Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 51 of 189
Found at i:14607928 original size:6 final size:6
Alignment explanation
Indices: 14607911--14607946 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
14607901 AAAAAAGTTT
14607911 ATTTGCC ATTTGC ATTTGC ATTTGC ATTTGC ATTTG
1 ATTTG-C ATTTGC ATTTGC ATTTGC ATTTGC ATTTG
14607947 GGGATTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
ATTTGC
Found at i:14608098 original size:16 final size:17
Alignment explanation
Indices: 14608066--14608098 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14608056 TTTCTCTTTC
*
14608066 TTTCTTTGTTTTTTTAT
1 TTTCTTTGTTTTGTTAT
14608083 TTTCTTT-TTTTGTTAT
1 TTTCTTTGTTTTGTTAT
14608099 CATTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTCTTTGTTTTGTTAT
Found at i:14619516 original size:28 final size:28
Alignment explanation
Indices: 14619477--14619540 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
14619467 CTATTCAGTA
**
14619477 ACAGT-ACAGTGTG-GACCTTAGCCTGAT
1 ACAGTAACAGTGTGAG-CCTTAGCCCAAT
*
14619504 ACAGTAACAGTGTGAGTCTTAGCCCAAT
1 ACAGTAACAGTGTGAGCCTTAGCCCAAT
14619532 ACAGTAACA
1 ACAGTAACA
14619541 TTGCAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.16
28 26 0.81
29 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGAGCCTTAGCCCAAT
Found at i:14619671 original size:26 final size:26
Alignment explanation
Indices: 14619641--14619694 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
14619631 ACACACCAAA
14619641 ATCGCAGCAAAGCTGCCAATAATAGT
1 ATCGCAGCAAAGCTGCCAATAATAGT
*
14619667 ATCGCAGCGAAGCTGCCAATAATAGT
1 ATCGCAGCAAAGCTGCCAATAATAGT
14619693 AT
1 AT
14619695 ATATGGCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAATAATAGT
Found at i:14619918 original size:26 final size:27
Alignment explanation
Indices: 14619888--14619999 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
14619878 ATAACAGTCA
14619888 ATTTCGGTCATTTTACCCTATG-GGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
***
14619914 ATTTCGGTCATTTTATATTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
14619941 ATTTCAGTCATTTTACCTTA-CAGGGGT
1 ATTTCGGTCATTTTACCCTATGA-GGGT
* *
14619968 GTTTCGATCATTTTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
14619995 ATTTC
1 ATTTC
14620000 AATCATTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
26 20 0.29
27 49 0.70
28 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATGAGGGT
Found at i:14619980 original size:54 final size:53
Alignment explanation
Indices: 14619888--14620007 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 53
14619878 ATAACAGTCA
* * * * *
14619888 ATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTATATTATGAGGGT
1 ATTTCAGTCATTTTACCCTAAGGGGTATTTCGATCATTTTACACTATGAGGGT
* * *
14619941 ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
1 ATTTCAGTCATTTTACCCTA-AGGGGTATTTCGATCATTTTACACTATGAGGGT
*
14619995 ATTTCAATCATTT
1 ATTTCAGTCATTT
14620008 ATTGACCTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
53 18 0.32
54 39 0.68
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTCAGTCATTTTACCCTAAGGGGTATTTCGATCATTTTACACTATGAGGGT
Found at i:14627067 original size:33 final size:34
Alignment explanation
Indices: 14627011--14627081 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
14627001 ATACAACATG
* *
14627011 CAGTAACAGTCTGAGCCTGAGCCCTATTCAGTAA
1 CAGTAACAGTCTGAGCCTGAGCCCAATACAGTAA
* * *
14627045 CAGT-ACAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTAACAGTCTGAGCCTGAGCCCAATACAGTAA
14627078 CAGT
1 CAGT
14627082 GCAATAATGC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (34 bp):
CAGTAACAGTCTGAGCCTGAGCCCAATACAGTAA
Found at i:14628980 original size:20 final size:21
Alignment explanation
Indices: 14628943--14628982 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14628933 GATTTTATTA
* *
14628943 AAAAAAATTTAATGAATAATT
1 AAAAAAATTAAATAAATAATT
14628964 AAAAAAA-TAAATAAATAAT
1 AAAAAAATTAAATAAATAAT
14628983 GGAGAGAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAAAATTAAATAAATAATT
Found at i:14632570 original size:16 final size:16
Alignment explanation
Indices: 14632549--14632584 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14632539 TAACTCAGGA
14632549 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
14632565 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
14632581 GCTG
1 GCTG
14632585 TGATTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (16 bp):
GCTGCAGGAGTACATG
Found at i:14633428 original size:120 final size:120
Alignment explanation
Indices: 14633301--14633590 Score: 501
Period size: 120 Copynumber: 2.4 Consensus size: 120
14633291 AATTATTTTA
** * * *
14633301 AATTTTATTAAATCGTATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTT-AAATTTATATTT
*
14633365 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
14633421 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTAAATTTATATTTT
14633486 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14633541 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
14633591 GTTTAAATAT
Statistics
Matches: 162, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 5 0.03
120 157 0.97
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14633461 original size:15 final size:15
Alignment explanation
Indices: 14633426--14633477 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14633416 TTAAGAATTT
*
14633426 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14633440 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14633454 TATTTAATAATAAT-
1 TATTTAATTATAATA
14633468 TATTTTAATT
1 TA-TTTAATT
14633478 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 7 0.22
15 17 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14633576 original size:16 final size:16
Alignment explanation
Indices: 14633555--14633596 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14633545 TTATTAAATT
*
14633555 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14633571 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14633586 AT-TATGTTTAA
1 ATATAT-TTTAA
14633597 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14633581 original size:15 final size:15
Alignment explanation
Indices: 14633546--14633587 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14633536 TTAAGAATTT
*
14633546 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14633560 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14633574 TATTTAATAATAAT
1 TATTTAATTATAAT
14633588 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14633708 original size:157 final size:157
Alignment explanation
Indices: 14633530--14633839 Score: 577
Period size: 157 Copynumber: 2.0 Consensus size: 157
14633520 ATAAGAATAT
*
14633530 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
14633595 AAATATGATTAAATTATTTATTATTGA-TATTAATAATCTTATTAAAATTTAAATAACAATAACA
66 AAATATGATTAAATTATTTATTATT-ATTAATAATAATCTTATTAAAATTTAAATAACAATAACA
14633659 ATAATAATTTACCAAAACAAATTTCTAC
130 ATAATAATTTACCAAAACAAATTTCTAC
14633687 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
14633752 AAATATGATTAAATTATTTATTATTATTAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTATTAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
14633817 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
14633840 ATGCTAAGGG
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
156 1 0.01
157 148 0.99
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTATTAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTAC
Found at i:14633727 original size:18 final size:17
Alignment explanation
Indices: 14633699--14633733 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14633689 ATTATTAAGA
*
14633699 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14633716 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14633734 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14633767 original size:75 final size:75
Alignment explanation
Indices: 14633531--14633769 Score: 200
Period size: 75 Copynumber: 3.1 Consensus size: 75
14633521 TAAGAATATT
*
14633531 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
14633596 AATATGATTA
66 AATATGATTA
* ** * * * * *
14633606 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * *
14633668 -TACCAAAACAAAT-TTCTA
59 AT-GTTTAA-ATATGAT-TA
14633686 CTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 --AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
14633751 TAAATATGATTA
64 TAAATATGATTA
14633763 AATTATT
1 AATTATT
14633770 TATTATTATT
Statistics
Matches: 118, Mismatches: 29, Indels: 34
0.65 0.16 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 9 0.08
78 16 0.14
79 16 0.14
80 9 0.08
81 15 0.13
82 15 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:14633990 original size:16 final size:16
Alignment explanation
Indices: 14633969--14634020 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14633959 GATTTGCTAT
14633969 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14633985 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
14634001 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14634017 TACA
1 TACA
14634021 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14639024 original size:16 final size:15
Alignment explanation
Indices: 14638996--14639050 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
14638986 TCGAGTTTGG
14638996 ATTTTTTCAGATTTAAA
1 ATTTTTTC-GATTT-AA
* *
14639013 ATTTTTTGGATTCAA
1 ATTTTTTCGATTTAA
14639028 ATTTTTTCGAGTTTAA
1 ATTTTTTCGA-TTTAA
14639044 ATTTTTT
1 ATTTTTT
14639051 AGAATTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 11 0.33
16 15 0.45
17 7 0.21
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.58
Consensus pattern (15 bp):
ATTTTTTCGATTTAA
Found at i:14639029 original size:15 final size:16
Alignment explanation
Indices: 14638996--14639050 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
14638986 TCGAGTTTGG
* *
14638996 ATTTTTTCAGATTTAAA
1 ATTTTTTC-GAGTTCAA
*
14639013 ATTTTTTGGA-TTCAA
1 ATTTTTTCGAGTTCAA
*
14639028 ATTTTTTCGAGTTTAA
1 ATTTTTTCGAGTTCAA
14639044 ATTTTTT
1 ATTTTTT
14639051 AGAATTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 13 0.39
16 13 0.39
17 7 0.21
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.58
Consensus pattern (16 bp):
ATTTTTTCGAGTTCAA
Found at i:14639924 original size:15 final size:16
Alignment explanation
Indices: 14639904--14639936 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14639894 AGGAAGTTGT
*
14639904 ATAAAATTTTAA-AAA
1 ATAAAATTATAATAAA
14639919 ATAAAATTATAATAAA
1 ATAAAATTATAATAAA
14639935 AT
1 AT
14639937 CTAATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATTATAATAAA
Found at i:14640589 original size:34 final size:33
Alignment explanation
Indices: 14640551--14640679 Score: 152
Period size: 34 Copynumber: 3.8 Consensus size: 33
14640541 TTTTAAAATA
*
14640551 TAAATCAAGGTTTAGAGTTTTTAAAAAAATTAAT
1 TAAATTAAGGTTTAG-GTTTTTAAAAAAATTAAT
* *
14640585 TAAATT-AGGTTTTAGGGTTTTAAATAAATTAAT
1 TAAATTAAGG-TTTAGGTTTTTAAAAAAATTAAT
* * *
14640618 TAAATTAAGGTTTAAAGTTTTTAAGAACATTAAT
1 TAAATTAAGGTTT-AGGTTTTTAAAAAAATTAAT
* *
14640652 TAAATTAGGGTTTAGTTTTTTAAAAAAA
1 TAAATTAAGGTTTAGGTTTTTAAAAAAA
14640680 AAATAATTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
33 39 0.49
34 40 0.51
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.42
Consensus pattern (33 bp):
TAAATTAAGGTTTAGGTTTTTAAAAAAATTAAT
Found at i:14640606 original size:33 final size:33
Alignment explanation
Indices: 14640561--14640679 Score: 148
Period size: 33 Copynumber: 3.5 Consensus size: 33
14640551 TAAATCAAGG
14640561 TTTAGAGTTTTTAAAAAAATTAATTAAATTAGGT
1 TTTAG-GTTTTTAAAAAAATTAATTAAATTAGGT
* *
14640595 TTTAGGGTTTTAAATAAATTAATTAAATTAAGGT
1 TTTAGGTTTTTAAAAAAATTAATTAAATT-AGGT
* * * * *
14640629 TTAAAGTTTTTAAGAACATTAATTAAATTAGGG
1 TTTAGGTTTTTAAAAAAATTAATTAAATTAGGT
*
14640662 TTTAGTTTTTTAAAAAAA
1 TTTAGGTTTTTAAAAAAA
14640680 AAATAATTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
33 38 0.54
34 32 0.46
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.44
Consensus pattern (33 bp):
TTTAGGTTTTTAAAAAAATTAATTAAATTAGGT
Found at i:14640920 original size:126 final size:126
Alignment explanation
Indices: 14640771--14641167 Score: 566
Period size: 126 Copynumber: 3.2 Consensus size: 126
14640761 GGATTTTGTT
* * * *
14640771 TTTTTCTACAGTAGTT-TTAAAAAAATTAATTTTGAGAAGACGGTTTTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* *
14640835 AACACTTCAAGCAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
65 AACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
14640897 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
** * *
14640962 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGTTT
66 ACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* * *
14641023 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * ** *
14641088 ATGA-TTCAAGCATA-ATGCACTGTCAGCAAAATTGCTAAAAAAAGCTTTCACGTGGACGCTC
66 A-CACTTCAAGCA-AGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
*
14641149 TTTTTCTACAGTACTTCCT
1 TTTTTCTACAGTAGTTCCT
14641168 GCTTGGCCTA
Statistics
Matches: 244, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
126 235 0.96
127 9 0.04
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
Found at i:14643753 original size:12 final size:12
Alignment explanation
Indices: 14643736--14643762 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14643726 CTTGAAATGC
14643736 CTTCTCTTCACT
1 CTTCTCTTCACT
14643748 CTTCTCTTCACT
1 CTTCTCTTCACT
14643760 CTT
1 CTT
14643763 TTCTGCTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTCTCTTCACT
Found at i:14651211 original size:30 final size:30
Alignment explanation
Indices: 14651177--14651234 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14651167 AACAACCTTC
14651177 TTGATAATTCCTCTTTGGATT-GTAACTCTT
1 TTGATAATTCCT-TTTGGATTGGTAACTCTT
* * *
14651207 TTGATGATTTCTTTTGTATTGGTAACTC
1 TTGATAATTCCTTTTGGATTGGTAACTC
14651235 CCCTCATAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.52
Consensus pattern (30 bp):
TTGATAATTCCTTTTGGATTGGTAACTCTT
Found at i:14662738 original size:22 final size:22
Alignment explanation
Indices: 14662706--14662761 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14662696 GAAATTAAAT
14662706 TATAATTTTTACTATTATAAAAA
1 TATAA-TTTTACTATTATAAAAA
* * *
14662729 TATAATTTTATTATTTTAATAA
1 TATAATTTTACTATTATAAAAA
*
14662751 TTTATATTTTA
1 TATA-ATTTTA
14662762 TAATATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TATAATTTTACTATTATAAAAA
Found at i:14662752 original size:17 final size:15
Alignment explanation
Indices: 14662729--14662770 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
14662719 ATTATAAAAA
14662729 TATAATTTTATTATTT
1 TATAATTTTA-TATTT
14662745 TAATAA-TTTATATTT
1 T-ATAATTTTATATTT
14662760 TATAATATTTA
1 TATAAT-TTTA
14662771 AAAGATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.17
15 6 0.26
16 9 0.39
17 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATAATTTTATATTT
Found at i:14663934 original size:16 final size:17
Alignment explanation
Indices: 14663908--14663984 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 17
14663898 TGTATTTATG
14663908 TATATATTTT-ATTTTTT
1 TATA-ATTTTGATTTTTT
14663925 TATAATTTT-ATAATTTTT
1 TATAATTTTGAT--TTTTT
*
14663943 TAAAATTTTGATTTTTT
1 TATAATTTTGATTTTTT
*
14663960 TA-GATTTTGATTTTTGT
1 TATAATTTTGATTTTT-T
14663977 ATATAATT
1 -TATAATT
14663985 AGGGTTAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
16 19 0.37
17 12 0.24
18 15 0.29
19 5 0.10
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TATAATTTTGATTTTTT
Found at i:14665608 original size:23 final size:23
Alignment explanation
Indices: 14665578--14665821 Score: 229
Period size: 23 Copynumber: 10.4 Consensus size: 23
14665568 CAGTTTATAA
* *
14665578 AAGGGGTTCGCATATCGTTCACT
1 AAGGGGTTCGCATAACATTCACT
14665601 AAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * * *
14665624 AAGAGGTTCACACAACATTCATT
1 AAGGGGTTCGCATAACATTCACT
* * * *
14665647 AAGAGGTTCACACAACATTTACT
1 AAGGGGTTCGCATAACATTCACT
* * *
14665670 AAGGGGTTCGCACAAATATTCATT
1 AAGGGGTTCGCA-TAACATTCACT
* * *
14665694 AAGTGGTTCACATGAATATTCACT
1 AAGGGGTTCGCAT-AACATTCACT
*
14665718 GAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * *
14665741 GAGGGGTTCGCATAAATATTCATT
1 AAGGGGTTCGCAT-AACATTCACT
14665765 AAGGGGTT-GCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * *
14665787 AAGGGGGTTTGCAAAAATATTCACT
1 AA-GGGGTTCGC-ATAACATTCACT
14665812 AAGGGGTTCG
1 AAGGGGTTCG
14665822 GTTTATCCGA
Statistics
Matches: 185, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
22 10 0.05
23 103 0.56
24 60 0.32
25 12 0.06
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (23 bp):
AAGGGGTTCGCATAACATTCACT
Found at i:14665735 original size:71 final size:69
Alignment explanation
Indices: 14665578--14665821 Score: 256
Period size: 71 Copynumber: 3.5 Consensus size: 69
14665568 CAGTTTATAA
* * * * * *
14665578 AAGGGGTTCGCATATCGTTCACTAAGGGGTTCGCATAACATTCACTAAGAGGTTCACACAACATT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCAAAATATTCATTAAGAGGTTCACATAACATT
*
14665643 CATT
66 CACT
* * * * * *
14665647 AAGAGGTTCACACAACATTTACTAAGGGGTTCGCACAAATATTCATTAAGTGGTTCACATGAATA
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCA-AAATATTCATTAAGAGGTTCACAT-AACA
14665712 TTCACT
64 TTCACT
* * * *
14665718 GAGGGGTTCGCATAACATTCACTGAGGGGTTCGCATAAATATTCATTAAGGGGTT-GCATAACAT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCA-AAATATTCATTAAGAGGTTCACATAACAT
14665782 TCACT
65 TCACT
* * *
14665787 AAGGGGGTTTGCAAAAATATTCACTAAGGGGTTCG
1 AA-GGGGTTCGC-ATAACATTCACTAAGGGGTTCG
14665822 GTTTATCCGA
Statistics
Matches: 143, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
69 39 0.27
70 30 0.21
71 74 0.52
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (69 bp):
AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCAAAATATTCATTAAGAGGTTCACATAACATT
CACT
Found at i:14665738 original size:47 final size:47
Alignment explanation
Indices: 14665578--14665821 Score: 244
Period size: 47 Copynumber: 5.2 Consensus size: 47
14665568 CAGTTTATAA
* * *
14665578 AAGGGGTTCGCATATCGTTCACTAAGGGGTTCGCAT-AACATTCACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
* * * * * * *
14665624 AAGAGGTTCACACAACATTCATTAAGAGGTTCACACAACAT-TT-ACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAA-ATATTCACT
* * * * * *
14665670 AAGGGGTTCGCACAAATATTCATTAAGTGGTTCACATGAATATTCACT
1 AAGGGGTTCGCA-TAACATTCACTAAGGGGTTCGCATAAATATTCACT
* * *
14665718 GAGGGGTTCGCATAACATTCACTGAGGGGTTCGCATAAATATTCATT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
* *
14665765 AAGGGGTT-GCATAACATTCACTAAGGGGGTTTGCAAAAATATTCACT
1 AAGGGGTTCGCATAACATTCACTAA-GGGGTTCGCATAAATATTCACT
14665812 AAGGGGTTCG
1 AAGGGGTTCG
14665822 GTTTATCCGA
Statistics
Matches: 160, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
46 57 0.36
47 87 0.54
48 16 0.10
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (47 bp):
AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
Found at i:14666010 original size:43 final size:43
Alignment explanation
Indices: 14665823--14666098 Score: 189
Period size: 43 Copynumber: 6.4 Consensus size: 43
14665813 AGGGGTTCGG
* * *
14665823 TTTATCCGATGATACATTGTGTGTATGCCAATATAGTTGCTTTGA
1 TTTATCTGATGATGCACTGTGTG--TGCCAATATAGTTGCTTTGA
* * *
14665868 TTTATTTGATGACGCACTGTGTGTG-CAATATAGTTGCTTTGG
1 TTTATCTGATGATGCACTGTGTGTGCCAATATAGTTGCTTTGA
* * * * *
14665910 TTTATCCGATGATGCATTGTGTATGCCAATATAATTG-TTCCGA
1 TTTATCTGATGATGCACTGTGTGTGCCAATATAGTTGCTT-TGA
* * * **
14665953 TATATCTGGTGATGCACTGTATGTGCCAGCATAGTTGCTTTGA
1 TTTATCTGATGATGCACTGTGTGTGCCAATATAGTTGCTTTGA
* * * * * ** * * *
14665996 TTTATCAGAAGATGCATTTTTTGTGATAGTATAATTGTTTTGA
1 TTTATCTGATGATGCACTGTGTGTGCCAATATAGTTGCTTTGA
* * * * * * *
14666039 TATATCCGATGATGCATTGTGTGTGCTAGTATAATTG-TTTCGGT
1 TTTATCTGATGATGCACTGTGTGTGCCAATATAGTTGCTTT--GA
14666083 TTTATCTGATGATGCA
1 TTTATCTGATGATGCA
14666099 TTATGATGCT
Statistics
Matches: 181, Mismatches: 45, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
42 41 0.23
43 105 0.58
44 17 0.09
45 18 0.10
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.42
Consensus pattern (43 bp):
TTTATCTGATGATGCACTGTGTGTGCCAATATAGTTGCTTTGA
Found at i:14674394 original size:25 final size:25
Alignment explanation
Indices: 14674306--14674395 Score: 60
Period size: 25 Copynumber: 3.6 Consensus size: 25
14674296 TACCCGATAT
* *
14674306 TGGCTCACATGAGCTTCCTA-AACA
1 TGGCTCACATGAGCTTCCCATTACA
** *
14674330 TGGCTTTTC-TGAGCTTCCCATTATA
1 TGGC-TCACATGAGCTTCCCATTACA
** * *
14674355 CAGCCCGA-ATAAGCTTCCCATTACA
1 TGGCTC-ACATGAGCTTCCCATTACA
14674380 TGGCTCACATGAGCTT
1 TGGCTCACATGAGCTT
14674396 TTCGTTATAT
Statistics
Matches: 45, Mismatches: 16, Indels: 9
0.64 0.23 0.13
Matches are distributed among these distances:
24 15 0.33
25 30 0.67
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCATTACA
Found at i:14676801 original size:43 final size:43
Alignment explanation
Indices: 14676734--14676856 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
14676724 TTTTCGAAAA
14676734 GTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGA-CTT
1 GTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATC-T
*
14676777 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATCT
1 GTGTTTTCATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATCT
* * *
14676820 GTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCAT
14676857 TGTACGAGCC
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
42 2 0.03
43 65 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
GTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATCT
Found at i:14687932 original size:24 final size:25
Alignment explanation
Indices: 14687872--14687932 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
14687862 CCCGATATTG
14687872 GCTC-TCATGAGCTTCCCGTTAAATA
1 GCTCTTCA-GAGCTTCCCGTTAAATA
* ** *
14687897 GTTCTTGTGAGCTTCCCGTT-AGTA
1 GCTCTTCAGAGCTTCCCGTTAAATA
14687921 GCTCTTCAGAGC
1 GCTCTTCAGAGC
14687933 ATCTCGATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 12 0.43
25 15 0.54
26 1 0.04
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCTTCAGAGCTTCCCGTTAAATA
Found at i:14688065 original size:25 final size:25
Alignment explanation
Indices: 14688037--14688088 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14688027 CTCGCTTGAA
14688037 CTTCCCAATATATGGCTATTCGAAG
1 CTTCCCAATATATGGCTATTCGAAG
* * * *
14688062 CTTCCCGATTTATGGTTCTTCGAAG
1 CTTCCCAATATATGGCTATTCGAAG
14688087 CT
1 CT
14688089 ACCTGATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (25 bp):
CTTCCCAATATATGGCTATTCGAAG
Found at i:14688183 original size:25 final size:25
Alignment explanation
Indices: 14688155--14688202 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14688145 TACAGCCTGG
14688155 ATAAGCTTCCCGTTACATGGCTCAC
1 ATAAGCTTCCCGTTACATGGCTCAC
* * *
14688180 ATAAGTTTTCCGTTATATGGCTC
1 ATAAGCTTCCCGTTACATGGCTC
14688203 GAAAGAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (25 bp):
ATAAGCTTCCCGTTACATGGCTCAC
Found at i:14688825 original size:30 final size:30
Alignment explanation
Indices: 14688784--14688844 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
14688774 AATGACTTGT
*
14688784 GAAAGATATATTTTGATGTGATTATATATG
1 GAAAGACATATTTTGATGTGATTATATATG
14688814 GAAAGACATATTTTGATGTGATTATATATG
1 GAAAGACATATTTTGATGTGATTATATATG
14688844 G
1 G
14688845 TCTTAATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (30 bp):
GAAAGACATATTTTGATGTGATTATATATG
Found at i:14692732 original size:21 final size:20
Alignment explanation
Indices: 14692708--14692758 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
14692698 ATTCATAACA
*
14692708 TATTCAATTCTCATCACTTGC
1 TATTCAAATCTCAT-ACTTGC
*
14692729 TATTTCAAATCTCATATTTGC
1 TA-TTCAAATCTCATACTTGC
14692750 TATTCAAAT
1 TATTCAAAT
14692759 AGCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:14692999 original size:37 final size:40
Alignment explanation
Indices: 14692949--14693054 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 40
14692939 TTTGAAGAAA
*
14692949 TAAATTGACACCCAGTGTCTCATCG-GCTAAACCG-A-AG
1 TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAGAG
* * * *
14692986 TAAATTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAG
1 TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAG-AG
*
14693027 TAAATTGACACCCAGTGTCTTATC-AACT
1 TAAATTGACACCCAGTGTCTCATCGAACT
14693055 TGAAGTCGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
37 23 0.41
38 6 0.11
39 1 0.02
40 3 0.05
41 23 0.41
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAGAG
Found at i:14693950 original size:17 final size:18
Alignment explanation
Indices: 14693918--14693953 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
14693908 GAAACCCTAA
14693918 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
14693937 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
14693954 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:14693968 original size:21 final size:21
Alignment explanation
Indices: 14693927--14693973 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14693917 ACTTTTTCTC
*
14693927 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
*
14693948 CTTTCTTTC-CTTCTCTGTTTT
1 CTTTCTTTCTCTT-TCTCTTTT
*
14693969 GTTTC
1 CTTTC
14693974 AATTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:14701992 original size:22 final size:20
Alignment explanation
Indices: 14701947--14701984 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14701937 TCAAATTTTG
14701947 TTTTTATTTAATTTATAATTA
1 TTTTTATTT-ATTTATAATTA
14701968 TTTTTATTT-TTTATAAT
1 TTTTTATTTATTTATAAT
14701985 ATAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTTATTTATAATTA
Found at i:14702471 original size:9 final size:10
Alignment explanation
Indices: 14702450--14702475 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14702440 AGTTATTATA
14702450 TTTTAAAATT
1 TTTTAAAATT
14702460 TTTTAAAATT
1 TTTTAAAATT
14702470 TTTTAA
1 TTTTAA
14702476 TTCAATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:14719757 original size:29 final size:30
Alignment explanation
Indices: 14719703--14719759 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14719693 TTATAACTTT
14719703 ATTTTTAAAAATCTTGTTTATAATTTTATG
1 ATTTTTAAAAATCTTGTTTATAATTTTATG
*
14719733 ATTTTTAAATAAT-TTTTTTA-AATTTTA
1 ATTTTTAAA-AATCTTGTTTATAATTTTA
14719760 AAAGGGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 15 0.60
31 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTTTTAAAAATCTTGTTTATAATTTTATG
Found at i:14739605 original size:16 final size:16
Alignment explanation
Indices: 14739572--14739605 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14739562 TGTTGATGTT
* *
14739572 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
14739588 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
14739604 AA
1 AA
14739606 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:14742424 original size:21 final size:21
Alignment explanation
Indices: 14742398--14742438 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14742388 AGACGAGCAA
* *
14742398 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14742419 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14742439 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14748570 original size:20 final size:20
Alignment explanation
Indices: 14748545--14748584 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14748535 AGTTAAACTA
14748545 CTGTTGCTGTCCAAAATTAT
1 CTGTTGCTGTCCAAAATTAT
14748565 CTGTTGCTGTCCAAAATTAT
1 CTGTTGCTGTCCAAAATTAT
14748585 TTTAATGAAT
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:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
CTGTTGCTGTCCAAAATTAT
Found at i:14759082 original size:18 final size:19
Alignment explanation
Indices: 14759061--14759102 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14759051 TCTCAACCAA
14759061 AATTTAAAAAATT-AAAAT
1 AATTTAAAAAATTCAAAAT
**
14759079 AATTTTTAAAATTCAAAAT
1 AATTTAAAAAATTCAAAAT
14759098 -ATTTA
1 AATTTA
14759103 TAAGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAAAATTCAAAAT
Found at i:14764998 original size:20 final size:20
Alignment explanation
Indices: 14764951--14764999 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14764941 GTTGAGAGTA
*
14764951 AGTTTAA-GTAAGATAGAAG
1 AGTTTAAGGAAAGATAGAAG
* * *
14764970 AATTAAAGGAAAGATAGAAT
1 AGTTTAAGGAAAGATAGAAG
14764990 AGTTTAAGGA
1 AGTTTAAGGA
14765000 CGCATTGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (20 bp):
AGTTTAAGGAAAGATAGAAG
Found at i:14773563 original size:45 final size:45
Alignment explanation
Indices: 14773512--14773941 Score: 230
Period size: 45 Copynumber: 9.6 Consensus size: 45
14773502 TCATGTCAAG
* * * *
14773512 TCTTGTCTTCCTATATTGGGAGCGAAATGGATTGAAGATTGCAGA
1 TCTTGTCTTCCTATATTGGCAGCGAAATAGATCGAAGATAGCAGA
* * *
14773557 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGGAGATAGCAGA
1 TCTTGTCTTCCTATATTGGCAGCGAAATAGATCGAAGATAGCAGA
*
14773602 TCTTGTC-TCC----TTGAGCAGCAGTAGAGTAGATCGAAGATAGCA-A
1 TCTTGTCTTCCTATATTG-GCAGC-G-A-AATAGATCGAAGATAGCAGA
* * * * *
14773645 GTCTTGTCTTCCTGTATTAGCAGCGAAGTA-AACTGAATAT-GTCA-A
1 -TCTTGTCTTCCTATATTGGCAGCGAAATAGATC-GAAGATAG-CAGA
* * **
14773690 GTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAGATAATA-A
1 -TCTTGTCTTCCTATATTGGCAGCGAAATAGATC-GAAGATAGCAGA
* * * * * * * *
14773735 GTCTTTTTTTCCTGTATTGGAAGCGAAGTGGA-CTGAATATTGCAGA
1 -TCTTGTCTTCCTATATTGGCAGCGAAATAGATC-GAAGATAGCAGA
* * *
14773781 TCTTGTCTTCCTGTATTGGCAGC-AAAGTAGATCGAAGATACCATA
1 TCTTGTCTTCCTATATTGGCAGCGAAA-TAGATCGAAGATAGCAGA
* * ** * *
14773826 TCTTGTCTCCCT-GATCAGCAG-TAGAGTAGATCGAAGATAGCA-A
1 TCTTGTCTTCCTATATTGGCAGCGA-AATAGATCGAAGATAGCAGA
* *
14773869 GTCTTGTCTTCCTGTATTGGCAGC-AAAGTAGA-CTGAAGATAGTAGA
1 -TCTTGTCTTCCTATATTGGCAGCGAAA-TAGATC-GAAGATAGCAGA
* * * *
14773915 TTTTGTCTTCCTGTACTGGCAGTGAAA
1 TCTTGTCTTCCTATATTGGCAGCGAAA
14773942 CGGATAAAAA
Statistics
Matches: 312, Mismatches: 47, Indels: 51
0.76 0.11 0.12
Matches are distributed among these distances:
40 3 0.01
41 5 0.02
42 1 0.00
43 3 0.01
44 67 0.21
45 217 0.70
46 8 0.03
47 1 0.00
48 5 0.02
49 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (45 bp):
TCTTGTCTTCCTATATTGGCAGCGAAATAGATCGAAGATAGCAGA
Found at i:14773751 original size:90 final size:90
Alignment explanation
Indices: 14773504--14773929 Score: 323
Period size: 89 Copynumber: 4.8 Consensus size: 90
14773494 TGAAGTCATC
* * * * *
14773504 ATGTCAAGTCTTGTCTTCCTATATTGGGAGCGAAA-TGGATTGAAGAT--TGCAGATCTTGTCTT
1 ATGTCAAGTCTTGTCTTCCTGTATTGGCAGC-AAAGTAGATCGAAGATAAT-AAG-TCTTGTCTT
* *
14773566 CCTGTATTGGCAGCGAAGTAGATCGGAGAT
63 CCTGTATTAGCAGCGAAGTAGA-CTGA-AT
*** * * **
14773596 A-G-C-AGATCTTGTC-TCCT-TGAGCAGCAGTAGAGTAGATCGAAGATAGCAAGTCTTGTCTTC
1 ATGTCAAG-TCTTGTCTTCCTGT-ATTGGCAGCAAAGTAGATCGAAGATAATAAGTCTTGTCTTC
*
14773656 CTGTATTAGCAGCGAAGTAAACTGAAT
64 CTGTATTAGCAGCGAAGTAGACTGAAT
* * *
14773683 ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAGATAATAAGTCTTTTTTTCC
1 ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC-GAAGATAATAAGTCTTGTCTTCC
* * *
14773747 TGTATTGGAAGCGAAGTGGACTGAAT
65 TGTATTAGCAGCGAAGTAGACTGAAT
14773773 AT-TGC-AGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATACCAT-A-TCTTGTCT
1 ATGT-CAAG-TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATA--ATAAGTCTTGTCT
* * * *
14773834 CCCTG-ATCAGCAG-TAGAGTAGA-TCGAAG
62 TCCTGTATTAGCAGCGA-AGTAGACT-GAAT
* *
14773862 ATAG-CAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATAGT-AGATTTTGTCTT
1 AT-GTCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC-GAAGATAATAAG-TCTTGTCTT
14773924 CCTGTA
63 CCTGTA
14773930 CTGGCAGTGA
Statistics
Matches: 269, Mismatches: 40, Indels: 52
0.75 0.11 0.14
Matches are distributed among these distances:
87 5 0.02
88 10 0.04
89 126 0.47
90 121 0.45
91 4 0.01
92 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (90 bp):
ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAATAAGTCTTGTCTTCCT
GTATTAGCAGCGAAGTAGACTGAAT
Found at i:14773872 original size:179 final size:180
Alignment explanation
Indices: 14773504--14773929 Score: 462
Period size: 179 Copynumber: 2.4 Consensus size: 180
14773494 TGAAGTCATC
* * * * * *
14773504 ATGTCAAGTCTTGTCTTCCTATATTGGGAGCGAAATGGATTGAAGAT-TGCAGATCTTGTCTTCC
1 ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATATGAAGATCTTGTCTTCC
* * *
14773568 TGTATTGGCAGCGAAGTAGATCGGAGATAGCAGATCTTGTCTCCTTGAGCAGCAGTAGAGTAGAT
66 TGTATTGGAAGCGAAGTAGATCGGAGATAGCAGATCTTGTCTCCTTGAGCAGCAGCAAAGTAGAT
* * * * *
14773633 CGAAGATAGCAAGTCTTGTCTTCCTGTATTAGCAGCGAAGTAAACTGAAT
131 CGAAGATACCAAGTCTTGTCTCCCTGTATCAGCAGAGAAGTAAACTGAAG
* *
14773683 ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAAT-AAG-TCTTTTTTTC
1 ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGAT-ATGAAGATCTTGTCTTC
* * ***
14773746 CTGTATTGGAAGCGAAGTGGA-CTGA-ATATTGCAGATCTTGTCTTCC-TGTATTGGCAGCAAAG
65 CTGTATTGGAAGCGAAGTAGATCGGAGATA--GCAGATCTTGTC-TCCTTG-AGCAGCAGCAAAG
*
14773808 TAGATCGAAGATACCATA-TCTTGTCTCCCTG-ATCAGCAGTAG-AGTAGA-TCGAAG
126 TAGATCGAAGATACCA-AGTCTTGTCTCCCTGTATCAGCAG-AGAAGTAAACT-GAAG
* * *
14773862 ATAG-CAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTGAAGATA-GTAGATTTTGTCTTC
1 AT-GTCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATATGAAGATCTTGTCTTC
14773925 CTGTA
65 CTGTA
14773930 CTGGCAGTGA
Statistics
Matches: 208, Mismatches: 27, Indels: 24
0.80 0.10 0.09
Matches are distributed among these distances:
177 3 0.01
178 7 0.03
179 154 0.74
180 42 0.20
181 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (180 bp):
ATGTCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATATGAAGATCTTGTCTTCC
TGTATTGGAAGCGAAGTAGATCGGAGATAGCAGATCTTGTCTCCTTGAGCAGCAGCAAAGTAGAT
CGAAGATACCAAGTCTTGTCTCCCTGTATCAGCAGAGAAGTAAACTGAAG
Found at i:14773923 original size:224 final size:224
Alignment explanation
Indices: 14773509--14773936 Score: 653
Period size: 224 Copynumber: 1.9 Consensus size: 224
14773499 TCATCATGTC
* *
14773509 AAGTCTTGTCTTCCTATATTGGGAGCGAAATGGATTGAAGATTGCAGATCTTGTCTTCCTGTATT
1 AAGTCTTGTCTTCCTATATTGGAAGCGAAATGGACTGAAGATTGCAGATCTTGTCTTCCTGTATT
* * * *
14773574 GGCAGCGAAGTAGATCGGAGATAGCAGATCTTGTCTCCTTGAGCAGCAGTAGAGTAGATCGAAGA
66 GGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTAGAGTAGATCGAAGA
* *
14773639 TAGCAAGTCTTGTCTTCCTGTATTAGCAGCGAAGTAAACTGAATATGTCAAGTCTTGTCTTCCTG
131 TAGCAAGTCTTGTCTTCCTGTATTAGCAGCAAAGTAAACTGAAGATGTCAAGTCTTGTCTTCCTG
*
14773704 TATTGGCAGCGAAGTAGACTGAAGATAAT
196 TACTGGCAGCGAAGTAGACTGAAGATAAT
* * * * *
14773733 AAGTCTTTTTTTCCTGTATTGGAAGCGAAGTGGACTGAATATTGCAGATCTTGTCTTCCTGTATT
1 AAGTCTTGTCTTCCTATATTGGAAGCGAAATGGACTGAAGATTGCAGATCTTGTCTTCCTGTATT
* *
14773798 GGCAGCAAAGTAGATCGAAGATACCATATCTTGTCTCCCTGATCAGCAGTAGAGTAGATCGAAGA
66 GGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTAGAGTAGATCGAAGA
* * *
14773863 TAGCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTGAAGATAGT--AGATTTTGTCTTCC
131 TAGCAAGTCTTGTCTTCCTGTATTAGCAGCAAAGTAAACTGAAGAT-GTCAAG-TCTTGTCTTCC
14773926 TGTACTGGCAG
194 TGTACTGGCAG
14773937 TGAAACGGAT
Statistics
Matches: 183, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
223 2 0.01
224 179 0.98
225 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (224 bp):
AAGTCTTGTCTTCCTATATTGGAAGCGAAATGGACTGAAGATTGCAGATCTTGTCTTCCTGTATT
GGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTAGAGTAGATCGAAGA
TAGCAAGTCTTGTCTTCCTGTATTAGCAGCAAAGTAAACTGAAGATGTCAAGTCTTGTCTTCCTG
TACTGGCAGCGAAGTAGACTGAAGATAAT
Found at i:14782586 original size:20 final size:20
Alignment explanation
Indices: 14782563--14782604 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14782553 ATAGTTTATA
* * *
14782563 TTTATTTTTTAAGATTTTTG
1 TTTAGTTTTTAAAATTATTG
14782583 TTTAGTTTTTAAAATTATTG
1 TTTAGTTTTTAAAATTATTG
14782603 TT
1 TT
14782605 AAGAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTTAAAATTATTG
Found at i:14803638 original size:26 final size:26
Alignment explanation
Indices: 14803609--14803664 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
14803599 TATTTATTTT
14803609 TTATTAATTAATTTCA-ATATATGTAA
1 TTATT-ATTAATTTCATATATATGTAA
** *
14803635 TTATTATTTGTTTTATATATATGTAA
1 TTATTATTAATTTCATATATATGTAA
14803661 TTAT
1 TTAT
14803665 CTTTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
TTATTATTAATTTCATATATATGTAA
Found at i:14803984 original size:24 final size:24
Alignment explanation
Indices: 14803957--14804004 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14803947 AATTTCAATG
*
14803957 TATATATTTTGTATTTTTTTCCTT
1 TATATATTTTGTATTTATTTCCTT
* * *
14803981 TATATTTTTTTTGTTTATTTCCTT
1 TATATATTTTGTATTTATTTCCTT
14804005 CATTTGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (24 bp):
TATATATTTTGTATTTATTTCCTT
Found at i:14805462 original size:36 final size:36
Alignment explanation
Indices: 14805379--14805450 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
14805369 GTCACCCGAG
14805379 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
1 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
14805415 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
1 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
14805451 CTTGTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.56
Consensus pattern (36 bp):
TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
Found at i:14807932 original size:28 final size:29
Alignment explanation
Indices: 14807881--14807937 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
14807871 TGTAATTATT
14807881 ATTATTTGTTTTATATATATATATATGTA
1 ATTATTTGTTTTATATATATATATATGTA
*
14807910 ATTATCTT-TTTTATA-ATCTATATATGTA
1 ATTAT-TTGTTTTATATATATATATATGTA
14807938 TATAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 12 0.46
30 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (29 bp):
ATTATTTGTTTTATATATATATATATGTA
Found at i:14807940 original size:36 final size:36
Alignment explanation
Indices: 14807892--14807960 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
14807882 TTATTTGTTT
14807892 TATATATATATAT-ATGTAATTA-TCTTTTTTATAATC
1 TATATATATATATAAT-T-ATTATTCTTTTTTATAATC
*
14807928 TATATATGTATATAATTATTATTCTTTTTTATA
1 TATATATATATATAATTATTATTCTTTTTTATA
14807961 TGTACATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 4 0.13
36 24 0.80
37 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (36 bp):
TATATATATATATAATTATTATTCTTTTTTATAATC
Found at i:14808232 original size:24 final size:24
Alignment explanation
Indices: 14808205--14808252 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14808195 AATTTCAATG
*
14808205 TATATATTTTGTATTTTTTTCCTT
1 TATATATTTTGTATTTATTTCCTT
* * *
14808229 TATATTTTTTTTGTTTATTTCCTT
1 TATATATTTTGTATTTATTTCCTT
14808253 CATTTGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (24 bp):
TATATATTTTGTATTTATTTCCTT
Found at i:14821663 original size:3 final size:3
Alignment explanation
Indices: 14821657--14821704 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
14821647 AAAAAAAAAA
* *
14821657 AAG AAG AAG AAG AAG AAAG AAA AAG AAG AAA AAG AAG AAAG AAG AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG
14821704 A
1 A
14821705 GGTCTCACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14821677 original size:16 final size:16
Alignment explanation
Indices: 14821656--14821704 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
14821646 AAAAAAAAAA
14821656 AAAGAAGAAGAAGAAG
1 AAAGAAGAAGAAGAAG
*
14821672 AAAGAAAAAGAAGAA-
1 AAAGAAGAAGAAGAAG
14821687 AAAGAAGAAAGAAGAAG
1 AAAGAAG-AAGAAGAAG
14821704 A
1 A
14821705 GGTCTCACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 6 0.21
16 22 0.76
17 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAGAAG
Found at i:14821679 original size:22 final size:22
Alignment explanation
Indices: 14821654--14821704 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
14821644 AAAAAAAAAA
*
14821654 AAAAAGAAGAAGAAGAAGAAAG
1 AAAAAGAAGAAAAAGAAGAAAG
14821676 AAAAAGAAGAAAAAGAAGAAAG
1 AAAAAGAAGAAAAAGAAGAAAG
*
14821698 AAGAAGA
1 AAAAAGA
14821705 GGTCTCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (22 bp):
AAAAAGAAGAAAAAGAAGAAAG
Found at i:14821704 original size:13 final size:13
Alignment explanation
Indices: 14821660--14821704 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
14821650 AAAAAAAAAG
14821660 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
*
14821673 AAGAAAAAGAAGA
1 AAGAAGAAGAAGA
14821686 AA-AAGAAGAA-A
1 AAGAAGAAGAAGA
14821697 GAAGAAGA
1 -AAGAAGA
14821705 GGTCTCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 9 0.32
13 18 0.64
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:14825173 original size:36 final size:37
Alignment explanation
Indices: 14825119--14825192 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
14825109 ATCCTGCAGA
*
14825119 CTAGATAAAACCACTAAAATGCGAGT-AAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
** *
14825155 CTAGATAAAAGTATTAAAAAGCGAGTAAAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
14825192 C
1 C
14825193 AGAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
Found at i:14830967 original size:31 final size:32
Alignment explanation
Indices: 14830900--14830967 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
14830890 TCAACCTTAT
* * *
14830900 TTATTTTTAGATTTTGGGAACGCAATAGTCAC
1 TTATTTTTAGATATTGGGAACGAAACAGTCAC
14830932 TTATTTTTAGA-ATTGGGAACTGAAACAGTCA-
1 TTATTTTTAGATATTGGGAAC-GAAACAGTCAC
14830963 TTATT
1 TTATT
14830968 GTTGGTTCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (32 bp):
TTATTTTTAGATATTGGGAACGAAACAGTCAC
Found at i:14831185 original size:32 final size:32
Alignment explanation
Indices: 14831119--14831186 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
14831109 CAGAATTAGA
* *
14831119 AACTTATGTTCAGATTTCATATTACATAATAG
1 AACTTATGTTCAGATTTCATAGTACATAAAAG
14831151 AACTTATGTTTCAGATTTCA-AGTAGC-TAAAAG
1 AACTTATG-TTCAGATTTCATAGTA-CATAAAAG
14831183 AACT
1 AACT
14831187 AGGGGTGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (32 bp):
AACTTATGTTCAGATTTCATAGTACATAAAAG
Found at i:14831217 original size:12 final size:12
Alignment explanation
Indices: 14831200--14831224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14831190 GGTGTGCATT
14831200 CGGTTAACCGAC
1 CGGTTAACCGAC
14831212 CGGTTAACCGAC
1 CGGTTAACCGAC
14831224 C
1 C
14831225 CGAATTAGTT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:14831398 original size:9 final size:9
Alignment explanation
Indices: 14831384--14831450 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
14831374 TGGTTAAAAA
14831384 TTAACCGAT
1 TTAACCGAT
*
14831393 TTAACCTAT
1 TTAACCGAT
14831402 TTAACCGAT
1 TTAACCGAT
14831411 TTAACCGAT
1 TTAACCGAT
14831420 TTAACCGAT
1 TTAACCGAT
* *
14831429 TTAACCAAC
1 TTAACCGAT
14831438 TTAACCGAT
1 TTAACCGAT
14831447 TTAA
1 TTAA
14831451 ATCACTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (9 bp):
TTAACCGAT
Found at i:14831573 original size:37 final size:37
Alignment explanation
Indices: 14831450--14831559 Score: 157
Period size: 37 Copynumber: 3.0 Consensus size: 37
14831440 AACCGATTTA
* *
14831450 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
* * * *
14831487 AATCACTACATAACTAAAAACATTACATAAATTTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
*
14831524 AATCACTAAATAATTAAAAACATTATATAAGTCTTT
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
14831560 AACACATAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (37 bp):
AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
Found at i:14831815 original size:7 final size:7
Alignment explanation
Indices: 14831803--14831854 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
14831793 GTACAGAAGA
14831803 AAACATG
1 AAACATG
14831810 AAACATG
1 AAACATG
* **
14831817 CAGTATG
1 AAACATG
14831824 AAACATG
1 AAACATG
*
14831831 AAATCGTG
1 AAA-CATG
14831839 AAACATG
1 AAACATG
14831846 AAACATG
1 AAACATG
14831853 AA
1 AA
14831855 TTGTTCTTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:14831875 original size:13 final size:13
Alignment explanation
Indices: 14831857--14831883 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14831847 AACATGAATT
14831857 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
14831870 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
14831883 G
1 G
14831884 AGCCTGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTCTTGGGCTTA
Found at i:14832107 original size:18 final size:19
Alignment explanation
Indices: 14832072--14832123 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
14832062 AACCGACCGA
**
14832072 TTAACCGAATTCAGTCGG-
1 TTAACCGAATTTTGTCGGT
*
14832090 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTTTGTCGG-T
14832110 TTAACCGAATTTTG
1 TTAACCGAATTTTG
14832124 CACACCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (19 bp):
TTAACCGAATTTTGTCGGT
Found at i:14834644 original size:19 final size:20
Alignment explanation
Indices: 14834620--14834661 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14834610 TCTTCTATCG
*
14834620 TTATTTTAAT-TTTATTTTT
1 TTATTTTAATATTTAGTTTT
*
14834639 TTATTTTATTATTTAGTTTT
1 TTATTTTAATATTTAGTTTT
14834659 TTA
1 TTA
14834662 ATCATTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTATTTTAATATTTAGTTTT
Found at i:14838268 original size:29 final size:30
Alignment explanation
Indices: 14838225--14838281 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
14838215 GGTATGACCC
*
14838225 TATAAGATCTTGTAACATTAGC-AATAATTT
1 TATAACATCTTGTAACATTA-CAAATAATTT
*
14838255 TATAACAT-TTGTAATATTACAAATAAT
1 TATAACATCTTGTAACATTACAAATAAT
14838282 GAGCGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 16 0.67
30 7 0.29
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (30 bp):
TATAACATCTTGTAACATTACAAATAATTT
Found at i:14840938 original size:48 final size:48
Alignment explanation
Indices: 14840867--14840961 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
14840857 TTCTTTGCTT
*
14840867 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAGC
*
14840915 AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGAATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAG
14840962 AATTCCTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAGC
Found at i:14841206 original size:36 final size:36
Alignment explanation
Indices: 14841166--14841236 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
14841156 ATCAAAGGCT
*
14841166 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
14841202 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
14841237 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:14841207 original size:19 final size:19
Alignment explanation
Indices: 14841183--14841236 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
14841173 AAAGTTGTAT
14841183 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
14841202 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
14841219 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
14841237 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:14841224 original size:17 final size:17
Alignment explanation
Indices: 14841165--14841228 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
14841155 CATCAAAGGC
* *
14841165 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
14841182 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
14841201 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
14841218 TACAATTAGAA
1 TACAATTAGAA
14841229 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:14846079 original size:48 final size:48
Alignment explanation
Indices: 14846008--14846099 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
14845998 TTCTTTGCTT
14846008 AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAATAGC
1 AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAATAGC
* * * *
14846056 AAAAACGCCTAAGTCGGCCTAACTTGTAATGATAAAGGATTCAA
1 AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAA
14846100 CAGAATTCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (48 bp):
AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAATAGC
Found at i:14846328 original size:17 final size:17
Alignment explanation
Indices: 14846306--14846369 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
14846296 CATCATAGGC
*
14846306 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
14846323 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
14846342 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
14846359 TACAATTAGAA
1 TACAATTAGAA
14846370 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:14846348 original size:19 final size:19
Alignment explanation
Indices: 14846324--14846377 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
14846314 AAAGCTGTAT
14846324 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
14846343 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
14846360 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
14846378 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:14846355 original size:36 final size:36
Alignment explanation
Indices: 14846307--14846377 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
14846297 ATCATAGGCT
14846307 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
14846343 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
14846378 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:14847150 original size:28 final size:28
Alignment explanation
Indices: 14847118--14847173 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
14847108 TTATAGCAAC
14847118 CCATAC-A-TTTCACAATTTCACACATTTA
1 CCATACAATTTTCAC-ATTTCACA-ATTTA
*
14847146 CCATACAATTTTCACATTTCTCAATTTA
1 CCATACAATTTTCACATTTCACAATTTA
14847174 ATCCCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (28 bp):
CCATACAATTTTCACATTTCACAATTTA
Found at i:14860267 original size:70 final size:70
Alignment explanation
Indices: 14860143--14860332 Score: 213
Period size: 70 Copynumber: 2.7 Consensus size: 70
14860133 ATTATGGGCT
* * * * *
14860143 CACATGCCCGTGTGGGCCCACACGCCTAGA-TTGGCCTTGCCCGTGTGGCCTACACGGCCTGGCC
1 CACACGCCCGTGT-GCCCCACACGCCCA-ACTTGGCCTAGCCCGTGTGGCCTACACCGCCTGGCC
*
14860207 AAAAAGA
64 AAAAACA
* * * *
14860214 CACACGCCCGTGTAG-CCCACATGCCCAACTTGGCCTAACCCGTGTGGCTTACACCGCCTGGCCC
1 CACACGCCCGTGT-GCCCCACACGCCCAACTTGGCCTAGCCCGTGTGGCCTACACCGCCTGGCCA
*
14860278 AAAACC
65 AAAACA
* * *
14860284 CACACGCCCTTGTGCCCCACACGCCCAACTTAGCCTAGCCCATGTGGCC
1 CACACGCCCGTGTGCCCCACACGCCCAACTTGGCCTAGCCCGTGTGGCC
14860333 CATACGGCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
69 2 0.02
70 85 0.85
71 13 0.13
ACGTcount: A:0.20, C:0.41, G:0.23, T:0.16
Consensus pattern (70 bp):
CACACGCCCGTGTGCCCCACACGCCCAACTTGGCCTAGCCCGTGTGGCCTACACCGCCTGGCCAA
AAACA
Found at i:14868936 original size:13 final size:13
Alignment explanation
Indices: 14868918--14868942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14868908 CACCCCAATC
14868918 ACAGATACAGAAT
1 ACAGATACAGAAT
14868931 ACAGATACAGAA
1 ACAGATACAGAA
14868943 AAAACAAATA
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:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (13 bp):
ACAGATACAGAAT
Found at i:14870191 original size:13 final size:13
Alignment explanation
Indices: 14870173--14870216 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
14870163 CAGACAACCG
14870173 TGTCTGATAGTGA
1 TGTCTGATAGTGA
*
14870186 TGTCTGGTAGTGA
1 TGTCTGATAGTGA
*
14870199 TGCATCTGAAAGTGA
1 TG--TCTGATAGTGA
14870214 TGT
1 TGT
14870217 GTCTAATAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 15 0.58
15 11 0.42
ACGTcount: A:0.23, C:0.09, G:0.32, T:0.36
Consensus pattern (13 bp):
TGTCTGATAGTGA
Found at i:14874885 original size:28 final size:28
Alignment explanation
Indices: 14874836--14874889 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
14874826 TGACTATTTT
*
14874836 TAATATGCATGCAATAAGTATTTTTTAA
1 TAATATGCATGCAATAACTATTTTTTAA
* * *
14874864 TAATATGCATGTAGTGACTATTTTTT
1 TAATATGCATGCAATAACTATTTTTT
14874890 TAGGTGTGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (28 bp):
TAATATGCATGCAATAACTATTTTTTAA
Found at i:14875585 original size:21 final size:21
Alignment explanation
Indices: 14875559--14875626 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
14875549 CAAGTGGTTG
14875559 CCCCAACTTAGCAACAGGCTA
1 CCCCAACTTAGCAACAGGCTA
* * *
14875580 CCCCAAATCAGCAAGAGAG-TA
1 CCCCAACTTAGCAACAG-GCTA
*
14875601 CCCCAAC-T--CAACAGGCTG
1 CCCCAACTTAGCAACAGGCTA
14875619 CCCCAACT
1 CCCCAACT
14875627 CAGTTACAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
21 22 0.59
22 1 0.03
ACGTcount: A:0.34, C:0.40, G:0.15, T:0.12
Consensus pattern (21 bp):
CCCCAACTTAGCAACAGGCTA
Found at i:14876714 original size:12 final size:12
Alignment explanation
Indices: 14876698--14876731 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14876688 TCTTCTCCTC
14876698 CTTTTTCTT-TT
1 CTTTTTCTTCTT
14876709 CTTTTTCTTCTT
1 CTTTTTCTTCTT
*
14876721 CTTTTTTTTCT
1 CTTTTTCTTCT
14876732 CTAACCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:14884147 original size:5 final size:5
Alignment explanation
Indices: 14884139--14884164 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14884129 GAATGGAATG
14884139 ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
14884165 AAAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:14891089 original size:32 final size:32
Alignment explanation
Indices: 14891051--14891113 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
14891041 ATTAATCGGT
* *
14891051 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATAAATTTATC
* *
14891083 ATGAGTTATTAAATTCAAGTAATAAATTTAT
1 ATGAGTTATCAAATTAAAGTAATAAATTTAT
14891114 AAGATTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATAAATTTATC
Found at i:14892226 original size:43 final size:43
Alignment explanation
Indices: 14892146--14892228 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
14892136 TTAGCTTTAG
**
14892146 TTTGAATTGTATAAGTTTTTAGTCAATTTGTGTTGTAATAATT
1 TTTGAATTGTATAAGTTTTTAGTCAATTTGTACTGTAATAATT
* **
14892189 TTTGAATTGTATTAGTTTTTAGTTTGA-TTGTACTGTAATA
1 TTTGAATTGTATAAGTTTTTAG-TCAATTTGTACTGTAATA
14892229 GTTTGATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (43 bp):
TTTGAATTGTATAAGTTTTTAGTCAATTTGTACTGTAATAATT
Found at i:14892775 original size:27 final size:25
Alignment explanation
Indices: 14892725--14892776 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
14892715 ATTGCATATT
*
14892725 TAAAAATTAATTAAAATAAAAAATC
1 TAAAAATTAATAAAAATAAAAAATC
*
14892750 TAAATAATTGAATAAAAATAAGAAATC
1 TAAA-AATT-AATAAAAATAAAAAATC
14892777 ACCATTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAATTAATAAAAATAAAAAATC
Found at i:14902234 original size:40 final size:40
Alignment explanation
Indices: 14902180--14902276 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
14902170 CGTTTGGAGC
* * *
14902180 AAAAACGCTGCTAAA-AATCGAGAAATAGCAGCGTTTTAGG
1 AAAAGCGCCGCTAAAGAAT-GAGAAATAGCAGCGTTTAAGG
* * * *
14902220 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAATGAGAAATAGCAGCGTTTAAGG
14902260 AAAAGCGCCGCTAAAGA
1 AAAAGCGCCGCTAAAGA
14902277 GTGTTAGCGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAATGAGAAATAGCAGCGTTTAAGG
Found at i:14902291 original size:36 final size:38
Alignment explanation
Indices: 14902205--14902292 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 38
14902195 AATCGAGAAA
* *
14902205 TAGCAGCGTTTTAGGAAAAGCGCCGCTAAAGAGTGAGCAT
1 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGT-AG-AT
14902245 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGT-G-T
1 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTAGAT
14902281 TAGCGGCGTTTA
1 TAGCGGCGTTTA
14902293 TAAAAAACGC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 13 0.28
38 1 0.02
40 32 0.70
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.22
Consensus pattern (38 bp):
TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTAGAT
Found at i:14902735 original size:7 final size:7
Alignment explanation
Indices: 14902713--14902748 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
14902703 ATAGTTAATA
14902713 TAGGGTTT
1 TAGGG-TT
14902721 TAGGGTT
1 TAGGGTT
*
14902728 TAGAGTT
1 TAGGGTT
14902735 TAGGGTT
1 TAGGGTT
14902742 TAGGGTT
1 TAGGGTT
14902749 AATAATATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (7 bp):
TAGGGTT
Found at i:14903121 original size:22 final size:21
Alignment explanation
Indices: 14903066--14903124 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
14903056 AAGAGTTAGC
14903066 TAGGAGTTTAGGGGTTACAAGT
1 TAGG-GTTTAGGGGTTACAAGT
* *
14903088 TACGATTTAGGGGTTA-AAGATT
1 TAGGGTTTAGGGGTTACAAG--T
14903110 TAGGGTTTAGGGGTT
1 TAGGGTTTAGGGGTT
14903125 TAGGAGTCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.10
21 11 0.35
22 17 0.55
ACGTcount: A:0.25, C:0.03, G:0.36, T:0.36
Consensus pattern (21 bp):
TAGGGTTTAGGGGTTACAAGT
Found at i:14906202 original size:21 final size:21
Alignment explanation
Indices: 14906176--14906246 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
14906166 CTACAACTTA
*
14906176 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
14906197 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
14906218 AAGCGGAAGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
14906239 AAGCAGAG
1 AAGCAGAG
14906247 CAGACCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.46, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:14906604 original size:42 final size:42
Alignment explanation
Indices: 14906558--14906784 Score: 211
Period size: 42 Copynumber: 5.4 Consensus size: 42
14906548 GGAGTTTTTG
* * * * *
14906558 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCTCTAAAGAC
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
*
14906600 CATGTTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* * ** * ** *
14906642 CATGGTCTTTCGTGGCATTTTTACCAAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* * * * *
14906684 CATGGTCTTTAGCGGCGTTTTTATCAAAGCGCCTCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* ** ** *
14906726 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* *
14906768 TATGGTCTTTAACGGCG
1 CATGGTCTTTAGCGGCG
14906785 TTTTTTTTAA
Statistics
Matches: 162, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 162 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (42 bp):
CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
Found at i:14906791 original size:42 final size:42
Alignment explanation
Indices: 14906587--14906789 Score: 262
Period size: 42 Copynumber: 4.8 Consensus size: 42
14906577 TAGAAAAAAA
* * * * * * *
14906587 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTTGATAAAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
* * * *
14906629 CGCCGCTAAAGAACATGGTCTTTCGTGGCATTTTTACCAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
14906671 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
* * *
14906713 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
* *
14906755 CGCCGCTAAAGAATATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
14906790 TTTAAAACGC
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 140 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
Found at i:14915389 original size:3 final size:3
Alignment explanation
Indices: 14915367--14915419 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
14915357 ATATAATGAG
* * * *
14915367 AAT AAC AAT GAT ATAT AAT AAT AAT AAT AAT AAT AAT AGT AAC AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14915413 AA- AAT AA
1 AAT AAT AA
14915420 AATTGCTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:14917063 original size:44 final size:42
Alignment explanation
Indices: 14916917--14917206 Score: 169
Period size: 44 Copynumber: 6.7 Consensus size: 42
14916907 GTGATTTTAG
*
14916917 TCTGCTCCACTGTAACATCAGGGAGATAAGACTTGATGTTTCAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTG--GTTTCAA
* * * * * * * *
14916961 CCTGCTCTACTATGACTTCAGGAAGATAAGAC-TGGATGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGGTTTCAA
* * * *
14917002 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-CT-TGGTTTCAA
* *
14917046 TCTGCTCCACTGTAACTTCAGGGAGATAGGA-TTGGCTACCTTCAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGG-T---TTCAA
* * **
14917091 TCTGTTCCACTGCAACTTCAGGG-GAATAAGACTCATAATTTCAA
1 TCTGCTCCACTGTAACTTCAGGGAG-ATAAGACT--TGGTTTCAA
* * ** * *
14917135 -CATGCCCCACTGCAACTTCAGGGAGATGAAG-CTTAATAT-GA
1 TC-TGCTCCACTGTAACTTCAGGGAGAT-AAGACTTGGTTTCAA
* * *
14917176 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA
14917207 TCTGTAATTT
Statistics
Matches: 192, Mismatches: 38, Indels: 35
0.72 0.14 0.13
Matches are distributed among these distances:
40 3 0.02
41 55 0.29
42 9 0.05
43 3 0.02
44 86 0.45
45 33 0.17
46 1 0.01
47 1 0.01
48 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGGTTTCAA
Found at i:14917073 original size:85 final size:83
Alignment explanation
Indices: 14916917--14917211 Score: 218
Period size: 85 Copynumber: 3.4 Consensus size: 83
14916907 GTGATTTTAG
* * * * * *
14916917 TCTGCTCCACTGTAACATCAGGGAGATAAGACT-TGATGTTTCAACCTGCTCTACTATGACTTCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGTG--GTTTCAA-CTGCTCCACTGTAACTTCA
* *
14916981 GGAAGATAAGACTGGATGCGA
63 GGGAGATAAGACTGGATACGA
* *
14917002 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGTAACTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGTGGTTTCAA-CTGCTCCACTGTAACTTCAG
* * * *
14917067 GGAGATAGGATTGGCTACCTTCA
64 GGAGATAAGACTGGATA-C--GA
* * * ** * *
14917090 GTCTGTTCCACTGCAACTTCAG-GGGAATAAGACTCATAATTTCAACATGCCCCACTGCAACTTC
1 -TCTGCTCCACTGCAACTTCAGAGAG-ATAAGACT-GTGGTTTCAAC-TGCTCCACTGTAACTTC
** *
14917154 AGGGAGATGAAG-CTTAATATGA
62 AGGGAGAT-AAGACTGGATACGA
*
14917176 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGT
14917212 AATTTAACTT
Statistics
Matches: 163, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
85 88 0.54
86 8 0.05
87 2 0.01
88 6 0.04
89 57 0.35
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (83 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGTGGTTTCAACTGCTCCACTGTAACTTCAGGG
AGATAAGACTGGATACGA
Found at i:14918236 original size:50 final size:49
Alignment explanation
Indices: 14917341--14918423 Score: 939
Period size: 50 Copynumber: 21.9 Consensus size: 49
14917331 GCATTGCTTG
* * * * * *
14917341 GGAAAGTAAGATTCGCCGTTGTGGCATCAATCTTTT-AATTGCAATGTCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* ** * * * ** *
14917390 GGGAAGCGAGATTCGCTGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-G-CA
* ** * * * *
14917440 GGGAAGTAAGATTTGCCT-TTGTGGCTTCAATCTTTT-AATTGTAATGTCG
1 GGAAAGTAAGATCCG-CTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* * * * * ** *
14917489 GGGAAGCAAGATTCACCGTTGTAGCTTCAAT-TTGTTCCGCTGC-ATCGCCT
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTCAACTGCAAT-G-CA
* * * * *
14917539 GGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGC----C-
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCA
* * * *
14917583 GGAGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGA-AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGC-A
* * *
14917634 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGC----CG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCA
* * * * *
14917679 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGC-A
* *
14917729 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* * * **
14917779 GGGAAGTAAGATCTGCTGTTGTAGCTTCAATCTATTCCGCTGC-ATCGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GC-A
* *
14917829 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* * * * *
14917879 GGGAAGTAAGATCCGCTATTGTAGCTTTAATCTGTTCCACTGC-ATCGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GC-A
* *
14917929 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* * * *
14917979 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GC-A
* *
14918029 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* * *
14918079 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGC-ATCGTTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-G-CA
* *
14918129 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GC-A
* *
14918179 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATG-CA
* * * * *
14918229 GGGAAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGC-A
* * *
14918279 GGAAAGTAAGATCTGTTGTTGTAGCTTCAATCTTCTT-AATTGCAATGTCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTCAACTGCAATG-CA
* * *
14918329 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGC-A
* * *
14918379 GGAAAGTAAGATCCGCTATTGTAGCTTCAATCTTTTTAATTGCAA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAA
14918424 ACTATGGTTT
Statistics
Matches: 843, Mismatches: 148, Indels: 85
0.78 0.14 0.08
Matches are distributed among these distances:
44 3 0.00
45 70 0.08
46 1 0.00
48 3 0.00
49 79 0.09
50 664 0.79
51 23 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (49 bp):
GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCA
Found at i:14918423 original size:100 final size:101
Alignment explanation
Indices: 14917341--14918411 Score: 1155
Period size: 100 Copynumber: 10.8 Consensus size: 101
14917331 GCATTGCTTG
* * * * * * * ** *
14917341 GGAAAGTAAGATTCGCCGTTGTGGCATCAATC-TTTTAATTGCAATGTCGGGGAAGCGAGATTCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
* *
14917405 CTGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT-
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAATCG-CTA
* ** * * * * * * *
14917440 GGGAAGTAAGATTTGCCT-TTGTGGCTTCAATC-TTTTAATTGTAATGTCGGGGAAGCAAGATTC
1 GGAAAGTAAGATCCG-CTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCC
* * * *
14917503 ACCGTTGTAGCTTCAATTTGTTCCGCTGC-ATCGCCT-
65 GCTGTTGTAGCTTCAATCTGTTCCACTGCAATCG-CTA
* * * * *
14917539 GGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGC-----C-GGAGAAGCAAGATCC
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGA-AAGTAAGATCC
14917598 GCTGTTGTAGCTTCAATCTGTTCCACTGCAA-CGCTA
65 GCTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
* * * *
14917634 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA-T----TGCCGGGGAAGCAAGATCCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
14917694 CTGTTGTAGCTTCAATCTGTTCCACTGCAA-CGCTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
* * *
14917729 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAGATCTG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
* *
14917794 CTGTTGTAGCTTCAATCTATTCCGCTGC-ATCGCTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
* *
14917829 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
* *
14917894 CTATTGTAGCTTTAATCTGTTCCACTGC-ATCGCTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
* * *
14917929 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATTCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
14917994 CTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
*
14918029 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGAAAGTAAGATCCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
* *
14918094 CTGTTGTAGCTTCAATCTATTCCACTGC-ATCGTTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
* **
14918129 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC-ATCG-CTAGGAAAGTAAGATC
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAAT-GTC-AGGAAAGTAAGATC
* ** *
14918192 CGCTGTTGTAGCTTCAATCTTTTTAATTGCAAT-G-TCA
64 CGCTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCT-A
* * * ** * *
14918229 GGGAAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCT
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC-AGGAAAGTAAGATCC
* ** *
14918293 GTTGTTGTAGCTTCAATCT-TCTTAATTGCAAT-G-TCA
65 GCTGTTGTAGCTTCAATCTGT-TCCACTGCAATCGCT-A
* * **
14918329 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCC
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC-AGGAAAGTAAGATCC
*
14918393 GCTATTGTAGCTTCAATCT
65 GCTGTTGTAGCTTCAATCT
14918412 TTTTAATTGC
Statistics
Matches: 886, Mismatches: 64, Indels: 43
0.89 0.06 0.04
Matches are distributed among these distances:
94 5 0.01
95 160 0.18
96 4 0.00
98 1 0.00
99 119 0.13
100 594 0.67
101 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (101 bp):
GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGAAAGTAAGATCCG
CTGTTGTAGCTTCAATCTGTTCCACTGCAATCGCTA
Found at i:14918602 original size:44 final size:43
Alignment explanation
Indices: 14918552--14918689 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 43
14918542 CAGTACAGGA
14918552 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAAACGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC-AACGAGAG
* * * * ** *
14918596 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCGC-TGTCAATGTA-AG
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-CATCACAACG-AGAG
* *
14918639 AAGGCAAGATCTTTTGTCTGCAACCAGCTCCATCACAACTAAGAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAAC-GAGAG
14918684 AGGCAA
1 AGGCAA
14918690 AGTTTGTGTC
Statistics
Matches: 70, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
43 20 0.29
44 34 0.49
45 16 0.23
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (43 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACGAGAG
Found at i:14918835 original size:87 final size:87
Alignment explanation
Indices: 14918547--14918967 Score: 424
Period size: 87 Copynumber: 4.8 Consensus size: 87
14918537 ACTGCCAGTA
** * * *
14918547 CAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAAACGA-GAGAGGCAAGG-TTTGT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACT-ACAACCGATGA-AGGCAAGGCTTTGT
* *
14918609 GTCTTCGACCTGCTTCGCTGTCAATG
64 -T-TTCGATCTGCTTCGCTGTCAACG
* * ** * ** * * *
14918635 TAAGAAGGCAAGATCTTTTGTCTGCAACCAGCTCCA-TCACAA-CTAAGAGAGGCAAAG-TTTGT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACT-ACAACCGATGA-AGGCAAGGCTTTGT
* *
14918697 GTCTTCGACCTGCTTCGCTGTCAATG
64 -T-TTCGATCTGCTTCGCTGTCAACG
* * *
14918723 CAGGAAGGTAAGATTTGCT-TCTTTAACCAGCTCCACTACAACCTATGAAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTT
*
14918787 TCGATCTGCTTCGCTGTTAACG
66 TCGATCTGCTTCGCTGTCAACG
* * * * *
14918809 GAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTT
* *
14918874 TCGATTTGCTTCGCTGTTAACG
66 TCGATCTGCTTCGCTGTCAACG
* * *
14918896 CAAGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTT
14918961 TCGATCT
66 TCGATCT
14918968 TCACTGATCT
Statistics
Matches: 296, Mismatches: 32, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
86 35 0.12
87 157 0.53
88 104 0.35
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTT
TCGATCTGCTTCGCTGTCAACG
Found at i:14920322 original size:50 final size:51
Alignment explanation
Indices: 14920227--14920325 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 51
14920217 TAGATTTCTC
14920227 TTTTTTCATTCTTCTTTCTTTTTCTCATTTTCATTTTGATCTTGATTTTGA
1 TTTTTTCATTCTTCTTTCTTTTTCTCATTTTCATTTTGATCTTGATTTTGA
* * * *
14920278 TTTTTTC-TTCTT-TCTTCTTTTTGT-TTTTTTATTTTGATTTTTGATTTT
1 TTTTTTCATTCTTCT-TTCTTTTTCTCATTTTCATTTTGA-TCTTGATTTT
14920326 TTTTCATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 12 0.29
50 23 0.55
51 7 0.17
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (51 bp):
TTTTTTCATTCTTCTTTCTTTTTCTCATTTTCATTTTGATCTTGATTTTGA
Found at i:14920372 original size:41 final size:38
Alignment explanation
Indices: 14920241--14920376 Score: 136
Period size: 41 Copynumber: 3.5 Consensus size: 38
14920231 TTCATTCTTC
14920241 TTTCTTTTTC-TCATTTTCATTTTGATCTTGATTTTGATTT
1 TTTCTTTTTCTTCATTTTCATTTTG-T-TTGATTTTGA-TT
**
14920281 TTTCTTCTTTCTTC-TTTTTGTTTT-TTT-ATTTTGATT
1 TTTCTT-TTTCTTCATTTTCATTTTGTTTGATTTTGATT
* *
14920317 TTTGATTTTTTTTCATTTTCATTTTGGCTTTGATTTTGATT
1 TTT-CTTTTTCTTCATTTTCATTTT-G-TTTGATTTTGATT
14920358 TTTCTTTTTCTTTCATTTT
1 TTTCTTTTTC-TTCATTTT
14920377 TTGATCTAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
36 11 0.14
37 17 0.22
38 2 0.03
39 1 0.01
40 14 0.18
41 32 0.41
42 2 0.03
ACGTcount: A:0.10, C:0.11, G:0.07, T:0.72
Consensus pattern (38 bp):
TTTCTTTTTCTTCATTTTCATTTTGTTTGATTTTGATT
Found at i:14924988 original size:3 final size:3
Alignment explanation
Indices: 14924980--14925021 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
14924970 TAACAATGAT
* *
14924980 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ACA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14925022 AATTGCTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:14931594 original size:25 final size:25
Alignment explanation
Indices: 14931566--14931619 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
14931556 GGCTTCCCAA
* *
14931566 ATAATACACTACATAGGCTTT-TCAG
1 ATAATACACCACAAAGGCTTTAT-AG
*
14931591 ATAATTCACCACAAAGGCTTTATAG
1 ATAATACACCACAAAGGCTTTATAG
14931616 ATAA
1 ATAA
14931620 CTTGTCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (25 bp):
ATAATACACCACAAAGGCTTTATAG
Found at i:14931628 original size:25 final size:25
Alignment explanation
Indices: 14931599--14931685 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
14931589 AGATAATTCA
* *
14931599 CCACAAAGGCTTTATAGATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
*
14931624 TCACAAAGGCTTTACAAATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
*
14931649 CCACAAAGACTTTACAAATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
14931674 CCACAAAGGCTT
1 CCACAAAGGCTT
14931686 CGGTTTGGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (25 bp):
CCACAAAGGCTTTACAAATAACTTG
Found at i:14931635 original size:50 final size:50
Alignment explanation
Indices: 14931580--14931685 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
14931570 TACACTACAT
* * * * * *
14931580 AGGCTTTTCAGATAA-TTCACCACAAAGGCTTTATAGATAACTTGTCACAA
1 AGGCTTTACAAATAACTT-ACCACAAAGACTTTACAAATAACTTGCCACAA
*
14931630 AGGCTTTACAAATAACTTGCCACAAAGACTTTACAAATAACTTGCCACAA
1 AGGCTTTACAAATAACTTACCACAAAGACTTTACAAATAACTTGCCACAA
14931680 AGGCTT
1 AGGCTT
14931686 CGGTTTGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (50 bp):
AGGCTTTACAAATAACTTACCACAAAGACTTTACAAATAACTTGCCACAA
Found at i:14933989 original size:33 final size:33
Alignment explanation
Indices: 14933947--14934012 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
14933937 AACTACTACA
*
14933947 ATTCAGTCCAAGTAAGTTCGTTCGGATTGTAAT
1 ATTCAGTCCAAGTAAGTTCGTTCAGATTGTAAT
* * *
14933980 ATTCAGTCCAGGTAAGTTTGTTCAGCTTGTAAT
1 ATTCAGTCCAAGTAAGTTCGTTCAGATTGTAAT
14934013 TTAACATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (33 bp):
ATTCAGTCCAAGTAAGTTCGTTCAGATTGTAAT
Found at i:14935375 original size:20 final size:20
Alignment explanation
Indices: 14935338--14935376 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14935328 TCCCCTATTT
*
14935338 TTGAACATTTTCATTTTATC
1 TTGAACATTTTCAATTTATC
14935358 TTGAA-ATTTTCTAATTTAT
1 TTGAACATTTTC-AATTTAT
14935377 TTCAAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.56
Consensus pattern (20 bp):
TTGAACATTTTCAATTTATC
Found at i:14936804 original size:49 final size:49
Alignment explanation
Indices: 14936712--14936807 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
14936702 ATAGAAATCA
* *
14936712 AATAAATTCTATTGAACGGCAGGAATAGAATCATGAAACAGAATTGTGG
1 AATAAATCCTATTGAACGGCAGGAATAAAATCATGAAACAGAATTGTGG
* * *
14936761 AATAAATCCTGTTGAACGGCAGGAATAAAAATCCTG-AATAGAATTGT
1 AATAAATCCTATTGAACGGCAGGAAT-AAAATCATGAAACAGAATTGT
14936808 TAAATTAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 34 0.83
50 7 0.17
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (49 bp):
AATAAATCCTATTGAACGGCAGGAATAAAATCATGAAACAGAATTGTGG
Found at i:14942335 original size:90 final size:88
Alignment explanation
Indices: 14942209--14942431 Score: 252
Period size: 90 Copynumber: 2.5 Consensus size: 88
14942199 TAAAAAGTCT
* ** *
14942209 TCAAACTTTTTAAAACAACACAATTAAGTCATTGCTTTTTTTTTAACTCAATT-GAGTACTTGAA
1 TCAAACTTTTTAAAA-AAAACAATTAAGTCCCTGCTTCTTTTTTAACTCAATTAG-GTACTTGAA
*
14942273 CTTTCAAAATGCATCAAAAAGGCCC
64 CTTTCAAAATGCACCAAAAAGGCCC
* * * **
14942298 TCAAACTTTTTCAAAGAAAAATAATTAAGTCCCTGCTTCCTTTTTCACTCAATTAGGTACTTTTA
1 TCAAACTTTTT-AAA-AAAAACAATTAAGTCCCTGCTTCTTTTTTAACTCAATTAGGTACTTGAA
* *
14942363 CTTTCAAAATGCACCAAAACGGTCC
64 CTTTCAAAATGCACCAAAAAGGCCC
*
14942388 TCAAACTTTTAAAAAAAAAAGCAATTAAG-CCCTTGCTTCTTTTT
1 TCAAACTTTT-TAAAAAAAA-CAATTAAGTCCC-TGCTTCTTTTT
14942432 CTTCTTCTTC
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
89 19 0.17
90 92 0.81
91 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (88 bp):
TCAAACTTTTTAAAAAAAACAATTAAGTCCCTGCTTCTTTTTTAACTCAATTAGGTACTTGAACT
TTCAAAATGCACCAAAAAGGCCC
Found at i:14942638 original size:9 final size:9
Alignment explanation
Indices: 14942618--14942740 Score: 66
Period size: 10 Copynumber: 12.3 Consensus size: 9
14942608 AAAAATCAAA
14942618 ATAAAAAGTT
1 ATAAAAA-TT
14942628 ATAAAAATT
1 ATAAAAATT
*
14942637 ATTAAAAGTT
1 A-TAAAAATT
14942647 ATAAAAATAT
1 ATAAAAAT-T
14942657 ATTAAAAATT
1 A-TAAAAATT
* *
14942667 AGAAAAAAAATG
1 ---ATAAAAATT
14942679 ATAAAAATCGT
1 ATAAAAAT--T
*
14942690 AAAAGAAATT
1 ATAA-AAATT
14942700 ATAAAAAATT
1 AT-AAAAATT
* *
14942710 GTAAAATTTT
1 ATAAAA-ATT
*
14942720 ATAAAAATC
1 ATAAAAATT
*
14942729 ATAAAAAAT
1 ATAAAAATT
14942738 ATA
1 ATA
14942741 TATAAAATGC
Statistics
Matches: 87, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
9 31 0.36
10 33 0.38
11 12 0.14
12 10 0.11
13 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Done.