.45
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATTATAAAAAATTAATATAATCTATTA
Found at i:6555082 original size:8 final size:8
Alignment explanation
Indices: 6555069--6555098 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6555059 AGATCGGCAC
6555069 AAGCCGAA
1 AAGCCGAA
6555077 AAGCCGAA
1 AAGCCGAA
*
6555085 ATGCCGAA
1 AAGCCGAA
6555093 AAGCCG
1 AAGCCG
6555099 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:6555585 original size:27 final size:27
Alignment explanation
Indices: 6555488--6555592 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
6555478 AGGAAGCGTC
* *
6555488 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
6555515 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
6555542 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
6555569 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
6555593 ACAGCCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 9 0.13
27 60 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Done.