Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 83 of 199
Found at i:29537944 original size:21 final size:21
Alignment explanation
Indices: 29537903--29537945 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
29537893 AGCCAACAAA
*
29537903 TGGTTTTTGAAAACACAAGTT
1 TGGTTTTTGAAAAAACAAGTT
29537924 TGGTTTTTGATAAAAAC-AGTT
1 TGGTTTTTGA-AAAAACAAGTT
29537945 T
1 T
29537946 TCATACTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (21 bp):
TGGTTTTTGAAAAAACAAGTT
Found at i:29541364 original size:23 final size:23
Alignment explanation
Indices: 29541322--29541365 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
29541312 TAATCCTCAC
*
29541322 ATGGTGTGTAGGGTTGGATGGAG
1 ATGGTGTGTAGGGCTGGATGGAG
29541345 ATGGTGTGTAGAGGCT-GATGG
1 ATGGTGTGTAG-GGCTGGATGG
29541366 GTAGGATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.18, C:0.02, G:0.50, T:0.30
Consensus pattern (23 bp):
ATGGTGTGTAGGGCTGGATGGAG
Found at i:29542789 original size:27 final size:27
Alignment explanation
Indices: 29542555--29542809 Score: 219
Period size: 27 Copynumber: 9.3 Consensus size: 27
29542545 TGCGAATCGT
* * * * *
29542555 GGGTAAAATAACCGAATTACCCCCAAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* * *
29542582 GGGTAAAATGA-CTGAATTACCCACGAA
1 GGGTAAAATTATC-GAAATACCCTCGAA
*
29542609 GGGTAAAATTATCGAAATACCCT-TAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* **
29542635 GGGGTAAAAATTATTGAAATACCCTTAAA
1 -GGGT-AAAATTATCGAAATACCCTCGAA
* **
29542664 AGGTAAAATTA-CTGAAATACCCTTAAA
1 GGGTAAAATTATC-GAAATACCCTCGAA
* *
29542691 GGGTAAAAATTACCGTAATACCCTCGAA
1 GGGT-AAAATTATCGAAATACCCTCGAA
* * *
29542719 AGGTAAAATTATCAAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* *
29542746 GGGTAAAAATTACCAAAATACCCTCGAA
1 GGGT-AAAATTATCGAAATACCCTCGAA
* *
29542774 GGGTAAAATTATCAAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCGAA
29542801 GGGTAAAAT
1 GGGTAAAAT
29542810 AATCTTTATA
Statistics
Matches: 194, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
26 3 0.02
27 120 0.62
28 68 0.35
29 3 0.02
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCGAA
Found at i:29542808 original size:55 final size:55
Alignment explanation
Indices: 29542579--29542796 Score: 269
Period size: 55 Copynumber: 4.0 Consensus size: 55
29542569 AATTACCCCC
* * * * * *
29542579 AAAGGGT-AAAATGACTGAATTACCCACGAAGGGTAAAATTATCGAAATACCCTT
1 AAAGGGTAAAAATTACCGAAATACCCTCGAAAGGTAAAATTATCAAAATACCCTT
* ** ** *
29542633 AAGGGGTAAAAATTATTGAAATACCCTTAAAAGGTAAAATTA-CTGAAATACCCTT
1 AAAGGGTAAAAATTACCGAAATACCCTCGAAAGGTAAAATTATC-AAAATACCCTT
*
29542688 AAAGGGTAAAAATTACCGTAATACCCTCGAAAGGTAAAATTATCAAAATACCCTT
1 AAAGGGTAAAAATTACCGAAATACCCTCGAAAGGTAAAATTATCAAAATACCCTT
* * *
29542743 GAAGGGTAAAAATTACCAAAATACCCTCGAAGGGTAAAATTATCAAAATACCCT
1 AAAGGGTAAAAATTACCGAAATACCCTCGAAAGGTAAAATTATCAAAATACCCT
29542797 CGATGGGTAA
Statistics
Matches: 142, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
54 7 0.05
55 134 0.94
56 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (55 bp):
AAAGGGTAAAAATTACCGAAATACCCTCGAAAGGTAAAATTATCAAAATACCCTT
Found at i:29558838 original size:16 final size:18
Alignment explanation
Indices: 29558810--29558851 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
29558800 GACATTATTT
29558810 ATTAAATTAATTTTCT-A
1 ATTAAATTAATTTTCTCA
29558827 ATTAAA-TAATTTTCTCA
1 ATTAAATTAATTTTCTCA
*
29558844 ATTCAATT
1 ATTAAATT
29558852 TTAATTCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 12 0.55
18 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAAATTAATTTTCTCA
Found at i:29568099 original size:15 final size:17
Alignment explanation
Indices: 29568079--29568113 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
29568069 GGTTGGTATT
29568079 GGTTTTGGGT-G-TTTG
1 GGTTTTGGGTAGATTTG
29568094 GGTTTTGGGTAGATTTG
1 GGTTTTGGGTAGATTTG
29568111 GGT
1 GGT
29568114 AATTTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 1 0.06
17 7 0.39
ACGTcount: A:0.06, C:0.00, G:0.46, T:0.49
Consensus pattern (17 bp):
GGTTTTGGGTAGATTTG
Found at i:29568717 original size:90 final size:91
Alignment explanation
Indices: 29568600--29568771 Score: 211
Period size: 92 Copynumber: 1.9 Consensus size: 91
29568590 TGTGGCTTTA
* * ** * * * *
29568600 ATCTGTTCCACTGTAACTTTAGGGAGATAAGATTTGTAGCCGGT-CTTCAATTTGTTCCACTGCA
1 ATCTGCTCCACTGCAACTTTAAAGAGATAAGATCTGTAACCGATACTTCAATTTGTTCCACCGCA
*
29568664 ACTTCAGGGAGATAAGGTTTGATATG
66 ACTTCAGGGAAATAAGGTTTGATATG
* * **
29568690 ATCTGCTCTACTGCAACTTTAAAGAGATAGGATCTGTAACTTATAGCTTCAATTTGTTCCACCGC
1 ATCTGCTCCACTGCAACTTTAAAGAGATAAGATCTGTAACCGATA-CTTCAATTTGTTCCACCGC
29568755 AACTTCAGGGAAATAAG
65 AACTTCAGGGAAATAAG
29568772 ATTCGCTATC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 33 0.49
92 34 0.51
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (91 bp):
ATCTGCTCCACTGCAACTTTAAAGAGATAAGATCTGTAACCGATACTTCAATTTGTTCCACCGCA
ACTTCAGGGAAATAAGGTTTGATATG
Found at i:29575565 original size:41 final size:41
Alignment explanation
Indices: 29575505--29575594 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
29575495 GGTTGCATGG
*
29575505 GTTTTAGATAAAAAGGGGCTACCACATGTGCATTAAATAGA
1 GTTTTAGATAAAAAAGGGCTACCACATGTGCATTAAATAGA
29575546 GTTTTAGATAAAAAAGGGCTACCACATGTGCATTAAATAGA
1 GTTTTAGATAAAAAAGGGCTACCACATGTGCATTAAATAGA
29575587 -TTTT-GATA
1 GTTTTAGATA
29575595 CAACTCTCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
39 4 0.08
40 4 0.08
41 40 0.83
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (41 bp):
GTTTTAGATAAAAAAGGGCTACCACATGTGCATTAAATAGA
Found at i:29579966 original size:19 final size:19
Alignment explanation
Indices: 29579942--29580005 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
29579932 TAACGCCCAA
29579942 AATTAGTACCTAGTTGATT
1 AATTAGTACCTAGTTGATT
* *** *
29579961 AATTAGTGCCTACGCCCA-A
1 AATTAGTACCTA-GTTGATT
29579980 AATTAGTACCTAGTTGATT
1 AATTAGTACCTAGTTGATT
29579999 AATTAGT
1 AATTAGT
29580006 GCCTTAGTGT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 2 0.06
19 29 0.88
20 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
AATTAGTACCTAGTTGATT
Found at i:29579976 original size:38 final size:38
Alignment explanation
Indices: 29579934--29580009 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
29579924 CACCCTCGTA
29579934 ACGCCCAAAATTAGTACCTAGTTGATTAATTAGTGCCT
1 ACGCCCAAAATTAGTACCTAGTTGATTAATTAGTGCCT
29579972 ACGCCCAAAATTAGTACCTAGTTGATTAATTAGTGCCT
1 ACGCCCAAAATTAGTACCTAGTTGATTAATTAGTGCCT
29580010 TAGTGTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (38 bp):
ACGCCCAAAATTAGTACCTAGTTGATTAATTAGTGCCT
Found at i:29582138 original size:16 final size:17
Alignment explanation
Indices: 29582117--29582148 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29582107 AAATATGCAA
29582117 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
29582133 TCACATAACTTCATAT
1 TCACATAACTTCATAT
29582149 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:29582375 original size:43 final size:43
Alignment explanation
Indices: 29582309--29582465 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
29582299 GACTCGTACA
* *
29582309 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCACATATCG
* *
29582352 ATGCCATTGTCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATATCG
* * *
29582393 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATA-TCG
* **
29582436 ATGCCGACATCCCAGAC-GTGGTCTTACACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG
29582466 ATAACATATA
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 30 0.32
42 13 0.14
43 51 0.54
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATATCG
Found at i:29582450 original size:84 final size:84
Alignment explanation
Indices: 29582309--29582466 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
29582299 GACTCGTACA
* * * * **
29582309 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATATCGATGCCATCATCCCAGAC-GTGG
29582373 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
*
29582393 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACA-AGTCGATGCCGA-CATCCCAGACGTG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATA-TCGATGCC-ATCATCCCAGACGTG
29582456 GTCTTACACGA
64 GTCTTACACGA
29582467 TAACATATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.95
85 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATATCGATGCCATCATCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:29584110 original size:29 final size:27
Alignment explanation
Indices: 29584051--29584108 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
29584041 TATGTGTAAC
*
29584051 AAAATTATATATTTTTTGGTAAATAAA
1 AAAATTATATATATTTTGGTAAATAAA
29584078 AAAATTATATATATTTTGGTAAATAAA
1 AAAATTATATATATTTTGGTAAATAAA
29584105 AAAA
1 AAAA
29584109 AAGTTACAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAATTATATATATTTTGGTAAATAAA
Found at i:29584122 original size:29 final size:27
Alignment explanation
Indices: 29584064--29584127 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
29584054 ATTATATATT
* *
29584064 TTTTGGTAAATAAAAAAATTATATATA
1 TTTTGGTAAATAAAAAAATTACATACA
29584091 TTTTGGTAAATAAAAAAAAAGTTACA-ACA
1 TTTTGGTAAAT--AAAAAAA-TTACATACA
29584120 TTTTGGTA
1 TTTTGGTA
29584128 CTTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.34
29 17 0.53
30 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (27 bp):
TTTTGGTAAATAAAAAAATTACATACA
Found at i:29586095 original size:15 final size:14
Alignment explanation
Indices: 29586075--29586106 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
29586065 GGTTGGTATT
29586075 GGTTTTGGGTGTTTG
1 GGTTTTGGGT-TTTG
29586090 GGTTTTGGGTTTTG
1 GGTTTTGGGTTTTG
29586104 GGT
1 GGT
29586107 AGATTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (14 bp):
GGTTTTGGGTTTTG
Found at i:29586098 original size:7 final size:7
Alignment explanation
Indices: 29586075--29586106 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
29586065 GGTTGGTATT
29586075 GGTTTTG
1 GGTTTTG
29586082 GGTGTTTG
1 GGT-TTTG
29586090 GGTTTTG
1 GGTTTTG
29586097 GGTTTTG
1 GGTTTTG
29586104 GGT
1 GGT
29586107 AGATTTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (7 bp):
GGTTTTG
Found at i:29592644 original size:45 final size:42
Alignment explanation
Indices: 29592570--29592652 Score: 96
Period size: 45 Copynumber: 1.9 Consensus size: 42
29592560 TCTAGTCCAA
*
29592570 TTTAAAGTTTATTTTTAGAAATAT-CTTTTTATATTTTTCAAT
1 TTTAAAGTTTATTTTTAGAAATATATTTTTTA-ATTTTTCAAT
* *
29592612 TTTAAAGATTTTATATTTTATATATATATTTTTTAATTTTT
1 TTTAAAG--TTTAT-TTTTAGAAATATATTTTTTAATTTTT
29592653 TGTATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 7 0.21
44 5 0.15
45 16 0.47
46 6 0.18
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (42 bp):
TTTAAAGTTTATTTTTAGAAATATATTTTTTAATTTTTCAAT
Found at i:29592861 original size:14 final size:15
Alignment explanation
Indices: 29592842--29592872 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
29592832 ATTTTTATAA
29592842 TTTTTAAT-ATTTAT
1 TTTTTAATAATTTAT
29592856 TTTTTAATAATTTAT
1 TTTTTAATAATTTAT
29592871 TT
1 TT
29592873 ACTTTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAATAATTTAT
Found at i:29593109 original size:17 final size:17
Alignment explanation
Indices: 29593087--29593131 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
29593077 GAATTTTTGC
29593087 TTATATTTTAAAATTAG
1 TTATATTTTAAAATTAG
* *
29593104 TTATATTTT-TAATTTG
1 TTATATTTTAAAATTAG
*
29593120 TTTTATTTTAAA
1 TTATATTTTAAA
29593132 GAGTTATTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTATATTTTAAAATTAG
Found at i:29602859 original size:23 final size:22
Alignment explanation
Indices: 29602807--29602859 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
29602797 TCCACGTCTT
*
29602807 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
29602829 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
29602852 TTTCTTTT
1 TTTCTTTT
29602860 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:29611772 original size:22 final size:25
Alignment explanation
Indices: 29611728--29611780 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
29611718 AAATCCTTTA
29611728 ATTTTTAATATAATTTTAGTTAA-T
1 ATTTTTAATATAATTTTAGTTAAGT
29611752 ATTTTTAAT-T-ATTTT-GATTAAGT
1 ATTTTTAATATAATTTTAG-TTAAGT
29611775 -TTTTTA
1 ATTTTTA
29611781 CACGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
22 15 0.56
23 2 0.07
24 9 0.33
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
ATTTTTAATATAATTTTAGTTAAGT
Found at i:29613532 original size:25 final size:23
Alignment explanation
Indices: 29613492--29613537 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
29613482 AAATATTTAA
*
29613492 AAATAAAAGAATAATAAATAAAT
1 AAATAAAAGAAAAATAAATAAAT
29613515 AAATAAAGAGGAAAAATAAATAA
1 AAATAAA-A-GAAAAATAAATAA
29613538 TATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (23 bp):
AAATAAAAGAAAAATAAATAAAT
Found at i:29615118 original size:41 final size:41
Alignment explanation
Indices: 29615073--29615261 Score: 159
Period size: 41 Copynumber: 4.6 Consensus size: 41
29615063 CAGATTCATT
** * *
29615073 GGCACTTCA-CCTGATAGGCTTATAGTTTAATTTAGTTTACC
1 GGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAGTTCACC
* * *
29615114 GGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACC
* * * *
29615155 GGCACTTAGCCTGCTAGACGTATAGTCC-AATTCAATTCACC
1 GGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAGTTCACC
* * * * * *
29615196 GGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACC
1 GGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAGTTCACC
* *
29615237 GGCACTTAGCCTGCTAGACTTATAG
1 GGCACTTAGCCTGATAGGCTTATAG
29615262 TCTGAATAAT
Statistics
Matches: 130, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (41 bp):
GGCACTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACC
Found at i:29615262 original size:41 final size:41
Alignment explanation
Indices: 29615111--29615263 Score: 227
Period size: 41 Copynumber: 3.7 Consensus size: 41
29615101 AATTTAGTTT
* * * *
29615111 ACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTGATTCAGTTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAATTC
*
29615152 ACCGGCACTTAGCCTGCTAGACGTATAGTCCAATTCAATTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAATTC
*
29615193 ACCGGCATTTAGCCTGCTAGACGTATAGTCCGATTCAATTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAATTC
*
29615234 ACCGGCACTTAGCCTGCTAGACTTATAGTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTC
29615264 TGAATAATTT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 100 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
ACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAATTC
Found at i:29615276 original size:41 final size:41
Alignment explanation
Indices: 29615111--29615281 Score: 202
Period size: 41 Copynumber: 4.2 Consensus size: 41
29615101 AATTTAGTTT
* * * * * *
29615111 ACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAATTC
*
29615152 ACCGGCACTTAGCCTGCTAGACGTATAGTC-CAATTCAATTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCTGAA-TCAATTC
* * *
29615193 ACCGGCATTTAGCCTGCTAGACGTATAGTCCGATTCAATTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAATTC
*
29615234 ACCGGCACTTAGCCTGCTAGACTTATAGTCTGAAT-AATTTC
1 ACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAA-TTC
*
29615275 ACTGGCA
1 ACCGGCA
29615282 ATAAATCCGA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.03
41 108 0.96
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
ACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAATTC
Found at i:29617890 original size:5 final size:5
Alignment explanation
Indices: 29617882--29617906 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29617872 TTTATTTTTA
29617882 TTTGG TTTGG TTTGG TTTGG TTTGG
1 TTTGG TTTGG TTTGG TTTGG TTTGG
29617907 GCCCGGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (5 bp):
TTTGG
Found at i:29618274 original size:51 final size:51
Alignment explanation
Indices: 29618133--29618373 Score: 228
Period size: 51 Copynumber: 4.8 Consensus size: 51
29618123 AATAAGATTA
* ** * * *
29618133 GTAGCTTCAATCTGCTCCACTGCAACTTTC-GAGAGATAAAATTTGTAACTA
1 GTAGCTTTAATCTTTTCCACTGCAAC-TTCAGAGAAATAAGATTTGTAACTT
* * * *
29618184 GTAGATTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
1 GTAGCTTTAATCTTTTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTT
* * *
29618235 GTAGCTTTAATTTTTTCCACTGCAACTTTAGAGAAATAAGA--T-TCAC--
1 GTAGCTTTAATCTTTTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTT
* ** * * *
29618281 -TATCTTTAAT-TTGCCCTATTGCAACTTCAGGGGAATAAGATTTGTAACTT
1 GTAGCTTTAATCTTTTCC-ACTGCAACTTCAGAGAAATAAGATTTGTAACTT
*
29618331 GTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATT
1 GTAGCTTTAATCTTTTCCACTGCAACTTCAGAGAAATAAGATT
29618374 CGCTATTTTT
Statistics
Matches: 152, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
44 4 0.03
45 28 0.18
47 1 0.01
48 6 0.04
49 1 0.01
50 3 0.02
51 106 0.70
52 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCTTTAATCTTTTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTT
Found at i:29618359 original size:147 final size:146
Alignment explanation
Indices: 29618104--29618373 Score: 359
Period size: 147 Copynumber: 1.8 Consensus size: 146
29618094 TTTAATCTGC
*
29618104 TCCACTGCAACTTTAGGAAAATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTTCGAGAGA
1 TCCACTGCAACTTTAGGAAAATAAGATTACTAGCTTCAATCTGCTCCACTGCAACTTTCGAGAGA
* *
29618169 TAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTAACT
66 TAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATTTGTAACT
29618234 TGTAGCTTTAATTTTT
131 TGTAGCTTTAATTTTT
* * * *
29618250 TCCACTGCAACTTTA-GAGAAATAAGATTCACTATCTTTAATTTGC-CCTATTGCAAC-TTC-AG
1 TCCACTGCAACTTTAGGA-AAATAAGATT-ACTAGCTTCAATCTGCTCC-ACTGCAACTTTCGA-
* * * * *
29618311 GGGAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATT
62 GAG-ATAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATT
29618374 CGCTATTTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
145 3 0.03
146 32 0.30
147 72 0.67
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (146 bp):
TCCACTGCAACTTTAGGAAAATAAGATTACTAGCTTCAATCTGCTCCACTGCAACTTTCGAGAGA
TAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATTTGTAACT
TGTAGCTTTAATTTTT
Found at i:29618400 original size:45 final size:48
Alignment explanation
Indices: 29618148--29618406 Score: 178
Period size: 51 Copynumber: 5.3 Consensus size: 48
29618138 TTCAATCTGC
* * *
29618148 TCCACTGCAACTTTC-GAGAGATAAAATTTGTAACTAGTAGATTTAATCTAT
1 TCCACTGCAAC-TTCAGAGAAATAAGATTCGTAACT-GT--ATTTAATCTAT
* * * * *
29618199 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTTT
1 TCCACTGCAACTTCAGAGAAATAAGATTCGTAAC-TGTA--TTTAATCTAT
* * *
29618250 TCCACTGCAACTTTAGAGAAATAAGATTC---ACTATCTTTAAT-T-T
1 TCCACTGCAACTTCAGAGAAATAAGATTCGTAACTGTATTTAATCTAT
* * * * * *
29618293 GCCCTATTGCAACTTCAGGGGAATAAGATTTGTAACTTGTAGCTTTAATCTGT
1 -TCC-ACTGCAACTTCAGAGAAATAAGATTCGTAAC-TGTA--TTTAATCTAT
29618346 TCCACTGCAACTTCAGAGAAATAAGATTCGCT-A-T-T-TTTAATCTAT
1 TCCACTGCAACTTCAGAGAAATAAGATTCG-TAACTGTATTTAATCTAT
29618391 TCCACTGCAACTTCAG
1 TCCACTGCAACTTCAG
29618407 GGACCTGTAG
Statistics
Matches: 169, Mismatches: 24, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 52 0.31
47 2 0.01
48 5 0.03
49 4 0.02
50 3 0.02
51 93 0.55
52 5 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (48 bp):
TCCACTGCAACTTCAGAGAAATAAGATTCGTAACTGTATTTAATCTAT
Found at i:29618400 original size:96 final size:97
Alignment explanation
Indices: 29618189--29618408 Score: 331
Period size: 96 Copynumber: 2.3 Consensus size: 97
29618179 AACTAGTAGA
* *
29618189 TTTAATCTATTCCACTGCAACTTCA-GGGAGATAAGATTTGTAACTTGTAGCTTTAATTTTTTCC
1 TTTAATCTATTCCACTGCAACTTCAGGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
*
29618253 ACTGCAACTTTAGAGAAATAAGATTCACTATC
66 ACTGCAACTTCAGAGAAATAAGATTCACTATC
* *
29618285 TTTAAT-T-TGCCCTATTGCAACTTCAGGGGA-ATAAGATTTGTAACTTGTAGCTTTAATCTGTT
1 TTTAATCTAT-TCC-ACTGCAACTTCAGGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTT
* *
29618347 CCACTGCAACTTCAGAGAAATAAGATTCGCTATT
64 CCACTGCAACTTCAGAGAAATAAGATTCACTATC
29618381 TTTAATCTATTCCACTGCAACTTCAGGG
1 TTTAATCTATTCCACTGCAACTTCAGGG
29618409 ACCTGTAGCT
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
94 1 0.01
95 3 0.03
96 98 0.89
97 7 0.06
98 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (97 bp):
TTTAATCTATTCCACTGCAACTTCAGGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
ACTGCAACTTCAGAGAAATAAGATTCACTATC
Found at i:29618484 original size:44 final size:44
Alignment explanation
Indices: 29618412--29618547 Score: 159
Period size: 44 Copynumber: 3.1 Consensus size: 44
29618402 TTCAGGGACC
* *
29618412 TGTAGCTTCAATCTACTCCACTGTAACTTC-AGGAAGATAAGATT
1 TGTAGCTTCAATCTACTCCACCGCAACTTCAAGG-AGATAAGATT
*
29618456 TGTAGCTTCAATCTACTCTACCGCAACTTCAAGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACCGCAACTTCAAGGAGATAAGATT
* * * * * *
29618500 TGTGGCTTTAATCTGCTCCACTGTAACTTCAAGG-GAACAAGATT
1 TGTAGCTTCAATCTACTCCACCGCAACTTCAAGGAG-ATAAGATT
29618544 TGTA
1 TGTA
29618548 ACTTACAACT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.01
44 75 0.95
45 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TGTAGCTTCAATCTACTCCACCGCAACTTCAAGGAGATAAGATT
Found at i:29618630 original size:109 final size:110
Alignment explanation
Indices: 29618492--29618705 Score: 281
Period size: 112 Copynumber: 1.9 Consensus size: 110
29618482 CTTCAAGGAG
* *
29618492 ATAAGATTTGTGGCTTTAATCTGCTCCACTGTAACTTCAAGGG-AACAAGATTTG-TAACTTACA
1 ATAAGATTTGTAGCTTTAATCGGCTCCACTGTAACTTC-AGGGAAACAAGATTTGATAACTTACA
29618555 ACTTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATAAGGGAA
65 ACTTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATAAGGGAA
* * *
29618601 ATAAGATTTGCTATCTTTAATCGGC-CCACTGTAACTTCAGGGAAATAAGATTTGTAATAACTTG
1 ATAAGATTTG-TAGCTTTAATCGGCTCCACTGTAACTTCAGGGAAACAAGATTTG--ATAACTTA
* * * * *
29618665 TAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGAT
63 CAACTTTAATCTATTCCACTGCAACTTCAGAGAAATAAGAT
29618706 TCGCTATCTT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
108 4 0.04
109 33 0.37
110 11 0.12
112 42 0.47
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (110 bp):
ATAAGATTTGTAGCTTTAATCGGCTCCACTGTAACTTCAGGGAAACAAGATTTGATAACTTACAA
CTTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATAAGGGAA
Found at i:29618780 original size:44 final size:44
Alignment explanation
Indices: 29618660--29618837 Score: 214
Period size: 44 Copynumber: 4.0 Consensus size: 44
29618650 ATTTGTAATA
* *
29618660 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAG
1 ACTTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAG
* * * *
29618704 A-TTCGCTATCTTTAATCTGCCCCACTGTAACTTCAGGGAGATAAG
1 ACTT-G-TAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAG
* *
29618749 ACTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAG
1 ACTTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAG
* * * * *
29618793 ATTTGTGGTTTTAATCTGCTCCATTGCAAATTTAGGGAGATAAG
1 ACTTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAG
29618837 A
1 A
29618838 TTTGCCACGA
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.02
44 73 0.65
45 35 0.31
46 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAG
Found at i:29627351 original size:25 final size:24
Alignment explanation
Indices: 29627323--29627437 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 24
29627313 CGGACTCACC
29627323 ACAGCTCGTATGAGCTTATCGATTT
1 ACAGCTCGTATGAGCTTA-CGATTT
** *
29627348 ACAGCTCGTAAAAGCTTACTAATTCT
1 ACAGCTCGTATGAGCTTAC-GATT-T
*
29627374 -CAGCTCTTATGAGCTTACCGTTATTT
1 ACAGCTCGTATGAGCTTA-CG--ATTT
* * * *
29627400 -CAACTCGGATGAGCTTACCATAT
1 ACAGCTCGTATGAGCTTACGATTT
*
29627423 ATAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
29627438 ATACATGTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
23 3 0.04
24 12 0.17
25 34 0.49
26 17 0.25
27 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (24 bp):
ACAGCTCGTATGAGCTTACGATTT
Found at i:29628731 original size:10 final size:10
Alignment explanation
Indices: 29628717--29628756 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
29628707 ACTAGGGACT
**
29628717 TTATGATTAT
1 TTATGATTGG
29628727 TTATGATTGG
1 TTATGATTGG
29628737 TTATGATTGG
1 TTATGATTGG
29628747 TTATGATTGG
1 TTATGATTGG
29628757 AATATGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (10 bp):
TTATGATTGG
Found at i:29629543 original size:19 final size:20
Alignment explanation
Indices: 29629519--29629563 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
29629509 TTATAAAACT
*
29629519 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
29629538 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
29629558 -AATGCA
1 TAATGCA
29629564 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:29632309 original size:22 final size:22
Alignment explanation
Indices: 29632283--29632325 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
29632273 TTTTATGAAG
*
29632283 TTTTTATATTTTTTTAATTTTAA
1 TTTTTA-ATTTTTATAATTTTAA
29632306 TTTTTAATTTTTATAATTTT
1 TTTTTAATTTTTATAATTTT
29632326 TTGAATTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTAATTTTTATAATTTTAA
Found at i:29638841 original size:19 final size:21
Alignment explanation
Indices: 29638806--29638845 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
29638796 GTATTGTTTT
29638806 TTATTTTTAATATTAATATAA
1 TTATTTTTAATATTAATATAA
29638827 TTATTTTT-A-ATTAATATAA
1 TTATTTTTAATATTAATATAA
29638846 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTTTTAATATTAATATAA
Found at i:29648058 original size:19 final size:19
Alignment explanation
Indices: 29648034--29648081 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
29648024 TTATTATTTT
29648034 AAAATTTTATCTACATTAC
1 AAAATTTTATCTACATTAC
29648053 AAAATTTTATCTACATTAC
1 AAAATTTTATCTACATTAC
29648072 AAAATTTTAT
1 AAAATTTTAT
29648082 GCATCAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTTTATCTACATTAC
Found at i:29648152 original size:11 final size:11
Alignment explanation
Indices: 29648138--29648167 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
29648128 TTATCAGAAG
29648138 TTTCAAAAATC
1 TTTCAAAAATC
*
29648149 TTTCAATAATC
1 TTTCAAAAATC
29648160 TTTCAAAA
1 TTTCAAAA
29648168 GTTTTAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTCAAAAATC
Found at i:29652247 original size:14 final size:14
Alignment explanation
Indices: 29652228--29652279 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
29652218 GAACCCTAGG
29652228 TGTGCAAACCTTTA
1 TGTGCAAACCTTTA
*
29652242 TGTGCAAACCTGTA
1 TGTGCAAACCTTTA
* *
29652256 AGTGCGAACAC-TTA
1 TGTGCAAAC-CTTTA
*
29652270 TGTGCGAACC
1 TGTGCAAACC
29652280 CCTATGAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (14 bp):
TGTGCAAACCTTTA
Found at i:29652401 original size:26 final size:27
Alignment explanation
Indices: 29652372--29652443 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
29652362 ATGAGCGAGC
29652372 CCCTATGTGCGAACCCTATAG-ACAAA
1 CCCTATGTGCGAACCCTATAGAACAAA
* *
29652398 CCCTATGTGTGAACCTTATAGAAACAAA
1 CCCTATGTGCGAACCCTATAG-AACAAA
* * *
29652426 CACTATGCGCAAACCCTA
1 CCCTATGTGCGAACCCTA
29652444 CTTGTGCGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 19 0.51
28 18 0.49
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (27 bp):
CCCTATGTGCGAACCCTATAGAACAAA
Found at i:29654116 original size:21 final size:22
Alignment explanation
Indices: 29654092--29654136 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
29654082 AGAAAAAGAG
29654092 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
29654113 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
29654135 AA
1 AA
29654137 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:29655026 original size:35 final size:33
Alignment explanation
Indices: 29654948--29655278 Score: 400
Period size: 35 Copynumber: 9.8 Consensus size: 33
29654938 AAATAATACA
* *
29654948 TGAACAGGAGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
*
29654980 TGAACATGAGAGATTCCCTGCAACAAAATAATCCG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT--G
* *
29655015 TGAACAGGAGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
*
29655047 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAA--TG
*
29655082 TGAACAGGAGAGATTCCCTACAACAAAATAATGTG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAA--TG
29655117 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT--G
* *
29655152 TGAACAGGAGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
* *
29655184 TGAACAGGAGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
* *
29655216 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT--G
* * *
29655251 TGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAACAAAA
29655279 GACAAGTGAA
Statistics
Matches: 267, Mismatches: 21, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
32 100 0.37
33 17 0.06
34 12 0.04
35 138 0.52
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (33 bp):
TGAACAGGAGAGATTCCCTGCAACAAAATAATG
Found at i:29655046 original size:67 final size:67
Alignment explanation
Indices: 29654938--29655278 Score: 454
Period size: 67 Copynumber: 5.0 Consensus size: 67
29654928 GTCCAAAAAG
* * *
29654938 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACATGAGAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
29655003 CA
66 CA
* *
29655005 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
29655070 CA
66 CA
* * * *
29655072 AAATAATGTGTGAACAGGAGAGATTCCCTACAACAAAATAATGTGTGAACAGGAGAGATTCCCTG
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTG
29655137 CAACA
63 CAACA
29655142 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
*
29655207 -G
66 CA
* * * * * *
29655208 AAATGAT--GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTG
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGA-AATGAT--GTGAACAGGAGAGATTCCCTG
*
29655271 CAAGA
63 CAACA
29655276 AAA
1 AAA
29655279 GACAAGTGAA
Statistics
Matches: 245, Mismatches: 22, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
64 24 0.10
65 5 0.02
66 6 0.02
67 140 0.57
68 8 0.03
69 5 0.02
70 57 0.23
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
CA
Found at i:29655217 original size:169 final size:168
Alignment explanation
Indices: 29654948--29655278 Score: 513
Period size: 169 Copynumber: 2.0 Consensus size: 168
29654938 AAATAATACA
* * *
29654948 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACATGAGAGATTCCCTGCAACAAAATAATC
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAGAGATTCCCTGCAACAAAATAAT-
29655013 CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAA
65 CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAA
* *
29655078 TGTGTGAACAGGAGAGATTCCCTACAACAAAATAATGTG
130 TGCGTGAACAGGAAAGATTCCCTACAACAAAATAATGTG
* *
29655117 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAA-GAAATG
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAAT--GTGAACAGGAGAGATTCCCTGCAACAAAATA
*
29655181 AT-GTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAGAAT
63 ATCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAAT
* * *
29655245 AATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
128 AATGCGTGAACAGGAAAGATTCCCTACAACAAAA
29655279 GACAAGTGAA
Statistics
Matches: 148, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
169 113 0.76
170 6 0.04
171 6 0.04
172 23 0.16
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (168 bp):
TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAGAGATTCCCTGCAACAAAATAATC
GTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAAT
GCGTGAACAGGAAAGATTCCCTACAACAAAATAATGTG
Found at i:29657848 original size:21 final size:21
Alignment explanation
Indices: 29657824--29657879 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
29657814 ATGAACAATT
*
29657824 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
29657845 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
29657865 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
29657880 CAATTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:29657865 original size:20 final size:23
Alignment explanation
Indices: 29657835--29657879 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
29657825 AGAAAAAGAG
29657835 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
29657856 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
29657878 AA
1 AA
29657880 CAATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:29663504 original size:3 final size:3
Alignment explanation
Indices: 29663496--29663554 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
29663486 GTGAAATACT
* * * * *
29663496 ATA ATA ATA A-C ATA ATT ATA ATA ATA TTA ATA TTA ATA ATA AT- ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
29663542 ATA GTA ATA ATA A
1 ATA ATA ATA ATA A
29663555 ATAAATGAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:29663557 original size:18 final size:18
Alignment explanation
Indices: 29663513--29663554 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
29663503 TAACATAATT
*
29663513 ATAATAATATTAATATTA
1 ATAATAATATTAATAGTA
29663531 ATAATAATATT-ATAGTA
1 ATAATAATATTAATAGTA
29663548 ATAATAA
1 ATAATAA
29663555 ATAAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATAATATTAATAGTA
Found at i:29663662 original size:8 final size:8
Alignment explanation
Indices: 29663649--29663707 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
29663639 ATAATAAGAG
29663649 AAATAATA
1 AAATAATA
29663657 AAATAATA
1 AAATAATA
*
29663665 AGAACACACTA
1 A-AATA-A-TA
29663676 AAA-AATA
1 AAATAATA
29663683 AAA-AATAA
1 AAATAAT-A
*
29663691 AAAAAATA
1 AAATAATA
29663699 AAATAATA
1 AAATAATA
29663707 A
1 A
29663708 TGACAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
7 8 0.18
8 23 0.52
9 7 0.16
10 3 0.07
11 3 0.07
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (8 bp):
AAATAATA
Found at i:29663721 original size:24 final size:24
Alignment explanation
Indices: 29663694--29663740 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
29663684 AAAATAAAAA
29663694 AAATAAAATAATAATG-A-CAATAAT
1 AAAT-AAATAA-AATGCACCAATAAT
29663718 AAATAAATAAAATGCACCAATAA
1 AAATAAATAAAATGCACCAATAA
29663741 AAAGCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 10 0.48
ACGTcount: A:0.66, C:0.09, G:0.04, T:0.21
Consensus pattern (24 bp):
AAATAAATAAAATGCACCAATAAT
Found at i:29663915 original size:4 final size:4
Alignment explanation
Indices: 29663906--29664049 Score: 64
Period size: 4 Copynumber: 35.5 Consensus size: 4
29663896 ATGAAGGAAT
** *
29663906 AATA AATA AATA AATA AACG AATA AA-A GAATTAA AATA AA-A AAGTG
1 AATA AATA AATA AATA AATA AATA AATA -AA-T-A AATA AATA AA-TA
* * * * * * *
29663952 AATA AGTG AAT- AATA TATA AATA AATA AGTA AATG AGTA AATA AATG
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
29663999 AATAA AATA AA-A GGAAT- AATG AATA AATA AATA AGTA AATA GATG AATA
1 AAT-A AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA
29664048 AA
1 AA
29664050 AGAATTAAAA
Statistics
Matches: 102, Mismatches: 26, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
3 11 0.11
4 80 0.78
5 8 0.08
6 2 0.02
7 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.11, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:29663972 original size:57 final size:55
Alignment explanation
Indices: 29663902--29664069 Score: 178
Period size: 61 Copynumber: 2.9 Consensus size: 55
29663892 AAAAATGAAG
*
29663902 GAATAATAAATAAATAAATAAACGAATAAAAGAATTAAAATAAAAAAGTGAATAAGT
1 GAATAATAAATAAATAAATAAATGAATAAAAGAATTAAAATAAAAAAG-GAATAA-T
* * *
29663959 GAATAATATATAAATAAATAAGTAAATGAGTAAATA-AATGAATAA-AATAAAAGGAATAAT
1 G---AATA-ATAAATAAATAAATAAATGAATAAA-AGAATTAA-AATAA-AAAAGGAATAAT
* *
29664019 GAATAAATAAATAAGTAAATAGATGAATAAAAGAATTAAAATAAAAAAGGA
1 GAAT-AATAAATAAATAAATAAATGAATAAAAGAATTAAAATAAAAAAGGA
29664070 CTTAATTGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
56 10 0.11
57 32 0.35
58 1 0.01
60 6 0.07
61 35 0.38
62 8 0.09
ACGTcount: A:0.65, C:0.01, G:0.12, T:0.22
Consensus pattern (55 bp):
GAATAATAAATAAATAAATAAATGAATAAAAGAATTAAAATAAAAAAGGAATAAT
Found at i:29664018 original size:53 final size:54
Alignment explanation
Indices: 29663959--29664064 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 54
29663949 GTGAATAAGT
*
29663959 GAATAAT-ATATAAATAAATAAGTAAAT-GAGTAAATAAATGAA-TAAAATAAAAG
1 GAATAATGA-ATAAATAAATAAGTAAATAGA-TAAATAAAAGAATTAAAATAAAAG
*
29664012 GAATAATGAATAAATAAATAAGTAAATAGATGAATAAAAGAATTAAAATAAAA
1 GAATAATGAATAAATAAATAAGTAAATAGATAAATAAAAGAATTAAAATAAAA
29664065 AAGGACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
53 35 0.73
54 13 0.27
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (54 bp):
GAATAATGAATAAATAAATAAGTAAATAGATAAATAAAAGAATTAAAATAAAAG
Found at i:29665757 original size:27 final size:27
Alignment explanation
Indices: 29665720--29665775 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
29665710 TTTACAAATA
*
29665720 TTTAAATATTTTTATTATT-TATTATATT
1 TTTAAATATTTATATT-TTCTATTAT-TT
29665748 TTTAAA-ATTTATATTTTCTATTATTT
1 TTTAAATATTTATATTTTCTATTATTT
29665774 TT
1 TT
29665776 AATGATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.23
27 14 0.54
28 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTAAATATTTATATTTTCTATTATTT
Found at i:29665776 original size:18 final size:17
Alignment explanation
Indices: 29665725--29665776 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
29665715 AAATATTTAA
29665725 ATATTTTTATTATTTATT
1 ATATTTTTATTATTT-TT
**
29665743 ATATTTTTA--AAATTT
1 ATATTTTTATTATTTTT
29665758 ATATTTTCTATTATTTTT
1 ATATTTT-TATTATTTTT
29665776 A
1 A
29665777 ATGATGTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
18 14 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTTATTATTTTT
Found at i:29671123 original size:46 final size:46
Alignment explanation
Indices: 29671056--29671214 Score: 300
Period size: 46 Copynumber: 3.5 Consensus size: 46
29671046 TGATCAGTGA
*
29671056 CAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
*
29671102 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
29671148 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
29671194 CAAGTGACAAAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
29671215 TAATCAAGTG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
Found at i:29671230 original size:25 final size:25
Alignment explanation
Indices: 29671192--29671239 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
29671182 CACTTACCTG
*
29671192 ATCAAGTGACAAAGTGATAAGTGTA
1 ATCAAGTGAAAAAGTGATAAGTGTA
29671217 ATCAAGTGAAAAAGTGATAAGTG
1 ATCAAGTGAAAAAGTGATAAGTG
29671240 GTAGCCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.06, G:0.25, T:0.23
Consensus pattern (25 bp):
ATCAAGTGAAAAAGTGATAAGTGTA
Found at i:29674596 original size:24 final size:24
Alignment explanation
Indices: 29674564--29674618 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
29674554 GTATTACATA
29674564 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACGGGTAGCTCCAAAGAGCAAT
* *
29674588 TAACGGGTAGCTCCGAAGAGCACT
1 TAACGGGTAGCTCCAAAGAGCAAT
*
29674612 GAACGGG
1 TAACGGG
29674619 AAGCACCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.31, T:0.15
Consensus pattern (24 bp):
TAACGGGTAGCTCCAAAGAGCAAT
Found at i:29674708 original size:26 final size:27
Alignment explanation
Indices: 29674660--29674725 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 27
29674650 AAGCAAGCAC
* * *
29674660 TAAT-GGGAAGCTCACAAATAGCC-TT
1 TAATCGGGAAGCTTACAAAGAGCCATA
*
29674685 TAATCGGGAAGCTTACGAAGAGCCATA
1 TAATCGGGAAGCTTACAAAGAGCCATA
*
29674712 TAA-CGGGACGCTTA
1 TAATCGGGAAGCTTA
29674726 TAAGAGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.12
26 26 0.76
27 4 0.12
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
TAATCGGGAAGCTTACAAAGAGCCATA
Found at i:29676592 original size:14 final size:15
Alignment explanation
Indices: 29676573--29676617 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
29676563 TTTAAAAATA
29676573 TATAATATT-TATTG
1 TATAATATTATATTG
29676587 TATAAT-TTATATTG
1 TATAATATTATATTG
29676601 TA-AATATATATAATTG
1 TATAATAT-TAT-ATTG
29676617 T
1 T
29676618 GATTTAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.19
14 14 0.52
15 3 0.11
16 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TATAATATTATATTG
Found at i:29676808 original size:44 final size:43
Alignment explanation
Indices: 29676759--29676844 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
29676749 GTTGACATAA
* * *
29676759 AATAGAATTTGTGATAATTATACGTTTAACAATAATTATAATTC
1 AATAGAAATTGTGATAATTACACATTTAA-AATAATTATAATTC
29676803 AATAGAAATTGTGATAATTACACATTTAAAATAATTATAATT
1 AATAGAAATTGTGATAATTACACATTTAAAATAATTATAATT
29676845 TTCATTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 13 0.33
44 26 0.67
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (43 bp):
AATAGAAATTGTGATAATTACACATTTAAAATAATTATAATTC
Found at i:29682323 original size:17 final size:18
Alignment explanation
Indices: 29682300--29682339 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
29682290 TAAAATTGTT
29682300 AAATATAA-AATTAAAAA
1 AAATATAATAATTAAAAA
* *
29682317 TAATATAATATTTAAAAA
1 AAATATAATAATTAAAAA
29682335 AAATA
1 AAATA
29682340 CCAAAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATAATAATTAAAAA
Found at i:29686519 original size:13 final size:14
Alignment explanation
Indices: 29686501--29686534 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
29686491 CCATCTTTAC
29686501 TTTTAATTTCT-TT
1 TTTTAATTTCTATT
*
29686514 TTTTAATTTTTATT
1 TTTTAATTTCTATT
29686528 TTTTAAT
1 TTTTAAT
29686535 GTTGAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTAATTTCTATT
Found at i:29694871 original size:4 final size:4
Alignment explanation
Indices: 29694862--29694895 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
29694852 CGTTTTGCAC
29694862 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
29694896 ATAAGCTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:29699340 original size:13 final size:14
Alignment explanation
Indices: 29699313--29699343 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
29699303 ATGAGATGAG
29699313 AATATTATCTTAAA
1 AATATTATCTTAAA
29699327 AATATTAT-TTAAA
1 AATATTATCTTAAA
29699340 AATA
1 AATA
29699344 AAATAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATTATCTTAAA
Found at i:29709667 original size:36 final size:36
Alignment explanation
Indices: 29709615--29709685 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
29709605 ATCAAGGGCT
29709615 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
* * *
29709651 ACAATTAGAAGTTGTATACAATTGGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
29709686 TTACATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:29709673 original size:17 final size:17
Alignment explanation
Indices: 29709614--29709673 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
29709604 CATCAAGGGC
* *
29709614 TACAATTAAAAGCTGTA
1 TACAATTAGAAGTTGTA
*
29709631 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAGT-T--GTA
*
29709650 CACAATTAGAAGTTGTA
1 TACAATTAGAAGTTGTA
29709667 TACAATT
1 TACAATT
29709674 GGAACTCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 17 0.52
18 2 0.06
19 12 0.36
20 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (17 bp):
TACAATTAGAAGTTGTA
Found at i:29709972 original size:24 final size:25
Alignment explanation
Indices: 29709945--29709992 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
29709935 TTTAAAGAAA
* *
29709945 TAAATAAATTTATTTATTT-TATAT
1 TAAATAAATATAATTATTTGTATAT
29709969 TAAATAAATATAATTATTTGTATA
1 TAAATAAATATAATTATTTGTATA
29709993 CGTAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAAATAAATATAATTATTTGTATAT
Found at i:29712250 original size:98 final size:98
Alignment explanation
Indices: 29712081--29712276 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
29712071 AAAATTATAT
* * *
29712081 AAAGATATCCACTTGTTGGAAAAATTGGTCATTATTTCTTTTAGAAATGTAAGAGATTCAATCTC
1 AAAGATATCCACTTGTTGGAAAAATTGGCCAGTATTTCTTTCAGAAATGTAAGAGATTCAATCTC
29712146 AACTTTTGTTAATGAGGTTATTAATAAATCATC
66 AACTTTTGTTAATGAGGTTATTAATAAATCATC
*
29712179 AAAGATATCCACTTGTTGGAAAAA-TGGACCCGTATTTCTTTCAGAAATGTAAGAGATTCAATCT
1 AAAGATATCCACTTGTTGGAAAAATTGG-CCAGTATTTCTTTCAGAAATGTAAGAGATTCAATCT
29712243 CAACTTTTGTTAATGAGGTTATTAATAAATCATC
65 CAACTTTTGTTAATGAGGTTATTAATAAATCATC
29712277 TTCTTTGAGA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
97 3 0.03
98 90 0.97
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (98 bp):
AAAGATATCCACTTGTTGGAAAAATTGGCCAGTATTTCTTTCAGAAATGTAAGAGATTCAATCTC
AACTTTTGTTAATGAGGTTATTAATAAATCATC
Found at i:29715811 original size:16 final size:16
Alignment explanation
Indices: 29715786--29715840 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
29715776 ATGTTAGGCG
*
29715786 GTAATGGAATAGATGT
1 GTAATAGAATAGATGT
*
29715802 GTAATAGAATAGATGC
1 GTAATAGAATAGATGT
* *
29715818 GTAATGGAATAGAAGT
1 GTAATAGAATAGATGT
29715834 GTAATAG
1 GTAATAG
29715841 GTAATTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (16 bp):
GTAATAGAATAGATGT
Found at i:29716053 original size:18 final size:18
Alignment explanation
Indices: 29716024--29716084 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
29716014 GCTTATTAAT
29716024 ATAAATAATATATAATTTA
1 ATAAA-AATATATAATTTA
29716043 ATAAAAATATATAATTTA
1 ATAAAAATATATAATTTA
29716061 AT-AAAATATATGAATTTA
1 ATAAAAATATAT-AATTTA
*
29716079 CTAAAA
1 ATAAAA
29716085 TCATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 9 0.23
18 22 0.56
19 8 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAAAAATATATAATTTA
Found at i:29721844 original size:21 final size:21
Alignment explanation
Indices: 29721810--29721856 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29721800 GAATAATTTC
* *
29721810 ACTCG-ATTTGATTTGACTCG
1 ACTCGAATTTCATTTCACTCG
29721830 ACTCGAATTTCATTTCACTCG
1 ACTCGAATTTCATTTCACTCG
29721851 ACTCGA
1 ACTCGA
29721857 TTCGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (21 bp):
ACTCGAATTTCATTTCACTCG
Found at i:29725054 original size:41 final size:41
Alignment explanation
Indices: 29725009--29725092 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
29724999 ACCAATCGAG
29725009 CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
1 CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
*
29725050 CATTCCGTGATCCAAGTTGTCGAGAATCCTTGACAATTGTC
1 CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
29725091 CA
1 CA
29725093 ATAAATTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (41 bp):
CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
Found at i:29731280 original size:2 final size:2
Alignment explanation
Indices: 29731273--29731299 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29731263 TCAGTAACTT
29731273 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
29731300 TATATATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:29746337 original size:2 final size:2
Alignment explanation
Indices: 29746330--29746360 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29746320 TGGAACGTTT
29746330 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29746361 GTTTATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29748475 original size:6 final size:6
Alignment explanation
Indices: 29748464--29748488 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29748454 CCATCTGTGG
29748464 CACATA CACATA CACATA CACATA C
1 CACATA CACATA CACATA CACATA C
29748489 CCAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CACATA
Found at i:29756818 original size:6 final size:6
Alignment explanation
Indices: 29756807--29756834 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
29756797 TTATGTTAGA
29756807 GATTAT GATTAT GATTAT GATTAT GATT
1 GATTAT GATTAT GATTAT GATTAT GATT
29756835 TGTTTTGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
GATTAT
Found at i:29756819 original size:18 final size:17
Alignment explanation
Indices: 29756796--29756838 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
29756786 TTATAGTATA
29756796 ATTATGTTAGAGATTATG
1 ATTATGTTA-AGATTATG
*
29756814 ATTATGATTATGATTATG
1 ATTATG-TTAAGATTATG
29756832 ATT-TGTT
1 ATTATGTT
29756839 TTGGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 2 0.09
18 16 0.70
19 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (17 bp):
ATTATGTTAAGATTATG
Found at i:29757115 original size:30 final size:30
Alignment explanation
Indices: 29757081--29757140 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
29757071 ACTTAACAAG
29757081 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * * *
29757111 CAAATGCTTTTAAAATATTAACAATATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
29757141 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:29772555 original size:21 final size:21
Alignment explanation
Indices: 29772515--29772555 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29772505 CTCCCTTTTA
* *
29772515 ATCACCACCGTCCATTTTCCC
1 ATCACAACCGTCCATGTTCCC
*
29772536 ATCACAACCGTCTATGTTCC
1 ATCACAACCGTCCATGTTCC
29772556 TCTTCACTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.29
Consensus pattern (21 bp):
ATCACAACCGTCCATGTTCCC
Found at i:29780294 original size:21 final size:21
Alignment explanation
Indices: 29780270--29780320 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29780260 TTTAGATATG
* *
29780270 TATTATTTATATTTATAATTA
1 TATTATTTAAACTTATAATTA
*
29780291 TATTAATTAAACTTATAATTA
1 TATTATTTAAACTTATAATTA
29780312 TATATATTT
1 TAT-TATTT
29780321 TTTACAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTTAAACTTATAATTA
Found at i:29783450 original size:21 final size:21
Alignment explanation
Indices: 29783426--29783468 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29783416 TAAATAAAAT
* *
29783426 ATAAGTTAAATAATATAATTA
1 ATAACTTAAATAACATAATTA
*
29783447 ATAACTTAAATAACATGATTA
1 ATAACTTAAATAACATAATTA
29783468 A
1 A
29783469 ATAGGAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAACTTAAATAACATAATTA
Found at i:29785496 original size:16 final size:15
Alignment explanation
Indices: 29785471--29785500 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29785461 CATACATTAC
29785471 AAAAAATGAATAAAT
1 AAAAAATGAATAAAT
29785486 AAAATAATGAATAAA
1 AAAA-AATGAATAAA
29785501 ATTTAGTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAAAATGAATAAAT
Found at i:29792023 original size:14 final size:14
Alignment explanation
Indices: 29792004--29792031 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29791994 CCACCACCTG
29792004 TTAAAGTAATTAAT
1 TTAAAGTAATTAAT
29792018 TTAAAGTAATTAAT
1 TTAAAGTAATTAAT
29792032 ATGAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAAGTAATTAAT
Found at i:29794151 original size:15 final size:15
Alignment explanation
Indices: 29794131--29794161 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29794121 TCAATGTCAA
29794131 AAGCTTACAAATACT
1 AAGCTTACAAATACT
29794146 AAGCTTACAAATACT
1 AAGCTTACAAATACT
29794161 A
1 A
29794162 CCATAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
AAGCTTACAAATACT
Found at i:29796690 original size:3 final size:3
Alignment explanation
Indices: 29796682--29796706 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29796672 GCACTTAAAA
29796682 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
29796707 GTGTTACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:29805259 original size:24 final size:24
Alignment explanation
Indices: 29805224--29805270 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
29805214 TATTTTTTTC
29805224 TTTTTTCTTTTCAT-TTAAAATTG
1 TTTTTTCTTTTCATATTAAAATTG
* *
29805247 TTTTTTTTATTTCATATTATAATT
1 TTTTTTCT-TTTCATATTAAAATT
29805271 TTTAAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTTTCTTTTCATATTAAAATTG
Found at i:29806396 original size:10 final size:11
Alignment explanation
Indices: 29806381--29806426 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
29806371 AACTAAATCC
29806381 TTTCTCTC-AA
1 TTTCTCTCAAA
*
29806391 TTTCTCTCTAA
1 TTTCTCTCAAA
29806402 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
29806414 TTCCTCTCAAA
1 TTTCTCTCAAA
29806425 TT
1 TT
29806427 CCTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 8 0.25
11 14 0.44
12 10 0.31
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:29806407 original size:12 final size:10
Alignment explanation
Indices: 29806381--29806423 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
29806371 AACTAAATCC
29806381 TTTCTCTCAA
1 TTTCTCTCAA
29806391 TTTCTCTCTAA
1 TTTCTCTC-AA
29806402 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
29806414 TTCCTCTCAA
1 TTTCTCTCAA
29806424 ATTCCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:29807607 original size:7 final size:7
Alignment explanation
Indices: 29807595--29807620 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29807585 TAGTCGATTG
29807595 GTATTTA
1 GTATTTA
29807602 GTATTTA
1 GTATTTA
29807609 GTATTTA
1 GTATTTA
29807616 GTATT
1 GTATT
29807621 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:29808700 original size:111 final size:111
Alignment explanation
Indices: 29808506--29808727 Score: 417
Period size: 111 Copynumber: 2.0 Consensus size: 111
29808496 ATTCTATACT
*
29808506 GCTACCAAACATGGGTTGTTCCGTGTTTTGTACCCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
1 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
*
29808571 ATGCCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
66 ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
29808617 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
1 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
*
29808682 ATACCTCTCGAACAGCAGTTGCAAGTGCATCATTTGGCGATATAAA
66 ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
29808728 TTGTACATAT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (111 bp):
GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
Found at i:29809369 original size:126 final size:125
Alignment explanation
Indices: 29809144--29809676 Score: 811
Period size: 126 Copynumber: 4.3 Consensus size: 125
29809134 GACCAAACAA
29809144 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCG-GTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
*
29809209 CTGCTTAAAGCGTTTTTAACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
65 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
* *
29809270 GAGCTACTGTAGCAAAAGCGGATCCACATGGGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGG-TCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
*
29809335 CTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
65 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
*
29809396 GAGCTACTGT------A---G--CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
1 GAGCTACTGTAGCAAAAGCGGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
*
29809450 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
* * * *
29809510 GAGCTACTGTAGCAAAAGCGCGTCAACGTGAGAGCTTCTTTCAGTACTTTTGTTGACAATGCATC
1 GAGCTACTGTAGCAAAAGCG-GTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
29809575 CTGTTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTA-TCGAAATTATTTTTTTAG
65 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTC-TACTCGAAATTATTTTTTCAG
* *
29809636 GAGCTACTGTAGCAAAAGTGAGTCCATGTGGGAGCTTCTTT
1 GAGCTACTGTAGCAAAAGCG-GTCCACGTGGGAGCTTCTTT
29809677 AAATTAACAA
Statistics
Matches: 373, Mismatches: 20, Indels: 28
0.89 0.05 0.07
Matches are distributed among these distances:
114 107 0.29
117 1 0.00
120 2 0.01
124 1 0.00
125 1 0.00
126 259 0.69
127 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (125 bp):
GAGCTACTGTAGCAAAAGCGGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
Found at i:29809506 original size:114 final size:114
Alignment explanation
Indices: 29809301--29809649 Score: 520
Period size: 114 Copynumber: 3.0 Consensus size: 114
29809291 ATCCACATGG
*
29809301 GAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCATTTTTGACACTATTTGCTC
1 GAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTATTTGCTC
29809366 AGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTGTAGCACGTGA
66 AGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTGTAGCACGTGA
*
29809415 GAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTATTTGCTC
1 GAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTATTTGCTC
*
29809480 AGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCAACGTGA
66 AGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTGT------A----G-C-ACGTGA
* *
29809541 GAGCTTCTTTCAGTACTTTTGTTGACAATGCATCCTGTTTAAAGCGTTTTTGACACTATTTGCTC
1 GAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTATTTGCTC
*
29809606 AGAAACGTCTTA-TCGAAATTATTTTTTTAGGAGCTACTGTAGCA
66 AGAAACGTC-TACTCGAAATTATTTTTTCAGGAGCTACTGTAGCA
29809650 AAAGTGAGTC
Statistics
Matches: 214, Mismatches: 8, Indels: 26
0.86 0.03 0.10
Matches are distributed among these distances:
114 103 0.48
115 1 0.00
116 1 0.00
120 2 0.01
124 1 0.00
125 1 0.00
126 103 0.48
127 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (114 bp):
GAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTATTTGCTC
AGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTGTAGCACGTGA
Found at i:29809598 original size:240 final size:240
Alignment explanation
Indices: 29809168--29809649 Score: 842
Period size: 240 Copynumber: 2.0 Consensus size: 240
29809158 AAAGCGCGTC
*
29809168 CACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
1 CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
* *
29809233 TTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTGTAGCAAAAGCGGATCCACA
66 TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGGATCAACA
*
29809298 TGGGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCATTTTTGACACTATTTG
131 TGAGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCATTTTTGACACTATTTG
29809363 CTCAGAAACGTC-TACTCGAAATTATTTTTTCAGGAGCTACTGTAG
196 CTCAGAAACGTCTTA-TCGAAATTATTTTTTCAGGAGCTACTGTAG
*
29809408 CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTA
1 CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
29809473 TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGCG-TCAAC
66 TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCG-GATCAAC
* * * *
29809537 GTGAGAGCTTCTTTCAGTACTTTTGTTGACAATGCATCCTGTTTAAAGCGTTTTTGACACTATTT
130 ATGAGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCATTTTTGACACTATTT
*
29809602 GCTCAGAAACGTCTTATCGAAATTATTTTTTTAGGAGCTACTGTAG
195 GCTCAGAAACGTCTTATCGAAATTATTTTTTCAGGAGCTACTGTAG
29809648 CA
1 CA
29809650 AAAGTGAGTC
Statistics
Matches: 230, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
240 227 0.99
241 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (240 bp):
CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGGATCAACA
TGAGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGCATTTTTGACACTATTTG
CTCAGAAACGTCTTATCGAAATTATTTTTTCAGGAGCTACTGTAG
Found at i:29809900 original size:97 final size:96
Alignment explanation
Indices: 29809715--29810083 Score: 440
Period size: 97 Copynumber: 3.8 Consensus size: 96
29809705 CCTAAACCCC
* * * * *
29809715 AAACTCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACTCTAATCTAATTTTTT-
1 AAACCCTAATTTATTT-AATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATTTTTTA
*
29809779 AAAAATTTATAATTAATTTACTCAAGTAACCTT
65 AAAAATTT-TAATTAAATTACTCAAGTAACCTT
*
29809812 AAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATTTAATTTTTTTA
1 AAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAA-TTTTTTA
29809877 AAAAATTTTAATTAAATTACTCAAGTAACCTT
65 AAAAATTTTAATTAAATTACTCAAGTAACCTT
* * *
29809909 AAACCAC-AATTTATTTGATTTTTTCTTAAAAACCCTTAACACTAAACCCTGATCTAA-TTTTTA
1 AAACC-CTAATTTATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATTTTTTA
** *
29809972 AAATTTTTTTAATTAAATTACTCAAGTAACCCT
65 AAA-AATTTTAATTAAATTACTCAAGTAACCTT
* * * * * * * * **
29810005 AAACCCTAATTTAATTGATTTTTTCTTTAAAAACCATAAACAC-GAAGCCTAATCCAATTTTAAA
1 AAACCCTAATTT-ATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATTTTTTA
*
29810069 AAAAATTATAATTAA
65 AAAAATTTTAATTAA
29810084 TTTAATTGAG
Statistics
Matches: 235, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
95 10 0.04
96 91 0.39
97 125 0.53
98 9 0.04
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.40
Consensus pattern (96 bp):
AAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATTTTTTAA
AAAATTTTAATTAAATTACTCAAGTAACCTT
Found at i:29810099 original size:96 final size:96
Alignment explanation
Indices: 29809709--29810109 Score: 446
Period size: 96 Copynumber: 4.2 Consensus size: 96
29809699 AGTAACCCTA
* * * * *
29809709 AACCCCAAACTCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACTCTAATCTAAT
1 AACCCTAAACCCTAATTTAATTGA-TTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
* * *
29809774 TTTTTAAAAATTTATAATTAATTTACTCAAGT
65 TTTTAAAAAAATTATAATTAAATTACTCAAGT
* * * * * *
29809806 AACCTTAAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATTTAATT
1 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAA-T
* *
29809871 TTTTTAAAAAATTTTAATTAAATTACTCAAGT
65 TTTTAAAAAAATTATAATTAAATTACTCAAGT
* * * *
29809903 AACCTTAAACCAC-AATTTATTTGATTTTTTCTTAAAAACCCTTAACACTAAACCCTGATCTAAT
1 AACCCTAAACC-CTAATTTAATTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
*** *
29809967 TTTTAAAATTTTTTTAATTAAATTACTCAAGT
65 TTTTAAAAAAATTATAATTAAATTACTCAAGT
* * * *
29809999 AACCCTAAACCCTAATTTAATTGATTTTTTCTTTAAAAACCATAAACAC-GAAGCCTAATCCAAT
1 AACCCTAAACCCTAATTTAATTGATTTTTTC-TTAAAAACCCTAAACACTAAACCCTAATCTAAT
* * * ** *
29810063 TTTAAAAAAAATTATAATTAATTTAATTGAGA
65 TTTTAAAAAAATTATAATTAAATTACTCAAGT
29810095 AACCCTAAACCCTAA
1 AACCCTAAACCCTAA
29810110 ACCCTAATCC
Statistics
Matches: 263, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.00
96 139 0.53
97 122 0.46
98 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATT
TTTAAAAAAATTATAATTAAATTACTCAAGT
Found at i:29813298 original size:89 final size:89
Alignment explanation
Indices: 29813143--29814740 Score: 1079
Period size: 89 Copynumber: 17.6 Consensus size: 89
29813133 AACAGATCAG
* * * * *
29813143 TGAAGATAACAGATCTAGCCTTCCTGTACTGATGGTGAAGCAGATCGAAGACACCAGTCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
29813208 TCCTATAGTGACAGCGGAGCAAAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
29813232 TGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTAAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
29813297 TCTTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * * *
29813321 TGAATATAGCAGATCTTGCCTTCCTATAGTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
29813386 TCCTGTACTGACAGCGGAGCAAAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
29813410 TGAAGATAGTAAATTTTACCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
29813475 TCTTGTATTGACAGCGGAGTAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* *
29813499 TGAAGATAGCAAATCTTGCCTTCCTGTACTGA-GGTGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
29813563 TCTTGTACTGACAGCGGAGCAGAT
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
29813587 TGAAGATAGCAGATCTTACCTTCCAGTACTGACGATGAAGCAGATCGAAGACACTAGCATTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
29813652 TCCTGTACTGACAACGGAGTAGAT
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
29813676 TAAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAATACACCAACCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
29813741 TCCTGTACTGACAGCGGAGTAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * **
29813765 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAATCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
29813830 TCCTGTACTGACAGTGAAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
29813854 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * *
29813919 TTCTATAATGACAGCGAAGTATAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * * * *
29813943 TGAAGATAACATATCTTGCATTTCTATACTGACAGCGAAGCAGATCGAAGACACCA---TAG--T
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* ** *** ** *
29814003 T--TGCAACAAAGCAGTTAAAAAGAT
66 TCCTG-TACTGA-CAGCGGAGCAGAC
* * * * * * ****
29814027 TGAAGCTCCAACAATGAATCTT-ACTTCC-CTA-AG-CAGTAGTGGAGCAGATCGAAGATGGTGA
1 TGAAGAT--AGC-A-G-ATCTTGCCTTCCTGTACTGAC-G--GTGAAGCAGATCGAAGA-CACCA
** ** * * * *
29814088 ATCTTATCTTCCCAAGATAGTGGAGAAGCGGATTTAAGCCTTCCTATAC
57 GCCTTGCCTT-CC-TG-TACT-GA-CAGCGG-----AG-----C-AGAC
** * *
29814137 TGAAG-TGAAGCAGATCGAAGACACCAGCTTTGCCT-TCCTGTAC--TG-A-CAG-T-GAAGCAG
1 TGAAGAT--AGCAGATC-TTG----C--C-TT-CCTGTACTG-ACGGTGAAGCAGATCGAAG-AC
* * * * *
29814194 ACTGAAG-ATAGTAGATCTTGCCTTCCGGTACTGAC-GATGAAGCAGA-
53 AC--CAGCCT--T-G-CCTT-CC-T---GTACTGACAG-CGGAGCAGAC
* * * * * ** * * ** *
29814240 TCGAAGACA-CTAG-CCTTGCTTTCCTGTACTGACAGTGGAGCAGATTAAAAAAAGTAGATCTTG
1 T-GAAGATAGC-AGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAG-CCTTG
* * *
29814303 CCTTCTTGTACTGACAACGGAGCAGAA
63 CCTTCCTGTACTGACAGCGGAGCAGAC
* * * ** *
29814330 TGAAGATAGCAAATCTTGCCTTCCTATACTGACGGTGAAGCAGATCGAATACATTAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* **
29814395 TCTTGTACTGACAGTAGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * ** *
29814419 TGAAGATAGCTGATCTTACCTTCCTGTACTGACGGCGAAGCAGATTAAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
29814484 TCCTGTACTGACAGCGGAGTAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
29814508 TGAAGATAGCAAATTTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACTAACCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
29814573 TCTTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
29814597 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGC-GATCGAAAATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
29814661 TCCTATAATGACAGCGGAGCATAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * **
29814685 TGAAGATAGCAAATCTTGCATTCCTATACTGACGGCGAAATAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCA
29814741 TAGTTTGTAA
Statistics
Matches: 1185, Mismatches: 249, Indels: 150
0.75 0.16 0.09
Matches are distributed among these distances:
82 1 0.00
83 2 0.00
84 15 0.01
85 1 0.00
86 6 0.01
87 3 0.00
88 171 0.14
89 838 0.71
90 36 0.03
92 2 0.00
93 6 0.01
94 11 0.01
95 3 0.00
96 4 0.00
97 4 0.00
98 6 0.01
99 6 0.01
101 1 0.00
102 2 0.00
103 4 0.00
104 7 0.01
105 1 0.00
106 3 0.00
107 1 0.00
108 1 0.00
109 3 0.00
110 14 0.01
111 3 0.00
112 4 0.00
113 2 0.00
114 4 0.00
115 9 0.01
116 5 0.00
117 4 0.00
118 1 0.00
119 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:29813829 original size:355 final size:356
Alignment explanation
Indices: 29813143--29813959 Score: 1055
Period size: 355 Copynumber: 2.3 Consensus size: 356
29813133 AACAGATCAG
* * * *
29813143 TGAAGATAACAGATCTAGCCTTCCTGTACTGATGGTGAAGCAGATCGAAGACACCAG-TCTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCT-TTGCC
* * * * *
29813207 TTCCTATAGTGACAGCGGAGCAAACTGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTAAAG
65 TTCCTATACTGACAGCGGAGCAAACTGAAGATAGCAGATCTTACCTTCCAGTACTAACGATAAAG
* * * * *
29813272 CAGATCGAAGACACCAGTCTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAATATAGCAGATCT
130 CAGATCGAAGACACCAGTCTTACCTTCCTGTACTGACAACGGAGCAGACTAAAGATAGCAGATCT
* * * *
29813337 TGCCTTCCTATAGTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCTTTCCTGTACTGACAGCG
195 TGCCTTCCTATACTGACGGCGAAGCAAATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCG
* * * *
29813402 GAGCAAACTGAAGATAGTAAATTTTACCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACCAG
260 GAGCAAACTGAAGATAGCAAATCTTACCTTCCTGTACTAACGGCGAAGCAGATCGAAGACACCAA
* * * *
29813467 CCTTGCCTTCTTGTATTGACAGCGGAGTAGAC
325 CCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
*
29813499 TGAAGATAGCAAATCTTGCCTTCCTGTACTGA-GGTGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCTTTGCCT
* * * * * *
29813563 TCTTGTACTGACAGCGGAGCAGATTGAAGATAGCAGATCTTACCTTCCAGTACTGACGATGAAGC
66 TCCTATACTGACAGCGGAGCAAACTGAAGATAGCAGATCTTACCTTCCAGTACTAACGATAAAGC
* * *
29813628 AGATCGAAGACACTAG-CATTACCTTCCTGTACTGACAACGGAGTAGATTAAAGATAGCAGATCT
131 AGATCGAAGACACCAGTC-TTACCTTCCTGTACTGACAACGGAGCAGACTAAAGATAGCAGATCT
* * * *
29813692 TGCCTTCCTGTACTGACGGTGAAGCAGATCGAATACACCAACCTTGCCTTCCTGTACTGACAGCG
195 TGCCTTCCTATACTGACGGCGAAGCAAATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCG
* * * * * *
29813757 GAGTAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAA
260 GAGCAAACTGAAGATAGCAAATCTTACCTTCCTGTACTAACGGCGAAGCAGATCGAAGACACCAA
* *
29813822 TCTTGCCTTCCTGTACTGACAGTGAAGCAGAC
325 CCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
29813854 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCTTTGCCT
* * * * * * *
29813919 TTCTATAATGACAGCGAAGTATACTGAAGATAACATATCTT
66 TCCTATACTGACAGCGGAGCAAACTGAAGATAGCAGATCTT
29813960 GCATTTCTAT
Statistics
Matches: 395, Mismatches: 63, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
354 1 0.00
355 305 0.77
356 89 0.23
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (356 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCTTTGCCT
TCCTATACTGACAGCGGAGCAAACTGAAGATAGCAGATCTTACCTTCCAGTACTAACGATAAAGC
AGATCGAAGACACCAGTCTTACCTTCCTGTACTGACAACGGAGCAGACTAAAGATAGCAGATCTT
GCCTTCCTATACTGACGGCGAAGCAAATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCGG
AGCAAACTGAAGATAGCAAATCTTACCTTCCTGTACTAACGGCGAAGCAGATCGAAGACACCAAC
CTTGCCTTCCTGTACTGACAGCGAAGCAGAC
Found at i:29813993 original size:45 final size:44
Alignment explanation
Indices: 29813144--29814735 Score: 577
Period size: 45 Copynumber: 36.1 Consensus size: 44
29813134 ACAGATCAGT
* * ** *
29813144 GAAGATAACAGATCTAGCCTTCCTGTACTGATGGTGAAGCAGATC
1 GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * * * * *
29813189 GAAGACACCAGTCTTACCTTCCTATAGTGACAGCGGAGCA-AAC
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * **
29813232 TGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTAAAGCAGATC
1 -GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * *
29813278 GAAGACACCAGTCTTGCCTTCTTGTACTGACAGCGGAGCAGA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * * *
29813321 TGAATATAGCAGATCTTGCCTTCCTATAGTGACGGCGAAGTAAATC
1 -GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * ** * * *
29813367 GAAGACACCAGCCTTGCTTTCCTGTACTGACAGCGGAGCA-AAC
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * * *
29813410 TGAAGATAGTAAATTTTACCTTCCTGTACTAACGGTGAAGCAGATC
1 -GAAGATAG-CAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * ** * * * *
29813456 GAAGACACCAGCCTTGCCTTCTTGTATTGACAGCGGAGTAGA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* *
29813499 TGAAGATAGCAAATCTTGCCTTCCTGTACTGA-GGTGAAGCAGATC
1 -GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * * *
29813544 GAAGACA-CCAGCTTTGCCTTCTTGTACTGACAGCGGAGCAGATT
1 GAAGATAGCAATC-TTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * *
29813588 GAAGATAGCAGATCTTACCTTCCAGTACTGAC-GATGAAGCAGATC
1 GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAG-CGAAGCAGATC
* * * * * * * *
29813633 GAAGACA-CTAGCATTACCTTCCTGTACTGACAACGGAGTAGATT
1 GAAGATAGCAATC-TTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * *
29813677 AAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATC
1 GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * * *
29813722 GAATACACCAACCTTGCCTTCCTGTACTGACAGCGGAGTAGA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* *
29813765 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGTAGATC
1 -GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* *
29813811 GAAGACA-CTAATCTTGCCTTCCTGTACTGACAGTGAAGCAGA-C
1 GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
*
29813854 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
1 -GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * ** * * * * *
29813900 GAAAACACCAGCCTTGCCTTTCTATAATGACAGCGAAGTATA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * *
29813943 TGAAGATAACATATCTTGCATTTCTATACTGACAGCGAAGCAGATC
1 -GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * ** ** * * * * ** * * *
29813989 GAAGACACCATAGT-TTG-CAACAAAGCAGTTAAAAAGATTGAAGCTC
1 GAAGATAGCA-A-TCTTGCCTTC-CTGTACTGACAGCGA-AGCAGATC
* * * * * * * *
29814035 CAACA-ATG-AATCTT-ACTTCC-CTA-AGCAGTAGTGGAGCAGATC
1 GAAGATA-GCAATCTTGCCTTCCTGTACTG-A-CAGCGAAGCAGATC
* * ** * * * * * *
29814077 GAAGATGGTGAATCTTATCTTCC--CA-AGATAGTGGAG-A-AGC
1 GAAGATAG-CAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* ** * ** * * *
29814117 GGATTTAAGC---CTTCCTATACTGAAGTGAAGCAGATCG-A--AGA-C
1 GAAGAT-AGCAATCTTGCCTTCCTGTACTG-A-CAG--CGAAGCAGATC
** *
29814159 --A-CCAGC--T-TTGCCTTCCTGTACTGACAGTGAAGCAGA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * *
29814196 TGAAGATAGTAGATCTTGCCTTCCGGTACTGAC-GATGAAGCAGATC
1 -GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAG-CGAAGCAGATC
* ** * * * *
29814242 GAAGACA-CTAGCCTTGCTTTCCTGTACTGACAGTGGAGCAGATT
1 GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * * * *
29814286 AAAAAAAGTAGATCTTGCCTTCTTGTACTGACAACGGAGCAGAAT-
1 GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAG-ATC
* * *
29814331 GAAGATAGCAAATCTTGCCTTCCTATACTGACGGTGAAGCAGATC
1 GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * *
29814376 G-A-ATA-CATTAGCTTTGCCTTCTTGTACTGACAG-TAGAGCAGA-C
1 GAAGATAGCA--ATC-TTGCCTTCCTGTACTGACAGCGA-AGCAGATC
* * * *
29814419 TGAAGATAGCTGATCTTACCTTCCTGTACTGACGGCGAAGCAGATT
1 -GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * ** * *
29814465 AAAGATACCAGCCTTGCCTTCCTGTACTGACAGCGGAGTAGA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* *
29814508 TGAAGATAGCAAATTTTGCCTTCCTGTACTGACGGCGAAGCAGATC
1 -GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * *
29814554 GAAGACA-CTAACCTTACCTTCTTGTACTGACAGCGGAGCAGA-C
1 GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
*
29814597 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGC-GATC
1 -GAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * ** * * * *
29814642 GAAAATACCAGCCTTGCCTTCCTATAATGACAGCGGAGCATA-C
1 GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * **
29814685 TGAAGATAGCAAATCTTGCATTCCTATACTGACGGCGAAATAGATC
1 -GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
29814731 GAAGA
1 GAAGA
29814736 CACCATAGTT
Statistics
Matches: 1117, Mismatches: 335, Indels: 190
0.68 0.20 0.12
Matches are distributed among these distances:
34 1 0.00
35 1 0.00
36 3 0.00
37 10 0.01
38 13 0.01
39 1 0.00
40 8 0.01
41 6 0.01
42 26 0.02
43 67 0.06
44 439 0.39
45 508 0.45
46 33 0.03
47 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (44 bp):
GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
Found at i:29814075 original size:444 final size:439
Alignment explanation
Indices: 29813143--29814328 Score: 1198
Period size: 444 Copynumber: 2.7 Consensus size: 439
29813133 AACAGATCAG
* * * * *
29813143 TGAAGATAACAGATC-TAGCCTTCCTGTACTGATGGTGAAGCAGATCGAAGACACCAGTC-TTAC
1 TGAAGATAACAGATCTTA-CCTTCCAGCACTGACGATGAAGCAGATCGAAGACACTAG-CATTAC
* * * * * * *
29813206 CTTCCTATAGTGACAGCGGAGCAAACTGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTAAA
64 CTTCCT-TACTGACAACGGAGTAGA-TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAA
* * *
29813271 GCAGATCGAAGACACCAGTCTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAATATAGCAGATC
127 GCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATC
* * * * *
29813336 TTGCCTTCCTATAGTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCTTTCCTGTACTGACAGC
192 TTGCCTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAGCCTTGCTTTCCTGTACTGACAGT
* * * * * * * *
29813401 GGAGCAAACTGAAGATAGTAAATTTTACCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACCA
257 GGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCA
* * * * * *
29813466 GCCTTGCCTTCTTGTATTGACAGCGGAGTAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGA
322 GCCTTGCCTTCTTATAATGACAGCGAAGTAGACTGAAGATAACAAATCTTGCATTCCTATACTGA
* * ** ** * **
29813531 GGTGAAGCAGATCGAAGACACCAGCTTTGCCTTCTTGTACTGACAGCGGAGCAGAT
387 AGCGAAGCAGATCGAAGACACCAGCTTTGCCAAC---TAAAGACAGCGAAAAAGAT
* *
29813587 TGAAGATAGCAGATCTTACCTTCCAGTACTGACGATGAAGCAGATCGAAGACACTAGCATTACCT
1 TGAAGATAACAGATCTTACCTTCCAGCACTGACGATGAAGCAGATCGAAGACACTAGCATTACCT
*
29813652 TCCTGTACTGACAACGGAGTAGATTAAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGC
66 TCCT-TACTGACAACGGAGTAGA-TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGC
* * * *
29813717 AGATCGAATACACCAACCTTGCCTTCCTGTACTGACAGCGGAGTAGACTGAAGATAGCAAATCTT
129 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT
** * *
29813782 GCCTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAATCTTGCCTTCCTGTACTGACAGTGA
194 GCCTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAGCCTTGCTTTCCTGTACTGACAGTGG
29813847 AGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGC
259 AGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGC
* * *
29813912 CTTGCCTT-TCTATAATGACAGCGAAGTATACTGAAGATAACATATCTTGCATTTCTATACTGAC
324 CTTGCCTTCT-TATAATGACAGCGAAGTAGACTGAAGATAACAAATCTTGCATTCCTATACTGA-
**
29813976 AGCGAAGCAGATCGAAGACACCATAG-TTTG-CAAC-AAAG-CAGTTAAAAAGAT
387 AGCGAAGCAGATCGAAGACACC--AGCTTTGCCAACTAAAGACAGCGAAAAAGAT
* * * ***
29814027 TGAAGCTCCAACAATGAATCTTA-CTTCCCTAAGCAGT-A-G-TGGAGCAGATCGAAGATGGT-G
1 TGAAGAT--AAC-A-G-ATCTTACCTT-CC--AGCACTGACGATGAAGCAGATCGAAGACACTAG
* * * * * *
29814087 -A--ATCTTATCTT-C--CCAA--GA-TAG-TGGAGA-AGCGGAT-TTAAGCCTTCCTATACTGA
58 CATTACCTT-CCTTACTGACAACGGAGTAGATGAAGATAGCAGATCTT--GCCTTCCTGTACTGA
* * * *
29814140 -AGTGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATA
120 CGGTGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATA
* * ** *
29814204 GTAGATCTTGCCTTCCGGTACTGACGATGAAGCAGATCGAAGACACTAGCCTTGCTTTCCTGTAC
185 GCAGATCTTGCCTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAGCCTTGCTTTCCTGTAC
* * * * * * *
29814269 TGACAGTGGAGCAGATTAAAAAAAGTAGATCTTGCCTTCTTGTACTGACAACGGAGCAGA
250 TGACAGTGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
29814329 ATGAAGATAG
Statistics
Matches: 627, Mismatches: 98, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
430 2 0.00
431 171 0.27
432 18 0.03
434 3 0.00
435 2 0.00
437 3 0.00
439 1 0.00
440 19 0.03
441 4 0.01
442 3 0.00
443 4 0.01
444 353 0.56
445 33 0.05
446 5 0.01
447 6 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (439 bp):
TGAAGATAACAGATCTTACCTTCCAGCACTGACGATGAAGCAGATCGAAGACACTAGCATTACCT
TCCTTACTGACAACGGAGTAGATGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAG
ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGC
CTTCCTGTACTGACGGCGAAGTAGATCGAAGACACTAGCCTTGCTTTCCTGTACTGACAGTGGAG
CAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCT
TGCCTTCTTATAATGACAGCGAAGTAGACTGAAGATAACAAATCTTGCATTCCTATACTGAAGCG
AAGCAGATCGAAGACACCAGCTTTGCCAACTAAAGACAGCGAAAAAGAT
Found at i:29814334 original size:134 final size:134
Alignment explanation
Indices: 29814169--29814723 Score: 492
Period size: 134 Copynumber: 4.2 Consensus size: 134
29814159 ACCAGCTTTG
* * * *
29814169 CCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGTAGATCTTGCCTTCCGGTACTGAC-GATG
1 CCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAG-CG
* * * *
29814233 AAGCAGATCGAAGACACTAGCCTTGCTTTCCTGTACTGACAGTGGAGCAGATTAAAAAAAGTAGA
65 AAGCAGATCGAAGACACTAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGAAAGTAGA
*
29814298 TCTTG
130 TCTTA
* * * * * * * *
29814303 CCTTCTTGTACTGACAACGGAGCAGAATGAAGATAGCAAATCTTGCCTTCCTATACTGACGGTGA
1 CCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGA
* * * * ** * *
29814368 AGCAGATCGAATACATTAGCTTTGCCTTCTTGTACTGACAGTAGAGCAGACTGAAGATAGCT-GA
66 AGCAGATCGAAGACACTAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGAAAG-TAGA
29814432 TCTTA
130 TCTTA
* * * * * *
29814437 CCTTCCTGTACTGACGGCGAAGCAGATTAAAGATACCAG-CCTTGCCTTCCTGTACTGACAGCGG
1 CCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGA
* * * *** * * * * *
29814501 AGTAGA-CTGAAGATAGCAAATTTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACTA-
66 AGCAGATC-GAAGACA-CTAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGAAAGTAG
*
29814564 ACCTTA
129 ATCTTA
* * *
29814570 CCTTCTTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGA
1 CCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGA
* * * * * * * * * *
29814635 AGC-GATCGAAAATACCAGCCTTGCCTTCCTATAATGACAGCGGAGCATACTGAAGATAGCAAAT
66 AGCAGATCGAAGACACTAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGAAAGTAGAT
*
29814699 CTTG
131 CTTA
* * *
29814703 CATTCCTATACTGACGGCGAA
1 CCTTCCTGTACTGACAGCGAA
29814724 ATAGATCGAA
Statistics
Matches: 331, Mismatches: 82, Indels: 17
0.77 0.19 0.04
Matches are distributed among these distances:
132 34 0.10
133 96 0.29
134 199 0.60
135 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (134 bp):
CCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGA
AGCAGATCGAAGACACTAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGAAAGTAGAT
CTTA
Found at i:29815324 original size:132 final size:132
Alignment explanation
Indices: 29814794--29815307 Score: 717
Period size: 132 Copynumber: 3.9 Consensus size: 132
29814784 GAATCTTACT
* * *
29814794 TCCCTAAGCAGTAATGTAGCACATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
* * * *
29814859 -GAATTTAAGTCATTAGTCCTATCTCCCTAAGCAGTAGTTGAGTGGGTTGACGATTGCAGATTCT
66 AG-ATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
29814923 GTC
130 GTC
* *
29814926 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATATTATCTTCCCAAGATAGTGGATAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
* * * *
29814991 AGATTTAAGCCATTAGTCATATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGGTCGCAGATTCTG
66 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTG
29815056 TC
131 TC
* * * *
29815058 TCCCGAAGTAGTAGTGGAGCAGATCGAAGATGGTTAATCTTATCTTCCCAATATAGTGGAGATA-
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGA-AG
* * * * *
29815122 CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTAAATATTGTAGATTCT
65 CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
29815187 GTC
130 GTC
*
29815190 TCCCTAAGCAGTATTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
* * * ** * *
29815255 ATATTTAAGCCATTATTCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAG
66 AGATTTAAGCCATTAGTCCTATCTCCCT-AAGCAGTAGTGGAGTAGGTTGAAG
29815308 CTGTTAATCC
Statistics
Matches: 334, Mismatches: 44, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.00
132 315 0.94
133 18 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTG
TC
Found at i:29817538 original size:70 final size:70
Alignment explanation
Indices: 29817400--29817539 Score: 190
Period size: 70 Copynumber: 2.0 Consensus size: 70
29817390 TATTTTCAAA
* * * * *
29817400 CTCAATTTTTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGGTCAT
1 CTCAAGTTTTAAACGATCTCGAGAAATAAAAAAAGATCGTGTCCTAACTTACTGGGCATGATCAT
29817465 TTTTT
66 TTTTT
* * ** *
29817470 CTCAAGTTTTAAACGATCTCGGGAAATAAAAAAAGATTGTGTCCTAACTTACTGGGTGTGATCCT
1 CTCAAGTTTTAAACGATCTCGAGAAATAAAAAAAGATCGTGTCCTAACTTACTGGGCATGATCAT
29817535 TTTTT
66 TTTTT
29817540 AAATCCGAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (70 bp):
CTCAAGTTTTAAACGATCTCGAGAAATAAAAAAAGATCGTGTCCTAACTTACTGGGCATGATCAT
TTTTT
Found at i:29819516 original size:16 final size:17
Alignment explanation
Indices: 29819495--29819526 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29819485 CTTATATAAA
29819495 ATTTTATAA-ATAATAC
1 ATTTTATAATATAATAC
29819511 ATTTTATAATATAATA
1 ATTTTATAATATAATA
29819527 TAATGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTATAATATAATAC
Found at i:29819525 original size:5 final size:5
Alignment explanation
Indices: 29819515--29819553 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
29819505 TAATACATTT
* * *
29819515 TATAA TATAA TATAA TGTAA TATTA TATTA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
29819554 TCATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (5 bp):
TATAA
Found at i:29819780 original size:15 final size:15
Alignment explanation
Indices: 29819760--29819794 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
29819750 GTTAATTAGC
29819760 TATTATTTTGAATAA
1 TATTATTTTGAATAA
*
29819775 TATTATTTTGCATAA
1 TATTATTTTGAATAA
29819790 -ATTAT
1 TATTAT
29819795 ATAAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (15 bp):
TATTATTTTGAATAA
Found at i:29819962 original size:20 final size:20
Alignment explanation
Indices: 29819937--29819974 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29819927 AAAATTAATA
29819937 AAATAAAA-AAATTGTAATTC
1 AAATAAAAGAAATT-TAATTC
29819957 AAATAAAAGAAATTTAAT
1 AAATAAAAGAAATTTAAT
29819975 AGTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAAAAGAAATTTAATTC
Found at i:29828913 original size:18 final size:18
Alignment explanation
Indices: 29828878--29828922 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
29828868 GCAATAATTG
*
29828878 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
29828896 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
29828914 AC-TTTTGAA
1 ACGTTTTGAA
29828923 TACGAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 17 0.68
19 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:29829827 original size:67 final size:67
Alignment explanation
Indices: 29829780--29829972 Score: 271
Period size: 67 Copynumber: 2.9 Consensus size: 67
29829770 ATCTTACTCT
* * * *
29829780 ATGTTTAATGTCCTGGCAGACTCTTTATGTTGCCATAGTCGAACTATGGTCTTACACATATTGTC
1 ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGTAGAACTATGGTCTTACACATCTTGTC
29829845 CC
66 CC
* * *
29829847 ATGTTTAATGTCCTAGCAGACTCTCTATGTTGTCATAGTAGAGCTATGGTTTTACACATCTTGTC
1 ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGTAGAACTATGGTCTTACACATCTTGTC
29829912 CC
66 CC
* ***
29829914 ATGTTTAATGTCTTGATGGACTCTCTATGTTGTCATAGTA-AAGCTATGGTCTTACACAT
1 ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGTAGAA-CTATGGTCTTACACAT
29829973 TATACCCCAT
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 1 0.01
67 110 0.99
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (67 bp):
ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGTAGAACTATGGTCTTACACATCTTGTC
CC
Found at i:29829982 original size:67 final size:66
Alignment explanation
Indices: 29829754--29829982 Score: 232
Period size: 67 Copynumber: 3.4 Consensus size: 66
29829744 ACCATAGCCT
* * * * * *
29829754 AGCTATGATCTTACGCATCTTACTCTATGTTTAATGTCCTG-GCAGACTCTTTATGTTGCCATAG
1 AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGAG--GACTCTCTATGTTGTCATAG
*
29829818 TCGA
64 T-AA
* **
29829822 A-CTATGGTCTTACACATATTGTCCCATGTTTAATGTCCT-AGCAGACTCTCTATGTTGTCATAG
1 AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGAG--GACTCTCTATGTTGTCATAG
*
29829885 TAG
64 TAA
* ** *
29829888 AGCTATGGTTTTACACATCTTGTCCCATGTTTAATGTCTTGATGGACTCTCTATGTTGTCATAGT
1 AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGA-GGACTCTCTATGTTGTCATAGT
29829953 AA
65 AA
29829955 AGCTATGGTCTTACACAT-TATACCCCAT
1 AGCTATGGTCTTACACATCT-TACCCCAT
29829983 TACAACCTAT
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
66 2 0.01
67 133 0.96
68 2 0.01
69 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (66 bp):
AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGAGGACTCTCTATGTTGTCATAGTA
A
Found at i:29832066 original size:228 final size:227
Alignment explanation
Indices: 29831832--29832317 Score: 608
Period size: 228 Copynumber: 2.1 Consensus size: 227
29831822 TATAATACAA
** *
29831832 CGCCGCTAAATATCAGCATTAGC-AGCGCTTT-TGTTTAAGCACCGCAATATATA-CAGACCAAA
1 CGCCGCTAAATAT-AGCATTAGCGA-CGCTTTAT-TAGAAGCACCGCAAGATATATCA-ACCAAA
* * * *
29831894 ACGCAGAGTTT-GGTATTGAGGTATA-TTAGAATTAGTGGCGCTTTATG-GAAACGCCGCAAAAG
62 ACGCAGAGTTTAGATATTGACGTATACTT-GAATTAGTGGCGCTTTACGCAAAACGCCGCAAAAG
* *
29831956 TATACTATTAGCGTCACTTTCTTAGAAGCGCCGCAAAATATATTAACGGAAACGCTGCGTTTAAA
126 TATACTATTAGCGGCACTTTCTTAGAAGCGCCGC--AATATATTAACCGAAACGCTGCGTTTAAA
* *
29832021 TCTTGATGTATAC-TGGAGTTAGTGGCGTTCAGGAGAAAT
189 TCTTGATGTAT-CGTGGAATTAGTGGCGTTCACGAGAAAT
** * * *
29832060 CGCCGCTAAATTATATTATTAGCGACGCTTTATTAGAAGCGCCGCAAGATATATTAACCTAAACG
1 CGCCGCTAAA-TATAGCATTAGCGACGCTTTATTAGAAGCACCGCAAGATATATCAACCAAAACG
* * * *
29832125 CTGCGTTTAGATCTTGACGTATACTTGAATTAGTGGCGCTTTCCGCAAAACGCCGCAAAAGTATA
65 CAGAGTTTAGATATTGACGTATACTTGAATTAGTGGCGCTTTACGCAAAACGCCGCAAAAGTATA
* *
29832190 CTATTAGCGGCGCTTTCTTATAAGCGCCGCAATATATTAACCGAAACGCTGCGTTTAAATCTTGA
130 CTATTAGCGGCACTTTCTTAGAAGCGCCGCAATATATTAACCGAAACGCTGCGTTTAAATCTTGA
29832255 TGTATCGTGGAATTAGTGGCGTTCACGAGAAAT
195 TGTATCGTGGAATTAGTGGCGTTCACGAGAAAT
** *
29832288 CGCCGCTAAATCATATTATTAGCGGCGCTT
1 CGCCGCTAAAT-ATAGCATTAGCGACGCTT
29832318 ATTTGTTAGC
Statistics
Matches: 226, Mismatches: 23, Indels: 18
0.85 0.09 0.07
Matches are distributed among these distances:
227 2 0.01
228 143 0.63
229 34 0.15
230 47 0.21
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (227 bp):
CGCCGCTAAATATAGCATTAGCGACGCTTTATTAGAAGCACCGCAAGATATATCAACCAAAACGC
AGAGTTTAGATATTGACGTATACTTGAATTAGTGGCGCTTTACGCAAAACGCCGCAAAAGTATAC
TATTAGCGGCACTTTCTTAGAAGCGCCGCAATATATTAACCGAAACGCTGCGTTTAAATCTTGAT
GTATCGTGGAATTAGTGGCGTTCACGAGAAAT
Found at i:29832080 original size:115 final size:114
Alignment explanation
Indices: 29831922--29832317 Score: 480
Period size: 115 Copynumber: 3.5 Consensus size: 114
29831912 AGGTATATTA
* * * *
29831922 GAATTAGTGGCGCTTTATG-GAAACGCCGCAAAAGTATACTATTAGCGTCACTTTCTTAGAAGCG
1 GAATTAGTGGCG-TTCAGGAGAAACGCCGCAAAAGTATACTATTAGCGACGCTTTCTTAGAAGCG
*
29831986 CCGCAAAATATATTAACGGAAACGCTGCGTTTAAATCTTGATGTATACTG
65 CCGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTG
* * * * *
29832036 GAGTTAGTGGCGTTCAGGAGAAATCGCCGCTAAATTATATTATTAGCGACGCTTTATTAGAAGCG
1 GAATTAGTGGCGTTCAGGAGAAA-CGCCGCAAAAGTATACTATTAGCGACGCTTTCTTAGAAGCG
* * * * *
29832101 CCGCAAGATATATTAACCTAAACGCTGCGTTTAGATCTTGACGTATACTT
65 CCGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTG
* * * *
29832151 GAATTAGTGGCGCTTTCCGCA-AAACGCCGCAAAAGTATACTATTAGCGGCGCTTTCTTATAAGC
1 GAATTAGTGGCG--TTCAGGAGAAACGCCGCAAAAGTATACTATTAGCGACGCTTTCTTAGAAGC
29832215 GCCGC--AATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTAT-CGTG
64 GCCGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATAC-TG
* * * *
29832264 GAATTAGTGGCGTTCACGAGAAATCGCCGCTAAA-TCATATTATTAGCGGCGCTT
1 GAATTAGTGGCGTTCAGGAGAAA-CGCCGCAAAAGT-ATACTATTAGCGACGCTT
29832318 ATTTGTTAGC
Statistics
Matches: 240, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
111 4 0.02
112 5 0.02
113 79 0.33
114 15 0.06
115 129 0.54
116 3 0.01
117 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (114 bp):
GAATTAGTGGCGTTCAGGAGAAACGCCGCAAAAGTATACTATTAGCGACGCTTTCTTAGAAGCGC
CGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTG
Found at i:29832710 original size:21 final size:20
Alignment explanation
Indices: 29832686--29832743 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
29832676 CGATTATGGT
*
29832686 GTTTGTGTTTAGGGTTTAAGA
1 GTTTGGGTTTAGGGTTT-AGA
* *
29832707 GTTTGAGGTTTAAGGTTTAGG
1 GTTTG-GGTTTAGGGTTTAGA
29832728 GTTTGGGGTTTAGGGT
1 GTTT-GGGTTTAGGGT
29832744 GCTTAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.45
Consensus pattern (20 bp):
GTTTGGGTTTAGGGTTTAGA
Found at i:29832730 original size:14 final size:14
Alignment explanation
Indices: 29832692--29832743 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
29832682 TGGTGTTTGT
29832692 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
29832706 AGTTT-GAGGTTTAAG
1 -GTTTAG-GGTTTAAG
**
29832721 GTTTAGGGTTTGGG
1 GTTTAGGGTTTAAG
29832735 GTTTAGGGT
1 GTTTAGGGT
29832744 GCTTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.42
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:29832743 original size:7 final size:7
Alignment explanation
Indices: 29832692--29832743 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
29832682 TGGTGTTTGT
29832692 GTTTAGG
1 GTTTAGG
*
29832699 GTTTAAGA
1 GTTT-AGG
29832707 GTTT-GAG
1 GTTTAG-G
*
29832714 GTTTAAG
1 GTTTAGG
29832721 GTTTAGG
1 GTTTAGG
*
29832728 GTTTGGG
1 GTTTAGG
29832735 GTTTAGG
1 GTTTAGG
29832742 GT
1 GT
29832744 GCTTAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
6 1 0.03
7 29 0.81
8 6 0.17
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:29833152 original size:16 final size:19
Alignment explanation
Indices: 29833112--29833146 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29833102 ATAATTTTAA
29833112 AATAATAATAAATTAATTG
1 AATAATAATAAATTAATTG
29833131 AATAAT-ATAAA-TAATT
1 AATAATAATAAATTAATT
29833147 TATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AATAATAATAAATTAATTG
Found at i:29833985 original size:45 final size:45
Alignment explanation
Indices: 29833925--29834015 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
29833915 TGTTGCGTCC
* *
29833925 TTCTTGCCCAATTTCTTGAATTCCCAAATCCGAAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCAAAATCGCCTCCT
* * * *
29833970 TTCTTGTCTAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCAAAATCGCCTCCT
29834015 T
1 T
29834016 CCTCCTTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.31, G:0.09, T:0.36
Consensus pattern (45 bp):
TTCTTGCCCAATTTCTTGAAATCCCAAATCCCAAAATCGCCTCCT
Done.