Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 124 of 311
Found at i:41562760 original size:30 final size:30
Alignment explanation
Indices: 41562726--41562786 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41562716 ACGTTAACTC
41562726 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41562756 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41562786 A
1 A
41562787 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41568571 original size:15 final size:14
Alignment explanation
Indices: 41568527--41568571 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
41568517 ATCCTGGGAT
41568527 ATTAA-AACAAG-A
1 ATTAAGAACAAGTA
41568539 ATTAAGAACACA-TA
1 ATTAAGAACA-AGTA
41568553 ATTAAGAACAAGTTA
1 ATTAAGAACAAG-TA
41568568 ATTA
1 ATTA
41568572 TTTATCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 12 0.43
15 6 0.21
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (14 bp):
ATTAAGAACAAGTA
Found at i:41573044 original size:16 final size:16
Alignment explanation
Indices: 41573025--41573055 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41573015 CTTCTTCACT
41573025 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41573041 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41573056 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41573061 original size:20 final size:20
Alignment explanation
Indices: 41573022--41573061 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41573012 AAACTTCTTC
* *
41573022 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
41573042 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
41573062 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:41573473 original size:55 final size:52
Alignment explanation
Indices: 41573247--41573501 Score: 198
Period size: 55 Copynumber: 4.8 Consensus size: 52
41573237 AAGCGGGTAC
* * * **
41573247 CTTACCATTGCCATGACTTGTCATGGTCTTATGTGGTATCC-TT--TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTTCCTTAGAAA
* * *
41573296 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTTCCTTA-GAAA
* * * * * *
41573349 CTCACCAATTCCTTGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTT-CC-T-TAGAAA
* * *
41573404 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-TATCCTTTCCTTAGAAA
* *
41573457 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACAT-GTATCCTT
41573502 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 6 0.04
53 40 0.24
54 12 0.07
55 63 0.38
56 6 0.04
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (52 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGTATCCTTTCCTTAGAAA
Found at i:41580638 original size:16 final size:16
Alignment explanation
Indices: 41580619--41580649 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41580609 CTTCTTCACT
41580619 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41580635 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41580650 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41580655 original size:20 final size:20
Alignment explanation
Indices: 41580616--41580655 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41580606 AAACTTCTTC
* *
41580616 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
41580636 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
41580656 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:41581031 original size:55 final size:53
Alignment explanation
Indices: 41580842--41581095 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 53
41580832 AGCGGGTACT
* * * * *
41580842 TTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AAC
* *
41580891 TTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAC
* * * * *
41580944 TCACCAATTCCTTGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AAC
* * **
41580999 TTATCAATGCCATGTCTTGACACGGTCTTACATGATATCCTTGCCTTA-GAAACC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-C
* *
41581053 TTACCAATTGCCAT-TCCTTGGCATGGTCTTACATGGTATCCTT
1 TTACCAA-TGCCATGT-CTTGACATGGTCTTACATGGGATCCTT
41581096 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 47 0.28
54 11 0.07
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAC
Found at i:41594477 original size:27 final size:27
Alignment explanation
Indices: 41594419--41594508 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
41594409 AGGAAGCGTC
41594419 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
41594447 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
41594474 CTGGTGGCACTGCCACAAAATATATGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
41594503 CTGGTG
1 CTGGTG
41594509 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:41594519 original size:29 final size:28
Alignment explanation
Indices: 41594429--41594519 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
41594419 CTGGTGGCTA
* * * *
41594429 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATATGTTCTGGTGACAC
* * *
41594457 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATATGTTCTGGTGACAC
*
41594484 TGCCACAAAATATATGTATCTGGTGACTC
1 TGCCACAAAATATATGT-TCTGGTGACAC
*
41594513 TGTCACA
1 TGCCACA
41594520 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.45
28 14 0.26
29 15 0.28
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATATGTTCTGGTGACAC
Found at i:41594527 original size:55 final size:56
Alignment explanation
Indices: 41594419--41594533 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
41594409 AGGAAGCGTC
* * *
41594419 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATATGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
41594474 CTGGTGGC-ACTGCCACAAAATATATGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATATGT-TCTGGTGACCCTGCCACATATATCTGTAT
41594530 CTGG
1 CTGG
41594534 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATATGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:41594677 original size:10 final size:10
Alignment explanation
Indices: 41594662--41594691 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
41594652 GCATGATATA
41594662 TCTGTTCTGG
1 TCTGTTCTGG
41594672 TCTGTTCTGG
1 TCTGTTCTGG
41594682 TCTGTTCTGG
1 TCTGTTCTGG
41594692 GCCTACGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.30, T:0.50
Consensus pattern (10 bp):
TCTGTTCTGG
Found at i:41595006 original size:19 final size:19
Alignment explanation
Indices: 41594982--41595020 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
41594972 TTTTAATTAT
* *
41594982 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
41595001 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
41595020 T
1 T
41595021 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:41596428 original size:49 final size:49
Alignment explanation
Indices: 41596358--41596536 Score: 207
Period size: 49 Copynumber: 3.7 Consensus size: 49
41596348 CATCAAAGTC
* * *
41596358 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
1 GATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
* * *
41596407 GATGTCTTGTCCCAGATAGGTCTTACACTAACATTCATATATCGAGGCT
1 GATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * * ** *
41596456 GATGTCATGTCCCAAATAGATCTTACACTGGCTCTCACCTATCG-GTGTT
1 GATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-GCT
* *
41596505 GATGCCATGTCCCTGATAGGTCTTACACTGAC
1 GATGTCATGTCCCAGATAGGTCTTACACTGAC
41596537 ACACAACAAG
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 107 0.99
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (49 bp):
GATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:41598833 original size:13 final size:13
Alignment explanation
Indices: 41598815--41598840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41598805 GAAGTAATCA
41598815 CACACGGGCGTGT
1 CACACGGGCGTGT
41598828 CACACGGGCGTGT
1 CACACGGGCGTGT
41598841 TCGTGCCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:41601293 original size:40 final size:40
Alignment explanation
Indices: 41601267--41601497 Score: 311
Period size: 40 Copynumber: 5.8 Consensus size: 40
41601257 AGGAATACAG
*
41601267 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* * *
41601307 AAGTACAAACAGGGGCACGTATGTGCAATCAAGGGCACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* * *
41601347 AAGTACAAATAGGAGCACGTATGTACAATC-GGGGATACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGG-TACCA
** *
41601387 AAGTACAAACAATGGCATGTATGTGCAATCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* * *
41601427 AAGTACAAACAAGGGCATGTATGTGCAATCAAGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* *
41601467 AAGTATAAACAGGGGCACATATGTGCAATCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCA
41601498 CCAATAATTA
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 162 0.96
41 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.17
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
Found at i:41601301 original size:20 final size:20
Alignment explanation
Indices: 41601276--41601344 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
41601266 GAAGTACAAA
41601276 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * *
41601296 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCAAT
41601316 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
*
41601336 CAAGGGCAC
1 CAGGGGCAC
41601345 CGAAGTACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:41601490 original size:120 final size:120
Alignment explanation
Indices: 41601267--41601496 Score: 343
Period size: 120 Copynumber: 1.9 Consensus size: 120
41601257 AGGAATACAG
* * *
41601267 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTG
1 AAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTG
* * *
41601332 CAATCAAGGGCACCGAAGTACAAATAGGAGCACGTATGTACAATCGGGGATACCA
66 CAATCAAGGGCACCAAAGTACAAACAGGAGCACATATGTACAATCGGGGATACCA
* * *
41601387 AAGTACAAACAATGGCATGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCATGTATGTG
1 AAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTG
* * * *
41601452 CAATCAAGGGTACCAAAGTATAAACAGGGGCACATATGTGCAATC
66 CAATCAAGGGCACCAAAGTACAAACAGGAGCACATATGTACAATC
41601497 ACCAATAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (120 bp):
AAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTG
CAATCAAGGGCACCAAAGTACAAACAGGAGCACATATGTACAATCGGGGATACCA
Found at i:41604434 original size:46 final size:44
Alignment explanation
Indices: 41604370--41604489 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 44
41604360 TCTCGAGGCT
* * *
41604370 GATGCATGTCCTAAACATGTCTTACACTTGCTCTCGTCTTAATAT-C
1 GATGCATGTCCTAGACATGTCTTACACTAGCTCT--T-ATAATATGC
* *
41604416 GATGCATGTCCTGGACATGTCTTACACTAGCTCTTATAATGTGGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGCTCTTATAATAT-G-C
41604462 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
41604490 CGCACACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 5 0.08
44 1 0.02
46 59 0.91
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (44 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCTCTTATAATATGC
Found at i:41608277 original size:17 final size:17
Alignment explanation
Indices: 41608255--41608287 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41608245 TCAATTCAAT
41608255 CATTTATCGGGATTTAA
1 CATTTATCGGGATTTAA
*
41608272 CATTTATCGGGCTTTA
1 CATTTATCGGGATTTA
41608288 TCCGATATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (17 bp):
CATTTATCGGGATTTAA
Found at i:41610649 original size:40 final size:40
Alignment explanation
Indices: 41610544--41610687 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
41610534 GGATTGATAC
* * *
41610544 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-A
41610584 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
41610623 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
41610663 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41610688 AGCTAGTAGC
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 34 0.34
40 65 0.66
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:41610710 original size:79 final size:79
Alignment explanation
Indices: 41610544--41610690 Score: 233
Period size: 79 Copynumber: 1.8 Consensus size: 79
41610534 GGATTGATAC
* * *
41610544 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
41610609 GCGAGTTACTATAA
66 GCGAGTTACTATAA
*
41610623 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
41610687 GAGC
64 GAGC
41610691 TAGTAGCTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.03
79 44 0.71
80 16 0.26
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCGAGTTACTATAA
Found at i:41615431 original size:14 final size:16
Alignment explanation
Indices: 41615401--41615433 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
41615391 TTTTCTTTAT
41615401 TTTATTATTTATCATC
1 TTTATTATTTATCATC
41615417 TTTATT-TTT-TCATC
1 TTTATTATTTATCATC
41615431 TTT
1 TTT
41615434 CCAATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTATTTATCATC
Found at i:41618075 original size:50 final size:49
Alignment explanation
Indices: 41617953--41618128 Score: 203
Period size: 50 Copynumber: 3.5 Consensus size: 49
41617943 TGAGGTCGCA
* * * *
41617953 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
41618004 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
41618054 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
41618103 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
41618129 TGCTACCAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.28
50 42 0.39
51 31 0.29
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:41618075 original size:101 final size:99
Alignment explanation
Indices: 41617942--41618128 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
41617932 ATGATCTATT
* * *
41617942 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACGTG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AAACTGTTGATCACATG
41618006 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
63 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* * * * * *
41618043 GTGAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAACTGTTGATCACATGTGT
41618108 AGTACTAAGTGCAGGCTACTA
66 AGTACTAAGTGCAGGCTACTA
41618129 TGCTACCAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 5 0.07
99 31 0.41
100 2 0.03
101 38 0.50
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (99 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAACTGTTGATCACATGTGT
AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:41618158 original size:101 final size:99
Alignment explanation
Indices: 41617953--41618139 Score: 218
Period size: 99 Copynumber: 1.9 Consensus size: 99
41617943 TGAGGTCGCA
* *
41617953 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGTGATCACATGTGTAGTACTAAG
** * *
41618018 TGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
65 TGCAGGCTACTAC-TGTACCAGATGCTGAGGTCAAG
* * * * *
41618054 TGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CC-AGACTGTTGGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-TGATCACATGTGTAGTACTAAG
41618117 TGCAGGCTACTA-TGCTACCAGAT
65 TGCAGGCTACTACTG-TACCAGAT
41618140 AGCTTCGGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
97 2 0.03
98 11 0.15
99 31 0.41
100 2 0.03
101 29 0.39
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGTGATCACATGTGTAGTACTAAGT
GCAGGCTACTACTGTACCAGATGCTGAGGTCAAG
Found at i:41620660 original size:30 final size:30
Alignment explanation
Indices: 41620626--41620685 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
41620616 CTTTAATACG
41620626 AACTTTGGCAA-AATTACA-TTTTTGCCCCTA
1 AACTTTGG-AATAATTACACTTTTT-CCCCTA
*
41620656 AACTTTTGAATAATTACACTTTTTCCCCTA
1 AACTTTGGAATAATTACACTTTTTCCCCTA
41620686 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 20 0.74
31 5 0.19
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGAATAATTACACTTTTTCCCCTA
Found at i:41629864 original size:40 final size:40
Alignment explanation
Indices: 41629819--41630087 Score: 502
Period size: 40 Copynumber: 6.7 Consensus size: 40
41629809 GCAAACACAT
*
41629819 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
41629859 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
41629899 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
41629939 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
41629979 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
41630019 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
41630059 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
41630088 CAATGCTCAT
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:41638468 original size:40 final size:40
Alignment explanation
Indices: 41638423--41638691 Score: 502
Period size: 40 Copynumber: 6.7 Consensus size: 40
41638413 GCAAACACAT
*
41638423 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
41638463 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
41638503 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
41638543 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
41638583 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
41638623 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
41638663 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
41638692 CCAATGCTCA
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:41641946 original size:40 final size:40
Alignment explanation
Indices: 41641898--41642155 Score: 347
Period size: 40 Copynumber: 6.5 Consensus size: 40
41641888 GTATAAATAG
* * * ** * *
41641898 GGGCACGTAAGTGCATTTAGGAATACCGAAGTACAAACAG
1 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
41641938 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
1 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
* * * * * *
41641978 GGGCATGTATGTGCAATTAGGGGTACCGAAGTAAAAATAG
1 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
41642018 GGGCACGTATGTGCAATCAGGGGTA-CAAAGTACAAACAA
1 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
* * *
41642057 GGGCATGTAAGTGCAATCAGGGGTACCGAAGTACAAACAA
1 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
* *
41642097 GGGCACGTATGTGCAATCAAGGGTACCAAAGTATAAACAA
1 GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
41642137 GGGCACGTATGTGCAATCA
1 GGGCACGTATGTGCAATCA
41642156 CCAATAATTA
Statistics
Matches: 190, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 33 0.17
40 157 0.83
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (40 bp):
GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAA
Found at i:41642031 original size:80 final size:80
Alignment explanation
Indices: 41641898--41642153 Score: 388
Period size: 80 Copynumber: 3.2 Consensus size: 80
41641888 GTATAAATAG
* **
41641898 GGGCACGTAAGTGCATTTAGGAATACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTA
1 GGGCACGTAAGTGCAATTAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTA
41641963 CCAAAGTACAAACAA
66 CCAAAGTACAAACAA
* * * *
41641978 GGGCATGTATGTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCACGTATGTGCAATCAGGGGTA
1 GGGCACGTAAGTGCAATTAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTA
41642043 -CAAAGTACAAACAA
66 CCAAAGTACAAACAA
* * * *
41642057 GGGCATGTAAGTGCAATCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTA
1 GGGCACGTAAGTGCAATTAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTA
*
41642122 CCAAAGTATAAACAA
66 CCAAAGTACAAACAA
*
41642137 GGGCACGTATGTGCAAT
1 GGGCACGTAAGTGCAAT
41642154 CACCAATAAT
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 73 0.46
80 86 0.54
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.18
Consensus pattern (80 bp):
GGGCACGTAAGTGCAATTAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTA
CCAAAGTACAAACAA
Found at i:41642093 original size:119 final size:120
Alignment explanation
Indices: 41641892--41642155 Score: 368
Period size: 119 Copynumber: 2.2 Consensus size: 120
41641882 TACCGGGTAT
* * * * * *
41641892 AAATAGGGGCACGTAAGTGCATTTAGGAATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
1 AAATAGGGGCACGTATGTGCAATCAGGAATACCAAAGTACAAACAAGGGCACGTAAGTGCAATCA
* * * *
41641957 GGGGTACCAAAGTACAAACAAGGGCATGTATGTGCAATTAGGGGTACCGAAGTAA
66 GGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGTAA
** *
41642012 AAATAGGGGCACGTATGTGCAATCAGGGGTA-CAAAGTACAAACAAGGGCATGTAAGTGCAATCA
1 AAATAGGGGCACGTATGTGCAATCAGGAATACCAAAGTACAAACAAGGGCACGTAAGTGCAATCA
* *
41642076 GGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGTAT
66 GGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGTAA
* *
41642131 AAACAAGGGCACGTATGTGCAATCA
1 AAATAGGGGCACGTATGTGCAATCA
41642156 CCAATAATTA
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
119 101 0.80
120 26 0.20
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (120 bp):
AAATAGGGGCACGTATGTGCAATCAGGAATACCAAAGTACAAACAAGGGCACGTAAGTGCAATCA
GGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGTAA
Found at i:41642119 original size:20 final size:20
Alignment explanation
Indices: 41642018--41642155 Score: 82
Period size: 20 Copynumber: 7.0 Consensus size: 20
41642008 GTAAAAATAG
* *
41642018 GGGCACGTATGTGCAATCAG
1 GGGCACGTAAGTGCAATCAA
* * * *
41642038 GGGTAC-AAAGTACAAACAA
1 GGGCACGTAAGTGCAATCAA
* *
41642057 GGGCATGTAAGTGCAATCAG
1 GGGCACGTAAGTGCAATCAA
* * *
41642077 GGGTACCG-AAGTACAAACAA
1 GGGCA-CGTAAGTGCAATCAA
*
41642097 GGGCACGTATGTGCAATCAA
1 GGGCACGTAAGTGCAATCAA
* ** ** *
41642117 GGGTACCAAAGTATAAACAA
1 GGGCACGTAAGTGCAATCAA
*
41642137 GGGCACGTATGTGCAATCA
1 GGGCACGTAAGTGCAATCA
41642156 CCAATAATTA
Statistics
Matches: 80, Mismatches: 35, Indels: 6
0.66 0.29 0.05
Matches are distributed among these distances:
19 14 0.17
20 65 0.81
21 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (20 bp):
GGGCACGTAAGTGCAATCAA
Found at i:41642174 original size:79 final size:79
Alignment explanation
Indices: 41641921--41642155 Score: 366
Period size: 79 Copynumber: 2.9 Consensus size: 79
41641911 CATTTAGGAA
*
41641921 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCATGT
1 TACCGAAGTA-AAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCATGT
*
41641986 ATGTGCAATTAGGGG
65 ATGTGCAATCAGGGG
41642001 TACCGAAGTAAAA-ATAGGGGCACGTATGTGCAATCAGGGGTA-CAAAGTACAAACAAGGGCATG
1 TACCGAAGTAAAACA-A-GGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCATG
*
41642064 TAAGTGCAATCAGGGG
64 TATGTGCAATCAGGGG
* * *
41642080 TACCGAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGTATAAACAAGGGCACGT
1 TACCGAAGTA-AAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCATGT
41642145 ATGTGCAATCA
65 ATGTGCAATCA
41642156 CCAATAATTA
Statistics
Matches: 143, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
78 1 0.01
79 72 0.50
80 69 0.48
81 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (79 bp):
TACCGAAGTAAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGCATGTA
TGTGCAATCAGGGG
Found at i:41643868 original size:36 final size:36
Alignment explanation
Indices: 41643786--41643868 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
41643776 CATATTATAA
41643786 TCACTATCACATGGCATGAATAACATAACCACATAT
1 TCACTATCACATGGCATGAATAACATAACCACATAT
* * * **
41643822 TTACTATCACATGGCATGCATAACATACCCATGTAT
1 TCACTATCACATGGCATGAATAACATAACCACATAT
*
41643858 TCACTTTCACA
1 TCACTATCACA
41643869 ACAATCATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (36 bp):
TCACTATCACATGGCATGAATAACATAACCACATAT
Found at i:41644835 original size:28 final size:28
Alignment explanation
Indices: 41644795--41644852 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
41644785 AGATTTTTGG
41644795 TTCAAAGGATGTTGGAAATCAAGAGGAA
1 TTCAAAGGATGTTGGAAATCAAGAGGAA
*
41644823 TTCAAAGGATGTTGGAAATCCAGAGGAA
1 TTCAAAGGATGTTGGAAATCAAGAGGAA
41644851 TT
1 TT
41644853 AGGATTTGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.24
Consensus pattern (28 bp):
TTCAAAGGATGTTGGAAATCAAGAGGAA
Found at i:41648072 original size:20 final size:20
Alignment explanation
Indices: 41648039--41648113 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
41648029 ATACGTGGGA
41648039 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
*
41648056 ATATGTTATGCACATGATATG
1 -TATGATATGCACATGATATG
41648077 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
41648097 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
41648114 GTATTCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 7 0.14
20 42 0.82
21 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:41648241 original size:52 final size:51
Alignment explanation
Indices: 41648163--41648298 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
41648153 GAGGAAGTGC
*
41648163 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
41648215 AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
41648266 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCAAGTTTATTGAAAAG-GGCT
41648299 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 25 0.31
52 35 0.43
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:41648254 original size:25 final size:26
Alignment explanation
Indices: 41648163--41648298 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
41648153 GAGGAAGTGC
*
41648163 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
41648189 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
41648215 AAAAGGGCTTATGCCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
41648241 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
41648266 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
41648289 AAAAGAGGCT
1 AAAAG-GGCT
41648299 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.31
26 56 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:41650609 original size:53 final size:53
Alignment explanation
Indices: 41650506--41650609 Score: 118
Period size: 53 Copynumber: 2.0 Consensus size: 53
41650496 TTCCTTTTTA
* * * * *
41650506 AACTTACCATTGCTATATCTTGACATAGTCTTACGTGGTATCCTTCCCTTATG
1 AACTCACCATTGCCATACCTTGACATAGTCTTACATGGGATCCTTCCCTTATG
* * * * *
41650559 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 AACTCACCATTGCCATACCTTGACATAGTCTTACATGGGATCCTTCCCTTA
41650610 CCGTAGTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATACCTTGACATAGTCTTACATGGGATCCTTCCCTTATG
Found at i:41657353 original size:104 final size:104
Alignment explanation
Indices: 41657173--41657396 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
41657163 TGTATATAAA
** * *
41657173 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
41657238 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
41657277 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
41657341 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
41657381 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
41657397 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:41657448 original size:71 final size:72
Alignment explanation
Indices: 41657315--41657466 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
41657305 TCATTGGTGG
* *
41657315 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
41657380 GAGGGGT
66 GAGGGGT
***
41657387 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
41657451 GAGGGGT
66 GAGGGGT
41657458 TGCTAAGTG
1 TGCTAAGTG
41657467 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:41664850 original size:26 final size:26
Alignment explanation
Indices: 41664815--41664865 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
41664805 AATGTGAAAG
*
41664815 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
41664841 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
41664866 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:41664877 original size:103 final size:104
Alignment explanation
Indices: 41664737--41664959 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
41664727 TGTATATAAA
** * *
41664737 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
41664801 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
41664840 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
41664905 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
41664944 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
41664960 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:41665011 original size:71 final size:72
Alignment explanation
Indices: 41664878--41665029 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
41664868 TCATTGGTGG
* *
41664878 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
41664943 GAGGGGT
66 GAGGGGT
***
41664950 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
41665014 GAGGGGT
66 GAGGGGT
41665021 TGCTAAGTG
1 TGCTAAGTG
41665030 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:41668209 original size:53 final size:54
Alignment explanation
Indices: 41668125--41668331 Score: 175
Period size: 53 Copynumber: 3.8 Consensus size: 54
41668115 TTCCTTTTTA
* * * *
41668125 AACTTACCATTGCTATGTCTTGACATAGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
41668178 AACTCACCATTGCCATGCCTT-AGCATGGTCTTACATGGGATCTTTACCTTATCG
1 AACTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * * *
41668232 TAGTTTATCAATGCCATGTCATGACATGGTCTTATATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
41668287 AACTTACCAATGCCATACCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
41668332 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 34, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.37
54 35 0.30
55 36 0.31
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:41679624 original size:51 final size:51
Alignment explanation
Indices: 41679569--41679689 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
41679559 CGCATGTATA
* * *** *
41679569 GTACTAGGTGCAGGCTACTATGCGTGCTAGATAGCTTCGATCACATGTGTG
1 GTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCACAAGTGTG
* * *
41679620 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTGGGTCACAAGTGTG
1 GTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCACAAGTGTG
* *
41679671 GTACTATGTGAAGGCCACT
1 GTACTAAGTGCAGGCCACT
41679690 TTGTGAAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (51 bp):
GTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCACAAGTGTG
Found at i:41679706 original size:51 final size:51
Alignment explanation
Indices: 41679597--41679707 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
41679587 TATGCGTGCT
* *
41679597 AGATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAA
1 AGATAGCTTCGATCACAAGTGTGGTACTAAGTGAAGGCCACTATGTGTAAA
* * * *
41679648 AGATAGCTTGGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGA
1 AGATAGCTTCGATCACAAGTGTGGTACTAAGTGAAGGCCACTATGTGTAA-A
*
41679699 AGGTAGCTT
1 AGATAGCTT
41679708 TGACTACAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 2 0.04
51 50 0.96
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
AGATAGCTTCGATCACAAGTGTGGTACTAAGTGAAGGCCACTATGTGTAAA
Found at i:41685012 original size:27 final size:26
Alignment explanation
Indices: 41684964--41685023 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
41684954 GCGAGGCTGC
*
41684964 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
41684991 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
41685017 CAGATAT
1 CAGATAT
41685024 ATATATGTGG
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:41686924 original size:28 final size:28
Alignment explanation
Indices: 41686884--41686951 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
41686874 GCAATCAAAT
41686884 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
41686912 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
**
41686940 ATGAAACTTAGT
1 ATGGCACTTAGT
41686952 TTGCAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:41686962 original size:28 final size:28
Alignment explanation
Indices: 41686889--41686962 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
41686879 CAAATATGGC
* * **
41686889 ACTTAGTGTACGAAATATTGAGAATGGC
1 ACTTAGTGTGCAAAATATTGAGAATGAA
* *
41686917 ACTTAGTGTGCGAGATATTGAGAATGAA
1 ACTTAGTGTGCAAAATATTGAGAATGAA
*
41686945 ACTTAGTTTGCAAAATAT
1 ACTTAGTGTGCAAAATAT
41686963 CGAATGATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.31
Consensus pattern (28 bp):
ACTTAGTGTGCAAAATATTGAGAATGAA
Found at i:41703158 original size:50 final size:49
Alignment explanation
Indices: 41703040--41703265 Score: 233
Period size: 50 Copynumber: 4.5 Consensus size: 49
41703030 CTTATACGCA
* * *
41703040 TAGTAGCCTGCACTTAGTACTAGACATGCGA-TCAACAATCCGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAAC-ATCTGATACACG
* *
41703089 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACATCTGATACACG
* * * * *
41703139 TAGTAGCCTACACTTAGTACTACACACGTGA-TCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTC-AA--CATCTGA-TACACG
* *
41703190 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACA-TCTGATACACG
* * *
41703240 TAGTAGCCTACACATAGTACAACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41703266 CGTGTATTCA
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.01
49 32 0.21
50 70 0.47
51 44 0.30
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACATCTGATACACG
Found at i:41710542 original size:26 final size:26
Alignment explanation
Indices: 41710513--41710595 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
41710503 AGCTATCTTA
*
41710513 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTACACTTAGTAC
* *
41710539 TACACAT-GT-GACTTA-AC--AGTATGA
1 TACACATAGTAG-CCTACACTTAGTA--C
*
41710563 TACACGTAGTAGCCTACACTTAGTAC
1 TACACATAGTAGCCTACACTTAGTAC
41710589 TACACAT
1 TACACAT
41710596 GTGTATTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 16
0.65 0.11 0.25
Matches are distributed among these distances:
22 4 0.10
24 9 0.21
25 9 0.21
26 16 0.38
28 4 0.10
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (26 bp):
TACACATAGTAGCCTACACTTAGTAC
Found at i:41712197 original size:216 final size:216
Alignment explanation
Indices: 41711816--41712222 Score: 726
Period size: 216 Copynumber: 1.9 Consensus size: 216
41711806 AGTTGTCACA
* * *
41711816 GCTTATCTCACAAGGTCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCATGGGTA
1 GCTTATCTCACAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGGAA
*
41711881 TAGATCAAAATGTCATCTATAAACACAACCACAAACTGGTCCAGATACGGTCTGAAGATTCGATT
66 TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGATTCGATT
* *
41711946 CATCAAATCCATGAAAATAGCAGGTGCATTAGTGAGTCCGAAAGGCATAACCAAAAACTCACATT
131 CATCAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCACATT
41712011 TACTGAATTTCGAATACAACT
196 TACTGAATTTCGAATACAACT
*
41712032 GCTTATCTCGCAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGGAA
1 GCTTATCTCACAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGGAA
41712097 TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGA-TCTGAT
66 TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGATTC-GAT
*
41712161 TCATGAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCA
130 TCATCAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCA
41712223 TAGTGTCCAT
Statistics
Matches: 182, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
215 2 0.01
216 180 0.99
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (216 bp):
GCTTATCTCACAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGGAA
TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGATTCGATT
CATCAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCACATT
TACTGAATTTCGAATACAACT
Found at i:41714928 original size:26 final size:26
Alignment explanation
Indices: 41714899--41714948 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
41714889 TTATACATAT
41714899 AGCCACCAAAATCATACACACATTAC
1 AGCCACCAAAATCATACACACATTAC
41714925 AGCCACCAAAATCATACACACATT
1 AGCCACCAAAATCATACACACATT
41714949 CTTATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (26 bp):
AGCCACCAAAATCATACACACATTAC
Found at i:41718046 original size:13 final size:13
Alignment explanation
Indices: 41718028--41718052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41718018 GATATAAATT
41718028 CACAAAAAATAAA
1 CACAAAAAATAAA
41718041 CACAAAAAATAA
1 CACAAAAAATAA
41718053 TTTTTAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:41721344 original size:50 final size:51
Alignment explanation
Indices: 41721220--41721408 Score: 186
Period size: 50 Copynumber: 3.7 Consensus size: 51
41721210 ATTGTAAGAA
* * *
41721220 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT--TTAAAATGGCTTTCGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACTT--GATGGC-TTCGGT
* * * *
41721272 CACGTGTGTAGTACTAAATGTAGGCTACTACGTGTACTTGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACTTGATGGCTTCGGT
** ** *
41721322 CACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATGGCTTCGAT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACTTGATGGCTTCGGT
* * * *
41721373 CACATGTGTGGTACTAAGTGCATGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTA
41721409 AAAGATAGCT
Statistics
Matches: 112, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 42 0.38
51 34 0.30
52 34 0.30
54 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACTTGATGGCTTCGGT
Found at i:41724890 original size:46 final size:45
Alignment explanation
Indices: 41724840--41725015 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
41724830 TGGTTGAGCA
41724840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
41724886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
41724933 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
41724979 CCCGAGCTCGCTGATTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41725016 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:41724998 original size:93 final size:93
Alignment explanation
Indices: 41724837--41725007 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
41724827 GGATGGTTGA
* * * *
41724837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGCTGAGT
41724902 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
41724930 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGCTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGCTGAGT
41724995 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41725008 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGCTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:41727955 original size:15 final size:15
Alignment explanation
Indices: 41727935--41727998 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
41727925 GTATCTTGGG
41727935 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
41727950 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
41727965 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
41727980 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
41727993 TTTCTT
1 TTTCTT
41727999 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:41730417 original size:46 final size:45
Alignment explanation
Indices: 41730367--41730542 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
41730357 TGGTTGAGCA
41730367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
41730413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
41730460 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
41730506 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41730543 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:41730523 original size:93 final size:93
Alignment explanation
Indices: 41730364--41730534 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41730354 GGATGGTTGA
* *
41730364 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41730429 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
41730457 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41730522 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41730535 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:41732947 original size:28 final size:29
Alignment explanation
Indices: 41732882--41732980 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
41732872 CATGAGATTG
* *
41732882 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
41732911 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
41732939 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
41732967 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41732981 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:41740953 original size:26 final size:27
Alignment explanation
Indices: 41740892--41740989 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
41740882 CATGAGATTG
* *
41740892 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGC-GGTTC-GATTATATA
41740921 GCACTAAGTGTGCGGTT-GATTATATA
1 GCACTAAGTGTGCGGTTCGATTATATA
*
41740947 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCG-GTTCGATTATAT-A
41740975 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
41740990 GCTTATTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 21 0.33
27 5 0.08
28 24 0.38
29 13 0.21
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGGTTCGATTATATA
Found at i:41745058 original size:18 final size:19
Alignment explanation
Indices: 41745035--41745072 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
41745025 ATTGTTGTTT
41745035 TTTTTTCTCATTT-ATTTA
1 TTTTTTCTCATTTAATTTA
* *
41745053 TTTTTTGTTATTTAATTTA
1 TTTTTTCTCATTTAATTTA
41745072 T
1 T
41745073 CTCTTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTTCTCATTTAATTTA
Found at i:41748763 original size:177 final size:177
Alignment explanation
Indices: 41748515--41748864 Score: 673
Period size: 177 Copynumber: 2.0 Consensus size: 177
41748505 AAAATATGAA
* *
41748515 ATTAAAGCTTATTGAGTCTAGTTTTTCGCAGAAGAAACGATGTAAGCAATGGATATGTAAATTAT
1 ATTAAAGCTTATTGAGTCTAGGTTTTCACAGAAGAAACGATGTAAGCAATGGATATGTAAATTAT
41748580 GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
66 GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
41748645 AAATCACCAAAAATTGGAGAAAATTAATTAGAGTCTCAAATTTTTTT
131 AAATCACCAAAAATTGGAGAAAATTAATTAGAGTCTCAAATTTTTTT
*
41748692 ATTAAAGCTTATTGAGTCTAGGTTTTCACAGAAGAAACGATGTAAGCAATGGATTTGTAAATTAT
1 ATTAAAGCTTATTGAGTCTAGGTTTTCACAGAAGAAACGATGTAAGCAATGGATATGTAAATTAT
41748757 GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
66 GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
41748822 AAATCACCAAAAATTGGAGAAAATTAATTAGAGTCTCAAATTT
131 AAATCACCAAAAATTGGAGAAAATTAATTAGAGTCTCAAATTT
41748865 ATATACTTAG
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 170 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (177 bp):
ATTAAAGCTTATTGAGTCTAGGTTTTCACAGAAGAAACGATGTAAGCAATGGATATGTAAATTAT
GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
AAATCACCAAAAATTGGAGAAAATTAATTAGAGTCTCAAATTTTTTT
Found at i:41763042 original size:37 final size:37
Alignment explanation
Indices: 41762983--41763124 Score: 205
Period size: 37 Copynumber: 3.8 Consensus size: 37
41762973 AGCTCAGATG
* * *
41762983 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41763020 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
41763056 TATATTTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41763094 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
41763125 TGGAATATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
36 1 0.01
37 91 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41763084 original size:74 final size:74
Alignment explanation
Indices: 41763001--41763139 Score: 251
Period size: 74 Copynumber: 1.9 Consensus size: 74
41762991 ACACGAAGTT
*
41763001 ATCGGGTCTTACTCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAATATATTTCCA
1 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAATATATTTCCA
41763066 CATGTAGTC
66 CATGTAGTC
* *
41763075 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCTGGAATATATTTCCA
1 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAATATATTTCCA
41763140 AGTTTCATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (74 bp):
ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAATATATTTCCA
CATGTAGTC
Found at i:41763327 original size:48 final size:48
Alignment explanation
Indices: 41763275--41763856 Score: 948
Period size: 48 Copynumber: 11.9 Consensus size: 48
41763265 ACACATCTCC
* * * *
41763275 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
* *
41763323 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC-C-------CA
* *
41763379 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
*
41763427 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
41763475 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
41763523 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
*
41763571 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
41763619 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
*
41763667 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC-C-CA
* *
41763717 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
41763765 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
*
41763813 TACATATTTCAAATTAGCCATTCGGCTTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
41763857 ATTTATCTTG
Statistics
Matches: 503, Mismatches: 21, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
48 413 0.82
49 1 0.00
50 45 0.09
56 44 0.09
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
Found at i:41773895 original size:94 final size:94
Alignment explanation
Indices: 41773696--41773918 Score: 238
Period size: 94 Copynumber: 2.4 Consensus size: 94
41773686 GGGTTATTGT
* * *
41773696 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAGGACCATG
1 GAGCTACTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATG
* * ** *
41773761 TCTGGGACATGGCATTGGCATAGAGACGA
66 TCTAGGACACGGCATCAGCACAGAGACGA
* * * *
41773790 GTGCTACTGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GATGTGTCAGTGTAAGACCAT
1 GAGCTACTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAT-AGCCAGTGTAAGACCAT
* *
41773852 GTCTAGGACACGGCATCAGCACAGATATGCTA
65 GTCTAGGACACGGCATCAGCACAGAGA--CGA
41773884 GAGCTTA-TGTAAGACCATGTCTGGGACATGTCATC
1 GAGC-TACTGTAAGA-CATGTCTGGGACATG-CATC
41773919 AGCATCTTAC
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 3 0.03
92 38 0.35
93 1 0.01
94 45 0.42
95 17 0.16
96 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GAGCTACTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATG
TCTAGGACACGGCATCAGCACAGAGACGA
Found at i:41775332 original size:46 final size:46
Alignment explanation
Indices: 41775176--41775539 Score: 178
Period size: 48 Copynumber: 7.7 Consensus size: 46
41775166 TTATTTGTGT
* ** **
41775176 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTAAGATGAGA
* * * * * *
41775222 GCAAGTGTAAGACCATGTCTGGGACATGGCATCAAG-ATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATC-GGCCTTAAGATGAGA
*
41775270 GCTAGTGTAAGA-ATGTCTGGGACATGCATCGGCCTTAAGATGTA-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTAAGATG-AGA
* * * *
41775315 GTTAGTGTAAGACATGTCTAGGACATGCATTGG-CTATGAGATG-TA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-TAAGATGAGA
* * * *
41775360 -TTAGTGTAAGACCATGTCTTGGACATGGCATCGGCACATATAGA-G-GT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CTTA-AGATGAGA
* * * *
41775407 G-TCAGTGTAGGACCATATCTAGGACATGGCATCGGCACGGATATG-TGAGA
1 GCT-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-C--TTAAGATGAGA
* * *
41775457 GCTAGTGTAAGACTATGTTTGGGACATGGCATC-GACTT--GATGGATGA
1 GCTAGTGTAAGAC-ATGTCTAGGACAT-GCATCGGCCTTAAGAT-GA-GA
* * *
41775504 GCCAGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
41775540 ATTATACCCT
Statistics
Matches: 253, Mismatches: 39, Indels: 50
0.74 0.11 0.15
Matches are distributed among these distances:
44 13 0.05
45 40 0.16
46 58 0.23
47 46 0.18
48 60 0.24
49 6 0.02
50 29 0.11
51 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTAAGATGAGA
Found at i:41775535 original size:97 final size:98
Alignment explanation
Indices: 41775361--41775540 Score: 231
Period size: 97 Copynumber: 1.8 Consensus size: 98
41775351 TGAGATGTAT
* * * *
41775361 TAGTGTAAGACCATGTCTTGGACATGGCATCGGCACATATAGAGGTGTCAGTGTAGGACCATATC
1 TAGTGTAAGACCATGTCTTGGACATGGCATCGGCACATATAGAGGAGCCAGTGTAAGACCATACC
41775426 TAGGACATGGCATCGGCACGGATATGTGAGAGC
66 TAGGACATGGCATCGGCACGGATATGTGAGAGC
* * * * *
41775459 TAGTGTAAGACTATGT-TTGGGACATGGCATC-G-ACTTGATGGATGAGCCAGTGTAAGACCATG
1 TAGTGTAAGACCATGTCTT-GGACATGGCATCGGCACAT-ATAGAGGAGCCAGTGTAAGACCATA
*
41775521 CCTGGGACATGGCATCGGCA
64 CCTAGGACATGGCATCGGCA
41775541 TTATACCCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
96 3 0.04
97 40 0.57
98 27 0.39
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (98 bp):
TAGTGTAAGACCATGTCTTGGACATGGCATCGGCACATATAGAGGAGCCAGTGTAAGACCATACC
TAGGACATGGCATCGGCACGGATATGTGAGAGC
Found at i:41777244 original size:40 final size:40
Alignment explanation
Indices: 41777158--41777415 Score: 319
Period size: 40 Copynumber: 6.5 Consensus size: 40
41777148 AAGCCAAGTA
* * *
41777158 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
41777196 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41777236 CCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41777276 CCTTCGGGACTTAGCCCGGATATAGTAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
41777316 CCTTCAGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
41777356 CCTTCGAGACTTAGCCC-GAAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
41777397 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41777416 TTATCATCCA
Statistics
Matches: 191, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
38 12 0.06
39 18 0.09
40 135 0.71
41 21 0.11
42 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41785282 original size:40 final size:40
Alignment explanation
Indices: 41785189--41785442 Score: 360
Period size: 39 Copynumber: 6.5 Consensus size: 40
41785179 AAGCCAAGTA
* * *
41785189 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
41785227 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41785267 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41785307 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
41785346 CCTTCGGGACTTAGCCCGG-TGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
41785385 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
41785424 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41785443 TTATCATCCA
Statistics
Matches: 198, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
38 20 0.10
39 97 0.49
40 81 0.41
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41788126 original size:21 final size:20
Alignment explanation
Indices: 41788102--41788141 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
41788092 ATGTTCAAGT
41788102 TCCACACAGGCGTGTTGCCCA
1 TCCACACAGGCGTG-TGCCCA
*
41788123 TCCACACGGGCGTGTGCCC
1 TCCACACAGGCGTGTGCCC
41788142 TATCAAAGGT
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:0.15, C:0.40, G:0.28, T:0.17
Consensus pattern (20 bp):
TCCACACAGGCGTGTGCCCA
Found at i:41789305 original size:16 final size:16
Alignment explanation
Indices: 41789284--41789315 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
41789274 CCGTGTGAGA
41789284 TTACTGAAAGGATAGG
1 TTACTGAAAGGATAGG
41789300 TTACTGAAAGGATAGG
1 TTACTGAAAGGATAGG
41789316 GCCTGTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
TTACTGAAAGGATAGG
Found at i:41802287 original size:29 final size:29
Alignment explanation
Indices: 41802217--41802288 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
41802207 TTGTTCTGGG
*
41802217 AAAAATAATTTTGACAAGATAGGTTATGA
1 AAAAATAATTTTGACAAGATAGATTATGA
* ** *
41802246 AAAAATAAATTTGACGTGATATATTATGA
1 AAAAATAATTTTGACAAGATAGATTATGA
*
41802275 AAAAATTATTTTGA
1 AAAAATAATTTTGA
41802289 TGAGATGGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (29 bp):
AAAAATAATTTTGACAAGATAGATTATGA
Found at i:41802518 original size:59 final size:58
Alignment explanation
Indices: 41802336--41802536 Score: 307
Period size: 59 Copynumber: 3.4 Consensus size: 58
41802326 CACAGTCAGT
41802336 AATATATTTGTACAAAAATATTCAAAAGAGCTTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGA-CTTCTATTTTATTAAATGAAACAATATAAA
** *
41802396 AATAATTTGTACAAAAATATT-AAAA-AAATCTATTTTATTAAATGAAACAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGACTTCTATTTTATTAAATGAAACAATATAAA
* *
41802452 AATAATTTGTACAAAAATATTGAAAAGTACTTCTTTTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAG-ACTTCTATTTTATTAAATGAAACAATATAAA
*
41802511 AACAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
41802537 ATAAATCAAT
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
56 48 0.37
57 5 0.04
58 4 0.03
59 68 0.53
60 4 0.03
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.35
Consensus pattern (58 bp):
AATAATTTGTACAAAAATATTCAAAAGACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:41806557 original size:18 final size:18
Alignment explanation
Indices: 41806517--41806567 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
41806507 TAAAAAGAAT
* *
41806517 TATTAAAAAATTTAATTA
1 TATTAAAAAATTAAATGA
* *
41806535 AATTATAAAATTAAATGA
1 TATTAAAAAATTAAATGA
*
41806553 TATTAAAAAAATAAA
1 TATTAAAAAATTAAA
41806568 ATTAACCTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TATTAAAAAATTAAATGA
Found at i:41807345 original size:12 final size:12
Alignment explanation
Indices: 41807328--41807361 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
41807318 CGGCCCGCCC
41807328 ATATTAATTTTT
1 ATATTAATTTTT
*
41807340 ATATTATTTTTT
1 ATATTAATTTTT
41807352 ATA-TAATTTT
1 ATATTAATTTT
41807362 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:41807528 original size:30 final size:31
Alignment explanation
Indices: 41807485--41807547 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
41807475 CTTAATAAGA
*
41807485 AAATGGTTCTAAAATAATAACAAAA-TTAAC
1 AAATGGTTCTAAAATAATAAAAAAATTTAAC
41807515 AAATGTGTT-TAAAATAATAAAAAAATTTAAC
1 AAATG-GTTCTAAAATAATAAAAAAATTTAAC
41807546 AA
1 AA
41807548 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (31 bp):
AAATGGTTCTAAAATAATAAAAAAATTTAAC
Found at i:41808820 original size:23 final size:23
Alignment explanation
Indices: 41808794--41808837 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
41808784 TTCAACATTT
*
41808794 TTATATTATTTATTT-TAAAATAA
1 TTAT-TTATTAATTTGTAAAATAA
*
41808817 TTATTTCTTAATTTGTAAAAT
1 TTATTTATTAATTTGTAAAAT
41808838 TATGATAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATTTATTAATTTGTAAAATAA
Found at i:41809985 original size:16 final size:16
Alignment explanation
Indices: 41809961--41810001 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
41809951 TCAAACAAAA
*
41809961 AAAGAAACAACTTGGG
1 AAAGCAACAACTTGGG
**
41809977 AAAGCAACAGTTTGGG
1 AAAGCAACAACTTGGG
41809993 AAAGCAACA
1 AAAGCAACA
41810002 TCCAAGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.24, T:0.12
Consensus pattern (16 bp):
AAAGCAACAACTTGGG
Found at i:41812863 original size:158 final size:158
Alignment explanation
Indices: 41812572--41812890 Score: 620
Period size: 158 Copynumber: 2.0 Consensus size: 158
41812562 CCTGGTGCAT
41812572 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
1 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
*
41812637 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACGT
66 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
41812702 AAAGATTTGAACATGAAGTTTCAAAAGA
131 AAAGATTTGAACATGAAGTTTCAAAAGA
41812730 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
1 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
*
41812795 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTGACAT
66 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
41812860 AAAGATTTGAACATGAAGTTTCAAAAGA
131 AAAGATTTGAACATGAAGTTTCAAAAGA
41812888 AGG
1 AGG
41812891 AATTAACAAA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (158 bp):
AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
AAAGATTTGAACATGAAGTTTCAAAAGA
Found at i:41815308 original size:14 final size:14
Alignment explanation
Indices: 41815284--41815323 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41815274 AACAAAGAAT
* *
41815284 TTTCCCCTTTTTTC
1 TTTCTCCTTTTTTA
*
41815298 TTTCTCTTTTTTTA
1 TTTCTCCTTTTTTA
41815312 TTTCTCCTTTTT
1 TTTCTCCTTTTT
41815324 CACTCAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTCTCCTTTTTTA
Found at i:41820706 original size:47 final size:47
Alignment explanation
Indices: 41820599--41820841 Score: 369
Period size: 47 Copynumber: 5.1 Consensus size: 47
41820589 GAAATGATAG
41820599 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
41820648 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
41820695 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
41820742 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
41820791 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
41820838 TAAG
1 TAAG
41820842 TCCCGAAGGG
Statistics
Matches: 180, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 105 0.58
49 75 0.42
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:41820784 original size:96 final size:94
Alignment explanation
Indices: 41820599--41820841 Score: 369
Period size: 96 Copynumber: 2.5 Consensus size: 94
41820589 GAAATGATAG
41820599 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41820664 ATGTGATGAATGTGAAAGTGTATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
41820695 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
41820760 GTGATGAATGTGGAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
41820791 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41820842 TCCCGAAGGG
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
94 46 0.34
96 90 0.66
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:41821015 original size:37 final size:37
Alignment explanation
Indices: 41820959--41821037 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
41820949 TCGAGCTCTA
* * * *
41820959 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
*
41820996 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
41821033 AAGAC
1 AAGAC
41821038 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:41824142 original size:16 final size:15
Alignment explanation
Indices: 41824104--41824142 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
41824094 TGGATTCTCG
*
41824104 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
41824119 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
41824134 TATTCTTGG
1 TA-TCTTGG
41824143 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:41826421 original size:49 final size:50
Alignment explanation
Indices: 41826348--41826585 Score: 291
Period size: 49 Copynumber: 4.8 Consensus size: 50
41826338 TGAGGTCATG
* * *
41826348 TGTGTAGTACTAAGTGTAGCCTACTATGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * * * * *
41826397 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTCACA
* * ** *
41826448 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * *
41826498 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
*
41826547 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
41826586 GCTTCGGCTA
Statistics
Matches: 161, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 76 0.47
50 48 0.30
51 37 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
Found at i:41826477 original size:28 final size:28
Alignment explanation
Indices: 41826445--41826528 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
41826435 AACTTCGATC
41826445 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
41826473 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
41826495 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
41826523 ACGTGT
1 ACGTGT
41826529 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:41835593 original size:16 final size:16
Alignment explanation
Indices: 41835560--41835595 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41835550 TTTTATATAA
**
41835560 ATATAAATATTTTTTT
1 ATATAAATATTTGCTT
41835576 ATATAAATATTTGCTT
1 ATATAAATATTTGCTT
41835592 ATAT
1 ATAT
41835596 TAATTTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
ATATAAATATTTGCTT
Found at i:41835843 original size:43 final size:43
Alignment explanation
Indices: 41835782--41835869 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
41835772 ATTGTAAACA
*
41835782 AAATCTACACTATAACTTGGCATTGTACGCTTGTGGTTGATAT
1 AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
*
41835825 AAATCTATACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
1 AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
41835868 AA
1 AA
41835870 TTTAAAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (43 bp):
AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
Found at i:41837734 original size:20 final size:20
Alignment explanation
Indices: 41837709--41837748 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
41837699 TGTCAAGGAT
41837709 GAAACCAAAGCATAAATTTA
1 GAAACCAAAGCATAAATTTA
41837729 GAAACCAAAGCATAAATTTA
1 GAAACCAAAGCATAAATTTA
41837749 TACTTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
GAAACCAAAGCATAAATTTA
Found at i:41841814 original size:17 final size:18
Alignment explanation
Indices: 41841793--41841833 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
41841783 ATTTAGATAT
41841793 TATATTAAAATTATTTAA
1 TATATTAAAATTATTTAA
* *
41841811 -ATATAAAAATTTTTTAA
1 TATATTAAAATTATTTAA
41841828 TATATT
1 TATATT
41841834 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTAAAATTATTTAA
Found at i:41841870 original size:9 final size:9
Alignment explanation
Indices: 41841852--41841900 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
41841842 TTGATAAGAA
41841852 AATA-TTTT
1 AATATTTTT
41841860 AATATTTTT
1 AATATTTTT
41841869 AATATTTTT
1 AATATTTTT
* *
41841878 AAT-GTATT
1 AATATTTTT
41841886 AA-ATTTTT
1 AATATTTTT
41841894 AATATTT
1 AATATTT
41841901 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 14 0.41
9 20 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:41841928 original size:17 final size:17
Alignment explanation
Indices: 41841906--41841939 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41841896 TATTTATTTT
41841906 TATATAAAAAATTAATA
1 TATATAAAAAATTAATA
* *
41841923 TATATATATAATTAATA
1 TATATAAAAAATTAATA
41841940 CAAGCAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATAAAAAATTAATA
Found at i:41842790 original size:21 final size:21
Alignment explanation
Indices: 41842764--41842811 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
41842754 AATATTATAT
41842764 AATAATATAAATGTGTGAATC
1 AATAATATAAATGTGTGAATC
41842785 AATAATATAAATGTGTGAATC
1 AATAATATAAATGTGTGAATC
*
41842806 ATTAAT
1 AATAAT
41842812 CATTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (21 bp):
AATAATATAAATGTGTGAATC
Found at i:41844640 original size:29 final size:29
Alignment explanation
Indices: 41844598--41844655 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
41844588 CAATATAATG
41844598 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
1 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
41844627 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
1 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
41844656 TGAGAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (29 bp):
AATTGAGTAGTTTTTTGTAGTTTAAAGGT
Found at i:41850422 original size:27 final size:27
Alignment explanation
Indices: 41850337--41850425 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
41850327 TTTAGTTTAC
* *
41850337 TAAAATTACCGAAATACCCTT--AGTTG
1 TAAAATTACTGAAATA-CCTTCGACTTG
* * * * *
41850363 TAAAAATATTGAAAAACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGACTTG
41850390 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGACTTG
41850417 TAAAATTAC
1 TAAAATTAC
41850426 CAAAGTACCC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 3 0.06
26 12 0.24
27 35 0.70
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGACTTG
Found at i:41850434 original size:27 final size:27
Alignment explanation
Indices: 41850382--41850434 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41850372 TGAAAAACCC
* *
41850382 TCGATTTGTAAAATTACTGAAATACCT
1 TCGACTTGTAAAATTACTCAAATACCT
41850409 TCGACTTGTAAAATTAC-CAAAGTACC
1 TCGACTTGTAAAATTACTCAAA-TACC
41850435 CCAAATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
TCGACTTGTAAAATTACTCAAATACCT
Found at i:41850461 original size:27 final size:27
Alignment explanation
Indices: 41850439--41850643 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
41850429 AGTACCCCAA
* *
41850439 ATTTACAGAATTACTATTTTACCCCCT
1 ATTTACAGAATTACTATTTTACCCTCG
* *
41850466 ATTTACATAATTACCATTTTACCC-CTG
1 ATTTACAGAATTACTATTTTACCCTC-G
* *
41850493 ATTTACATAATTA-TCGTTTTACCCTCG
1 ATTTACAGAATTACT-ATTTTACCCTCG
*
41850520 ACTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
* *
41850547 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACTATTTTACCCTCG
* * *
41850574 ATTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACTATTTTACCCTCG
*
41850601 ACTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
*
41850628 ATTTACAAAATTACTA
1 ATTTACAGAATTACTA
41850644 AAATACCCTT
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 149 0.98
28 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACTATTTTACCCTCG
Found at i:41850650 original size:27 final size:27
Alignment explanation
Indices: 41850512--41850814 Score: 119
Period size: 27 Copynumber: 11.1 Consensus size: 27
41850502 ATTATCGTTT
* * ***
41850512 TACCCTCGACTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
41850539 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ****
41850566 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ***
41850593 TACCCTTGACTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
41850620 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
41850647 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *** **
41850674 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
41850701 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
41850728 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
41850755 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
41850784 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
41850811 TACC
1 TACC
41850815 TTTGGTTTGT
Statistics
Matches: 229, Mismatches: 38, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 201 0.88
28 7 0.03
29 19 0.08
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:41850652 original size:81 final size:82
Alignment explanation
Indices: 41850441--41850641 Score: 300
Period size: 81 Copynumber: 2.5 Consensus size: 82
41850431 TACCCCAAAT
* * * * *
41850441 TTACAGAATTACTATTTTACCCCCTATTTACATAATTACCATTTTACCC-CTGATTTACATAATT
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCTAATTTACAGAATT
41850505 ATCGTTTTACCCTCGAC
66 ATCGTTTTACCCTCGAC
* *
41850522 TTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTC-AATTTATAGAATT
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCTAATTTACAGAATT
*
41850586 A-CTGTTTTACCCTTGAC
66 ATC-GTTTTACCCTCGAC
41850603 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
41850642 TAAAATACCC
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
80 1 0.01
81 108 0.98
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (82 bp):
TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCTAATTTACAGAATT
ATCGTTTTACCCTCGAC
Found at i:41850667 original size:81 final size:82
Alignment explanation
Indices: 41850441--41850668 Score: 289
Period size: 81 Copynumber: 2.8 Consensus size: 82
41850431 TACCCCAAAT
* * * * * *
41850441 TTACAGAATTACTATTTTACCCCCTATTTACATAATTACCATTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAAAATTA
41850506 -TCGTTTTACCCTCGAC
66 CTCGTTTTACCCTCGAC
* ** *
41850522 TTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTA
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAAAATTA
*
41850587 CT-GTTTTACCCTTGAC
66 CTCGTTTTACCCTCGAC
* *** * *
41850603 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTA
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAAAATTA
41850668 C
66 C
41850669 CAAAATACCC
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 126 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (82 bp):
TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTATAAAATTA
CTCGTTTTACCCTCGAC
Found at i:41850678 original size:54 final size:54
Alignment explanation
Indices: 41850620--41850843 Score: 175
Period size: 54 Copynumber: 4.1 Consensus size: 54
41850610 ATTACTATTT
41850620 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *** ** ***
41850674 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
41850728 TACCC-CTGATTTACAAAGTTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTTG-GTTTGT-AAAATTACCA-AAA
* * * * * ** *
41850784 TACCATTGGTTTACAAAATTACTGAAATACCTTTGGTTTGTTGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
41850838 CACCCT
1 TACCCT
41850844 TATAGGATGA
Statistics
Matches: 126, Mismatches: 36, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
54 79 0.63
55 10 0.08
56 37 0.29
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:41850678 original size:81 final size:81
Alignment explanation
Indices: 41850378--41850681 Score: 232
Period size: 81 Copynumber: 3.8 Consensus size: 81
41850368 ATATTGAAAA
** ** * * * *** *
41850378 ACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCAAATT
1 ACCCTCGATTTACAAAATTACCAAAATACCCTT-GATTTATAAAATTACCAAATTACCCTTGACT
41850442 TACAGAATTACTATTTT
65 TACAGAATTACTATTTT
* * * *** * * * * *** *
41850459 ACCCCCTATTTACATAATTACCATTTTACCCCTGATTTACATAATTATCGTTTTACCCTCGACTT
1 ACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAATTACCCTTGACTT
41850524 ACAGAATTACTATTTT
66 ACAGAATTACTATTTT
* *** ** * ****
41850540 ACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACCCTTGACTT
1 ACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAATTACCCTTGACTT
41850605 ACAGAATTACTATTTT
66 ACAGAATTACTATTTT
* * * *
41850621 ACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTG
1 ACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAATTACCCTTG
41850682 GTTTGTGAAA
Statistics
Matches: 172, Mismatches: 50, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
81 169 0.98
82 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (81 bp):
ACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAATTACCCTTGACTT
ACAGAATTACTATTTT
Found at i:41850819 original size:27 final size:27
Alignment explanation
Indices: 41850620--41850822 Score: 138
Period size: 27 Copynumber: 7.4 Consensus size: 27
41850610 ATTACTATTT
* * **
41850620 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
** *
41850647 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
***
41850674 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
*** ** *
41850701 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* * * *
41850728 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* **
41850755 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCGAAA
* *
41850784 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
*
41850811 TACCTTTGGTTT
1 TACCCTTGGTTT
41850823 GTTGATTTAC
Statistics
Matches: 143, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
27 118 0.83
28 6 0.04
29 19 0.13
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCGAAA
Found at i:41850909 original size:27 final size:27
Alignment explanation
Indices: 41850863--41850941 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
41850853 AAATGACTAA
*
41850863 AATACCCCTATTAGGGTAAAGTGACCGT
1 AATACCCCT-GTAGGGTAAAGTGACCGT
41850891 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAGTGACCGT
* *
41850918 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAGTGAC
41850942 GAATATGCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 38 0.83
28 8 0.17
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAGTGACCGT
Found at i:41851835 original size:25 final size:26
Alignment explanation
Indices: 41851744--41851841 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
41851734 GAGGAAGTGC
*
41851744 AAAAGGGCTTATGCCCCAATTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
41851770 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
**
41851796 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACTG
41851822 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
41851842 ATTAAAGAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:41852045 original size:42 final size:42
Alignment explanation
Indices: 41851986--41852073 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
41851976 TAGTCTCCCT
* ** *
41851986 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
41852028 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
41852070 AAAT
1 AAAT
41852074 ATGCCTATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:41852178 original size:31 final size:31
Alignment explanation
Indices: 41852101--41852179 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
41852091 CGTTTACAGT
*
41852101 AAAGGCTTCGGCCCAATGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
41852132 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
41852163 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
41852180 AATCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:41854512 original size:68 final size:66
Alignment explanation
Indices: 41854296--41854517 Score: 186
Period size: 68 Copynumber: 3.4 Consensus size: 66
41854286 CATAATTTTG
* **
41854296 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGC--CATTTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACCTCATATTCTCGT
41854358 A
66 A
** * * * * * * * ** *
41854359 GCTCTCTTGTTTACAAGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATC-TA-TCT
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGTGACCTAGCTACCTCATATTCT
41854422 CGTA
63 CGTA
*
41854426 GCTCTCTTGT-CTATATGGTGTACACATAGTATCACCCATGTGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACCTCAT-AT-TCT
41854490 CGTA
63 CGTA
* *
41854494 GCTCCCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
41854518 TCCCGTATTA
Statistics
Matches: 121, Mismatches: 27, Indels: 17
0.73 0.16 0.10
Matches are distributed among these distances:
63 17 0.14
64 26 0.21
65 1 0.01
66 22 0.18
67 25 0.21
68 29 0.24
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACCTCATATTCTCGT
A
Found at i:41857586 original size:41 final size:40
Alignment explanation
Indices: 41857507--41857689 Score: 145
Period size: 41 Copynumber: 4.7 Consensus size: 40
41857497 GAATTCTTGA
* * * *
41857507 TATCTCGCACACTAAGTGCCAATACATTGCCAAAGCTAT-T
1 TATCTCGCACACTAAGTGCC-TTACATAGTCGAAGCTATCT
*
41857547 ATAATCTCGCACACTAAGTTCCTTACATAGTCGAAG----C-
1 -T-ATCTCGCACACTAAGTGCCTTACATAGTCGAAGCTATCT
* *
41857584 TATCTCG----GT-AGTGCCTTACATAGCCGAAGCTATCT
1 TATCTCGCACACTAAGTGCCTTACATAGTCGAAGCTATCT
* *
41857619 TGGTCTCGCACACTAAGTACCTTACATAGTCGAAGCTATCT
1 T-ATCTCGCACACTAAGTGCCTTACATAGTCGAAGCTATCT
* *
41857660 CTGTCTAGCACACTAAGTGCCTTACATAGT
1 -TATCTCGCACACTAAGTGCCTTACATAGT
41857690 TGAATTGTCG
Statistics
Matches: 114, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
30 18 0.16
31 1 0.01
34 1 0.01
35 7 0.06
36 6 0.05
40 1 0.01
41 61 0.54
42 19 0.17
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (40 bp):
TATCTCGCACACTAAGTGCCTTACATAGTCGAAGCTATCT
Found at i:41863857 original size:12 final size:12
Alignment explanation
Indices: 41863840--41863864 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41863830 CACACGCCTC
41863840 TGTGCTAGGCCG
1 TGTGCTAGGCCG
41863852 TGTGCTAGGCCG
1 TGTGCTAGGCCG
41863864 T
1 T
41863865 ACCAAACCTA
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:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:41866011 original size:40 final size:40
Alignment explanation
Indices: 41865958--41866052 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
41865948 ATCTTAGTAT
*
41865958 TGCACACTTAGTGCC-TCATATAGCTGAAGCTA-TTCCAAC
1 TGCACACTTAGTGCCAT-ATATAGCCGAAGCTATTTCCAAC
* * * *
41865997 TCGCACACTTAGTGCCATTTGTAGCCGAAGTTATTTCGAAC
1 T-GCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAAC
41866038 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
41866053 GAACATAGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
39 1 0.02
40 39 0.81
41 8 0.17
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (40 bp):
TGCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAAC
Found at i:41879954 original size:15 final size:16
Alignment explanation
Indices: 41879923--41879960 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
41879913 TAAATTATGA
41879923 ATATGTGTGTAATGTG
1 ATATGTGTGTAATGTG
*
41879939 ATATGTGT-TTATGTG
1 ATATGTGTGTAATGTG
*
41879954 ACATGTG
1 ATATGTG
41879961 ACCATTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.45
Consensus pattern (16 bp):
ATATGTGTGTAATGTG
Found at i:41883342 original size:20 final size:20
Alignment explanation
Indices: 41883317--41883354 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41883307 ATTGATAATG
*
41883317 AAAAGATATATTAGCTTTCT
1 AAAAGATATATTAACTTTCT
41883337 AAAAGATATATTAACTTT
1 AAAAGATATATTAACTTT
41883355 AGAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAAGATATATTAACTTTCT
Found at i:41884061 original size:74 final size:74
Alignment explanation
Indices: 41883940--41884088 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
41883930 AAAGAGCTTG
*
41883940 TTCTTAAGTGTTTTATGAAGTATTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTT
1 TTCTTAAGTGTTTTATGAAGTATTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTG
41884005 TGTTTCTTT
66 TGTTTCTTT
*
41884014 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTATTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTG
41884079 TGTTTCTTT
66 TGTTTCTTT
41884088 T
1 T
41884089 ACTTTTGATA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (74 bp):
TTCTTAAGTGTTTTATGAAGTATTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTG
TGTTTCTTT
Found at i:41891934 original size:142 final size:142
Alignment explanation
Indices: 41891676--41891945 Score: 382
Period size: 142 Copynumber: 1.9 Consensus size: 142
41891666 AACTATTCGT
* *
41891676 CAAGACCTACCTCACTCGGCTATCCGTAATTGTTGGTGCAAGTCATGTGCCATGGGAACTATTTA
1 CAAGACCTACCTCACTCGGCTATCCGTAATTATTGGTGCAAGTCACGTGCCATGGGAACTATTTA
* * * * *
41891741 GGGGTCTACTTCCATAAGTCCGCAAGTAAGAATCCACAAGGATTACCTCTCAAGGAAGTAATTGC
66 GAGGTCTACCTCCAGAAGTCCGCAAGTAAGAATCCAAAAGGATTACCTCTCAAAGAAGTAATTGC
41891806 GCAGGAGTTCAC
131 GCAGGAGTTCAC
* *
41891818 CAAGACCTACCTCACTTGGCTATCCGT-ATCTATTGGTGCAAGTCACGTGCCATGGGAATTATCT
1 CAAGACCTACCTCACTCGGCTATCCGTAAT-TATTGGTGCAAGTCACGTGCCATGGGAACTAT-T
* * * * *
41891882 TA-AGGTCTTCCTCCAGAAGTTCTCAAGTAAGAATCTAAAAGGATTACGTCTCAAAGAAGTAATT
64 TAGAGGTCTACCTCCAGAAGTCCGCAAGTAAGAATCCAAAAGGATTACCTCTCAAAGAAGTAATT
41891946 ACACAAGAGT
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
141 2 0.02
142 107 0.96
143 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (142 bp):
CAAGACCTACCTCACTCGGCTATCCGTAATTATTGGTGCAAGTCACGTGCCATGGGAACTATTTA
GAGGTCTACCTCCAGAAGTCCGCAAGTAAGAATCCAAAAGGATTACCTCTCAAAGAAGTAATTGC
GCAGGAGTTCAC
Done.