Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 112 of 163
Found at i:31476509 original size:12 final size:12
Alignment explanation
Indices: 31476492--31476517 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31476482 ATAAGATTTT
31476492 CCACCTAGCCAA
1 CCACCTAGCCAA
31476504 CCACCTAGCCAA
1 CCACCTAGCCAA
31476516 CC
1 CC
31476518 TGTCATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.54, G:0.08, T:0.08
Consensus pattern (12 bp):
CCACCTAGCCAA
Found at i:31485648 original size:21 final size:20
Alignment explanation
Indices: 31485620--31485658 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31485610 TTTTAGAGAA
*
31485620 GTTTAGGGTTAAAATGTGAT
1 GTTTAGGGTCAAAATGTGAT
31485640 GTTTGAGGGTCAAAATGTG
1 GTTT-AGGGTCAAAATGTG
31485659 TTATTAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.36
Consensus pattern (20 bp):
GTTTAGGGTCAAAATGTGAT
Found at i:31485669 original size:50 final size:49
Alignment explanation
Indices: 31485592--31485687 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 49
31485582 TTTTGAGAAA
31485592 GTTTGGGGTCAAATATGATTTTAGAGAAGTTTAGGGT-TAAAATGTGAT
1 GTTTGGGGTCAAATATGATTTTAGAGAAGTTTAGGGTGTAAAATGTGAT
* * *
31485640 GTTTGAGGGTCAAA-ATGTGTTATTAGAGAAGTTTGGGGTGTAGAATGT
1 GTTTG-GGGTCAAATATG-ATT-TTAGAGAAGTTTAGGGTGTAAAATGT
31485688 AATTTTAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 8 0.20
49 10 0.24
50 16 0.39
51 7 0.17
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.36
Consensus pattern (49 bp):
GTTTGGGGTCAAATATGATTTTAGAGAAGTTTAGGGTGTAAAATGTGAT
Found at i:31485696 original size:30 final size:30
Alignment explanation
Indices: 31485640--31485940 Score: 240
Period size: 30 Copynumber: 10.1 Consensus size: 30
31485630 AAAATGTGAT
* * * *
31485640 GTTTGAGGGTCAAAATGT-GTTATTAGAGAA
1 GTTTAAGGGTTAAAATGTAATT-TTAGAAAA
* *
31485670 GTTT-GGGGTGTAGAATGTAATTTTAGAAAA
1 GTTTAAGGGT-TAAAATGTAATTTTAGAAAA
* * * * *
31485700 GTTTTAA-GGTCAAAACGTGATTTTGGAGAA
1 G-TTTAAGGGTTAAAATGTAATTTTAGAAAA
* * * *
31485730 GTTTAAGGGTTAAAACGTGATTTTTGAGAA
1 GTTTAAGGGTTAAAATGTAATTTTAGAAAA
*
31485760 GTTTAAGGGTTAAAATGCAA-TTT-GTAAAA
1 GTTTAAGGGTTAAAATGTAATTTTAG-AAAA
* * *
31485789 GTTTAGGGGTCAAAATGTAATTTTGGAAAA
1 GTTTAAGGGTTAAAATGTAATTTTAGAAAA
* * *
31485819 GTTTTAGGGTTAAAATGAAATTTTGGAAAA
1 GTTTAAGGGTTAAAATGTAATTTTAGAAAA
*
31485849 GTTTAGGGGTTAAAATGTAATTTT-GAAAAA
1 GTTTAAGGGTTAAAATGTAATTTTAG-AAAA
* *
31485879 GTTTAAGGGTTAAAATGAAATTTTAGAGAA
1 GTTTAAGGGTTAAAATGTAATTTTAGAAAA
* * *
31485909 GTTCAA-GGTCAAAATATAATTTCT-GAAAA
1 GTTTAAGGGTTAAAATGTAATTT-TAGAAAA
31485938 GTT
1 GTT
31485941 CAGAGACCTA
Statistics
Matches: 224, Mismatches: 36, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.00
29 53 0.24
30 160 0.71
31 10 0.04
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (30 bp):
GTTTAAGGGTTAAAATGTAATTTTAGAAAA
Found at i:31485812 original size:89 final size:90
Alignment explanation
Indices: 31485683--31485916 Score: 267
Period size: 89 Copynumber: 2.6 Consensus size: 90
31485673 TGGGGTGTAG
* * *
31485683 AATGTAATTTT-AGAAAAGTTTTAA-GGTCAAAACGTGATTTTGGAGAAGTTTAAGGGTTAAAAC
1 AATGCAATTTTGA-AAAAG-TTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAAC
** * *
31485746 GTGATTTTTGAGAAGTTTAAGGGTTAA
64 GAAATTTTGGAAAAGTTTAAGGGTTAA
* * * * *
31485773 AATGCAA-TTTGTAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGA
1 AATGCAATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAACGA
*
31485837 AATTTTGGAAAAGTTTAGGGGTTAA
66 AATTTTGGAAAAGTTTAAGGGTTAA
* * * * *
31485862 AATGTAATTTTGAAAAAGTTTAAGGGTTAAAATGAAATTTTAGAGAAGTTCAAGG
1 AATGCAATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGG
31485917 TCAAAATATA
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
88 4 0.03
89 70 0.59
90 45 0.38
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.35
Consensus pattern (90 bp):
AATGCAATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAACGA
AATTTTGGAAAAGTTTAAGGGTTAA
Found at i:31485859 original size:119 final size:118
Alignment explanation
Indices: 31485683--31485940 Score: 315
Period size: 119 Copynumber: 2.2 Consensus size: 118
31485673 TGGGGTGTAG
** *
31485683 AATGTAATTTTAGAAAAGTTTTAAGGTCAAAACGTGATTTTGGAGAAGTTTAAGGGTTAAAACGT
1 AATGTAATTTT-GAAAAGTTTTAAGGTCAAAACGAAATTTTGGAAAAGTTTAAGGGTTAAAACGT
* * * * *
31485748 GATTTTTG-AGAAGTTTAAGGGTTAAAATGCAATTTGTA-A-AAGTTTAGGGGTCAA
65 -AATTTTGAAAAAGTTTAAGGGTTAAAATGAAATTT-TAGAGAAGTTCA-AGGTCAA
* * * * *
31485802 AATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGAAATTTTGGAAAAGTTTAGGGGTTAAAATGT
1 AATGTAATTTT-GAAAAGTTTTAAGGTCAAAACGAAATTTTGGAAAAGTTTAAGGGTTAAAACGT
31485867 AATTTTGAAAAAGTTTAAGGGTTAAAATGAAATTTTAGAGAAGTTCAAGGTCAA
65 AATTTTGAAAAAGTTTAAGGGTTAAAATGAAATTTTAGAGAAGTTCAAGGTCAA
*
31485921 AATATAATTTCTGAAAAGTT
1 AATGTAATTT-TGAAAAGTT
31485941 CAGAGACCTA
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
118 8 0.07
119 105 0.88
120 7 0.06
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (118 bp):
AATGTAATTTTGAAAAGTTTTAAGGTCAAAACGAAATTTTGGAAAAGTTTAAGGGTTAAAACGTA
ATTTTGAAAAAGTTTAAGGGTTAAAATGAAATTTTAGAGAAGTTCAAGGTCAA
Found at i:31490717 original size:19 final size:20
Alignment explanation
Indices: 31490693--31490745 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
31490683 TTTTGGTCAC
31490693 TCATTTTATATTTTT-AATT
1 TCATTTTATATTTTTAAATT
*
31490712 TCATTTAAT-TTTTTAAATT
1 TCATTTTATATTTTTAAATT
*
31490731 T-ACTTTTAAATTTTT
1 TCA-TTTTATATTTTT
31490746 CCAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
TCATTTTATATTTTTAAATT
Found at i:31494325 original size:11 final size:10
Alignment explanation
Indices: 31494305--31494336 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
31494295 TATTAAATGG
31494305 ATATTTAAAA
1 ATATTTAAAA
31494315 ATATTTAAAA
1 ATATTTAAAA
31494325 ATAATTTAAAA
1 AT-ATTTAAAA
31494336 A
1 A
31494337 GTGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:31495325 original size:21 final size:22
Alignment explanation
Indices: 31495300--31495349 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
31495290 TTAAAAAAAA
31495300 TTTATGAATT-TTTTT-AAATT
1 TTTATGAATTATTTTTAAAATT
*
31495320 TATTAT-ATTTATTTTTAAAATT
1 T-TTATGAATTATTTTTAAAATT
31495342 TTTATGAA
1 TTTATGAA
31495350 ATATACTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTATGAATTATTTTTAAAATT
Found at i:31495936 original size:21 final size:20
Alignment explanation
Indices: 31495911--31495963 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
31495901 TAAAAATGTG
31495911 ATTATTTGAAAATCATAAAAT
1 ATTATTT-AAAATCATAAAAT
*
31495932 ATTATCTACAAATCATAAAAT
1 ATTATTTA-AAATCATAAAAT
*
31495953 ATTTTTTAAAA
1 ATTATTTAAAA
31495964 AATTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTATTTAAAATCATAAAAT
Found at i:31495971 original size:22 final size:21
Alignment explanation
Indices: 31495919--31495973 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
31495909 TGATTATTTG
31495919 AAAATCATAAAATATTATCTA
1 AAAATCATAAAATATTATCTA
* * *
31495940 CAAATCATAAAATATTTTTTAA
1 AAAATCATAAAATATTATCT-A
*
31495962 AAAATTATAAAA
1 AAAATCATAAAA
31495974 GTTGCTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATCATAAAATATTATCTA
Found at i:31496214 original size:57 final size:57
Alignment explanation
Indices: 31496125--31496292 Score: 194
Period size: 57 Copynumber: 2.9 Consensus size: 57
31496115 CTTATATAAT
* * * *
31496125 ATTTGGTACCTGAATTTAACACTTTTTTCTAATTTGGTACCTAAATTTTTTTACTCA
1 ATTTGGTACATGAACTTGACACTTTTTTCTAATTTGGTACCTAAATTTTTTTACCCA
* * *
31496182 ATTTGGTACATGAACTTGACACTTTTTCCTAATTTAGTACCTAAACTTTTTTGAACCCA
1 ATTTGGTACATGAACTTGACACTTTTTTCTAATTTGGTACCTAAA-TTTTTT-TACCCA
* * * * *
31496241 ATTTTGTACTTGAACTTGGA-AGTTTTTTCTAATTTGATACCTAAGTTTTTTT
1 ATTTGGTACATGAACTT-GACACTTTTTTCTAATTTGGTACCTAAATTTTTTT
31496293 TAAATTCAAT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
57 40 0.43
58 12 0.13
59 39 0.42
60 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (57 bp):
ATTTGGTACATGAACTTGACACTTTTTTCTAATTTGGTACCTAAATTTTTTTACCCA
Found at i:31500669 original size:29 final size:30
Alignment explanation
Indices: 31500629--31500906 Score: 192
Period size: 29 Copynumber: 9.5 Consensus size: 30
31500619 ACCTGGGGGT
*
31500629 AAAATGGTAATTTTGGTGAAATCGGAGTTA
1 AAAATGGTAATTTTGGTGAAATCGGGGTTA
*
31500659 AAAATGG-AATTTT-G-GAAAGTTTAGGGG-T-
1 AAAATGGTAATTTTGGTGAAA---TCGGGGTTA
* *
31500687 AAAATGGTAATTTTGGTGAAATCGAGCTTA
1 AAAATGGTAATTTTGGTGAAATCGGGGTTA
* *
31500717 AAAATGG-AATTTTGG-GAAGTTCGGGGGT-
1 AAAATGGTAATTTTGGTGAA-ATCGGGGTTA
* **
31500745 AAAATGGTAATTTTTGATGAAATTAGGGTTA
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTA
* *
31500776 AAAATGG-AATTTTGG-CAAATTCGGGGGT-
1 AAAATGGTAATTTTGGTGAAA-TCGGGGTTA
* **
31500804 GAAATGGTAATTTTGGTGAAATAAGGGTTA
1 AAAATGGTAATTTTGGTGAAATCGGGGTTA
* * * *
31500834 AAAAT-GAAATTTTGG-GAAGTTTGGGGGT-
1 AAAATGGTAATTTTGGTGAA-ATCGGGGTTA
*
31500862 -AAATGGTAATTTTAGGTGAAATTGGGGTTA
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTA
*
31500892 AAAATGG-AATCTTGG
1 AAAATGGTAATTTTGG
31500907 AAAGTTTAGG
Statistics
Matches: 191, Mismatches: 34, Indels: 47
0.70 0.12 0.17
Matches are distributed among these distances:
27 8 0.04
28 40 0.21
29 77 0.40
30 46 0.24
31 20 0.10
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTA
Found at i:31500686 original size:58 final size:57
Alignment explanation
Indices: 31500622--31500932 Score: 403
Period size: 58 Copynumber: 5.4 Consensus size: 57
31500612 TTTGGATACC
*
31500622 TGGGGGTAAAATGGTAATTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTT
1 TGGGGGTAAAATGGTAATTTTGGTGAAATAGG-GTTAAAAATGGAATTTTGGAAAGTT
* * * *
31500680 TAGGGGTAAAATGGTAATTTTGGTGAAATCGAGCTTAAAAATGGAATTTTGGGAAGTT
1 TGGGGGTAAAATGGTAATTTTGGTGAAATAG-GGTTAAAAATGGAATTTTGGAAAGTT
* *
31500738 CGGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAAAAATGGAATTTTGGCAAA-TT
1 TGGGGGTAAAATGGTAA-TTTTGGTGAAA-TAGGGTTAAAAATGGAATTTTGG-AAAGTT
* * * *
31500797 CGGGGGTGAAATGGTAATTTTGGTGAAATAAGGGTTAAAAATGAAATTTTGGGAAGTT
1 TGGGGGTAAAATGGTAATTTTGGTGAAAT-AGGGTTAAAAATGGAATTTTGGAAAGTT
* *
31500855 TGGGGGT-AAATGGTAATTTTAGGTGAAATTGGGGTTAAAAATGGAATCTTGGAAAGTT
1 TGGGGGTAAAATGGTAATTTT-GGTGAAA-TAGGGTTAAAAATGGAATTTTGGAAAGTT
*
31500913 T-AGGGTAAAATGGTAATTTT
1 TGGGGGTAAAATGGTAATTTT
31500933 TGGAAGTTTT
Statistics
Matches: 225, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
57 20 0.09
58 152 0.68
59 49 0.22
60 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.33
Consensus pattern (57 bp):
TGGGGGTAAAATGGTAATTTTGGTGAAATAGGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:31500803 original size:117 final size:116
Alignment explanation
Indices: 31500623--31500932 Score: 425
Period size: 117 Copynumber: 2.7 Consensus size: 116
31500613 TTGGATACCT
*
31500623 GGGGGTAAAATGGTAA-TTTTGGTGAAA-TCGGAGTTAAAAATGGAATTTTGGAAAGTTTAGGGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTAGG-GTTAAAAATGGAATTTTGGAAAG-TTAGGGG
* *
31500686 TAAAATGGTAATTTTGGTGAAAT-CGAGCTTAAAAATGGAATTTTGGGAAGTTC
64 TAAAATGGTAATTTTGGTGAAATAAG-GCTTAAAAATGAAATTTTGGGAAGTTC
* *
31500739 GGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAAAAATGGAATTTTGGCAAA-TTCGGGGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGG-AAAGTT-AGGGG
* * *
31500803 TGAAATGGTAATTTTGGTGAAATAAGGGTTAAAAATGAAATTTTGGGAAGTTT
64 TAAAATGGTAATTTTGGTGAAATAAGGCTTAAAAATGAAATTTTGGGAAGTTC
* * *
31500856 GGGGGT-AAATGGTAATTTTAGGTGAAATTGGGGTTAAAAATGGAATCTTGGAAAGTTTA-GGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAG-TTAGGGGT
31500919 AAAATGGTAATTTT
65 AAAATGGTAATTTT
31500933 TGGAAGTTTT
Statistics
Matches: 173, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
115 20 0.12
116 59 0.34
117 87 0.50
118 7 0.04
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (116 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTAGGGGTA
AAATGGTAATTTTGGTGAAATAAGGCTTAAAAATGAAATTTTGGGAAGTTC
Found at i:31500808 original size:28 final size:28
Alignment explanation
Indices: 31500623--31500937 Score: 150
Period size: 29 Copynumber: 10.9 Consensus size: 28
31500613 TTGGATACCT
31500623 GGGGGTAAAATGGTAATTTTGGTGAAA-TC
1 GGGGGTAAAATGGTAATTTT-G-GAAATTC
* * *
31500652 GGAGTTAAAAATGG-AATTTTGGAAAGTTT
1 GGGGGT-AAAATGGTAATTTTGGAAA-TTC
*
31500681 AGGGGTAAAATGGTAATTTTGGTGAAA-TC
1 GGGGGTAAAATGGTAATTTT-G-GAAATTC
* ** *
31500710 GAGCTTAAAAATGG-AATTTTGGGAAGTTC
1 GGGGGT-AAAATGGTAATTTT-GGAAATTC
31500739 GGGGGTAAAATGGTAATTTTTGATGAAATT-
1 GGGGGTAAAATGGTAA-TTTTG--GAAATTC
* *
31500769 AGGGTTAAAAATGG-AATTTTGGCAAATTC
1 GGGGGT-AAAATGGTAATTTTGG-AAATTC
* *
31500798 GGGGGTGAAATGGTAATTTTGGTGAAA-TA
1 GGGGGTAAAATGGTAATTTT-G-GAAATTC
* * * * *
31500827 AGGGTTAAAAAT-GAAATTTTGGGAAGTTT
1 GGGGGT-AAAATGGTAATTTT-GGAAATTC
31500856 GGGGGT-AAATGGTAATTTTAGGTGAAATT-
1 GGGGGTAAAATGGTAATTTT--G-GAAATTC
* *
31500885 GGGGTTAAAAATGG-AATCTTGGAAAGTT-
1 GGGGGT-AAAATGGTAATTTTGGAAA-TTC
**
31500913 TAGGGTAAAATGGTAATTTTTGGAA
1 GGGGGTAAAATGGTAA-TTTTGGAA
31500938 GTTTTAGGGT
Statistics
Matches: 220, Mismatches: 38, Indels: 56
0.70 0.12 0.18
Matches are distributed among these distances:
27 20 0.09
28 47 0.21
29 87 0.40
30 43 0.20
31 23 0.10
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (28 bp):
GGGGGTAAAATGGTAATTTTGGAAATTC
Found at i:31500918 original size:29 final size:31
Alignment explanation
Indices: 31500886--31500959 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 31
31500876 GGTGAAATTG
31500886 GGGTTAAAAATGG-AA-TCTTGGAAAG-TTTA
1 GGGTTAAAAATGGTAATTCTTGG-AAGTTTTA
*
31500915 GGG-T-AAAATGGTAATTTTTGGAAGTTTTA
1 GGGTTAAAAATGGTAATTCTTGGAAGTTTTA
*
31500944 GGG-TCAAAAT-GTAATT
1 GGGTTAAAAATGGTAATT
31500960 TCCTAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 7 0.17
28 6 0.15
29 22 0.55
30 5 0.12
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (31 bp):
GGGTTAAAAATGGTAATTCTTGGAAGTTTTA
Found at i:31500960 original size:29 final size:29
Alignment explanation
Indices: 31500903--31500994 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
31500893 AAATGGAATC
31500903 TTGGAAAG-TTTAGGGT-AAAATGGTAATTT
1 TTGG-AAGTTTTAGGGTCAAAAT-GTAATTT
31500932 TTGGAAGTTTTAGGGTCAAAATGTAATTT
1 TTGGAAGTTTTAGGGTCAAAATGTAATTT
* * * *
31500961 CCT-AAAATTTTAGGGTCAAAATGCAATTT
1 -TTGGAAGTTTTAGGGTCAAAATGTAATTT
31500990 TTGGA
1 TTGGA
31500995 CTATTTGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.08
29 43 0.81
30 6 0.11
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (29 bp):
TTGGAAGTTTTAGGGTCAAAATGTAATTT
Found at i:31502962 original size:6 final size:6
Alignment explanation
Indices: 31502953--31503041 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
31502943 ACAAATAATA
* * *
31502953 TTAAAT TTAAA- TTAAAT TCAAAC TT-AAC TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
31502997 CTAAAT TTAAA- TTAAA- TTAATAT TTAAA- ATAAAT TTAATT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAA
31503042 GTAAATTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.06
5 23 0.34
6 36 0.54
7 4 0.06
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:31502969 original size:5 final size:5
Alignment explanation
Indices: 31502952--31503036 Score: 64
Period size: 5 Copynumber: 15.6 Consensus size: 5
31502942 TACAAATAAT
*
31502952 ATTAA ATTTAA ATTAA ATTCAA ACTTAA CTTAA ATTTAA A-TAA ATCTAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA AT-TAA
* *
31503001 ATTTAA ATTAA ATTAA TATTTAA AATAA ATTTA ATT
1 A-TTAA ATTAA ATTAA -A-TTAA ATTAA ATTAA ATT
31503037 TTAAAGTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
4 4 0.06
5 30 0.45
6 25 0.38
7 7 0.11
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (5 bp):
ATTAA
Found at i:31503021 original size:17 final size:16
Alignment explanation
Indices: 31502953--31503048 Score: 95
Period size: 17 Copynumber: 5.8 Consensus size: 16
31502943 ACAAATAATA
31502953 TTAAATTTAAATTAAAT
1 TTAAA-TTAAATTAAAT
* *
31502970 TCAAACTTAACTTAAAT
1 TTAAA-TTAAATTAAAT
31502987 TTAAA-TAAATCTAAAT
1 TTAAATTAAAT-TAAAT
31503003 TTAAATTAAATTAATAT
1 TTAAATTAAATTAA-AT
* *
31503020 TTAAAATAAATTTAATT
1 TTAAATTAAA-TTAAAT
*
31503037 TTAAAGTAAATT
1 TTAAATTAAATT
31503049 TTAAAACGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
15 4 0.06
16 15 0.22
17 44 0.66
18 4 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATTAAATTAAAT
Found at i:31503030 original size:44 final size:44
Alignment explanation
Indices: 31502936--31503034 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
31502926 TTGGACATTT
**
31502936 TAAATTTACAAATAATATTAAATTTAAATTAAATTCAAACTTAACT
1 TAAATTT--AAATAATATTAAATTTAAATTAAATTCAAACTTAAAA
*
31502982 TAAATTTAAATAA-ATCTAAATTTAAATTAAATT-AATATTTAAAA
1 TAAATTTAAATAATAT-TAAATTTAAATTAAATTCAA-ACTTAAAA
31503026 TAAATTTAA
1 TAAATTTAA
31503035 TTTTAAAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
43 4 0.08
44 37 0.77
46 7 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (44 bp):
TAAATTTAAATAATATTAAATTTAAATTAAATTCAAACTTAAAA
Found at i:31503466 original size:91 final size:89
Alignment explanation
Indices: 31503312--31503565 Score: 418
Period size: 91 Copynumber: 2.8 Consensus size: 89
31503302 CGAGGTTTCG
* *
31503312 TCTTGCTCTTACTTCAATTTCAGAGAGGAATGATTTGATATCCAGCTCTACTTCAATTTCAAGAG
1 TCTTGCTCTTACTTCAATTTCAGAG-GGAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
31503377 GATAGGAAAAGATGTTGGTGCTTCA
65 GATAGGAAAAGATGTTGGTGCTTCA
* *
31503402 TCTTGCTCTTACTTCAATTTCAGAGGGGCAAAGGCTTGATATCTAGCTCTACTTCAATTTCAAGA
1 TCTTGCTCTTACTTCAATTTCAGA-GGG-AAAGACTTGATATCCAGCTCTACTTCAATTTCAAGA
31503467 GGATAGGAAAAGATGTTGGTGCTTCA
64 GGATAGGAAAAGATGTTGGTGCTTCA
** *
31503493 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGGGAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGG
31503558 ATAGGAAA
66 ATAGGAAA
31503566 TGATCTTACT
Statistics
Matches: 153, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
89 43 0.28
90 27 0.18
91 83 0.54
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (89 bp):
TCTTGCTCTTACTTCAATTTCAGAGGGAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGG
ATAGGAAAAGATGTTGGTGCTTCA
Found at i:31503552 original size:38 final size:37
Alignment explanation
Indices: 31503497--31503749 Score: 196
Period size: 38 Copynumber: 6.7 Consensus size: 37
31503487 GCTTCATCTT
**
31503497 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCA
1 GCTCTTACTTCAATTTCAGAGAT-AAGAAATG-TATCCA
* *
31503536 GCT-TTACTTCAATTTCAAGAGGATAGGAAATG-ATCTTA
1 GCTCTTACTTCAATTTC-AGA-GATAAGAAATGTATC-CA
**
31503574 -CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCA
1 GCTCTTACTTCAATTTCAGAGAT-AAGAAATG-TATCCA
* * **
31503612 GC-CCTACTTCAATTTCAAGAGGATAGGAAATG-ATCTT
1 GCTCTTACTTCAATTTC-AGA-GATAAGAAATGTATCCA
**
31503649 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
1 GCTCTTACTTCAATTTCAGAGAT-AAGAAATG-TATCCA
* * **
31503688 ACTC-TACTTCAATTTCAAGAGGATAGGAAATG-ATCTT
1 GCTCTTACTTCAATTTC-AGA-GATAAGAAATGTATCCA
31503725 GCTCTTACTTCAATTTCAGAGATAA
1 GCTCTTACTTCAATTTCAGAGATAA
31503750 AGGCTTTTCC
Statistics
Matches: 169, Mismatches: 28, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
36 10 0.06
37 35 0.21
38 78 0.46
39 37 0.22
40 9 0.05
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (37 bp):
GCTCTTACTTCAATTTCAGAGATAAGAAATGTATCCA
Found at i:31503620 original size:76 final size:76
Alignment explanation
Indices: 31503492--31503751 Score: 466
Period size: 76 Copynumber: 3.4 Consensus size: 76
31503482 TTGGTGCTTC
* *
31503492 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAG
31503557 GATAGGAAATG
66 GATAGGAAATG
* * *
31503568 ATCTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAGCCCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAG
31503633 GATAGGAAATG
66 GATAGGAAATG
*
31503644 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAG
31503709 GATAGGAAATG
66 GATAGGAAATG
31503720 ATCTTGCTCTTACTTCAATTTCAGAGATAAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAG
31503752 GCTTTTCCCT
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 175 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:31503874 original size:50 final size:50
Alignment explanation
Indices: 31503820--31503972 Score: 123
Period size: 50 Copynumber: 3.1 Consensus size: 50
31503810 CCTTCCATGC
31503820 TTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCTTTTGTGT
1 TTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCTTTTGTGT
* * ** * * * * ** *
31503870 TTTTGCGGTACTA-GATCCACCATTGCAGTCTTAGATCTTTCCC-GTCATGC
1 TTTTGAGGTAC-ACGGTCTGCCATTG-TGACTTAGACCTTTCCCTTTTGTGT
* * * *
31503920 TTCTGAGGTGCACGGTCTGCCATTGTGACTTAAACCTCT-CCTTGTTGTGT
1 TTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCTT-TTGTGT
31503970 TTT
1 TTT
31503973 GTGGTGCTGA
Statistics
Matches: 71, Mismatches: 27, Indels: 10
0.66 0.25 0.09
Matches are distributed among these distances:
48 2 0.03
49 10 0.14
50 44 0.62
51 15 0.21
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (50 bp):
TTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCTTTTGTGT
Found at i:31503968 original size:100 final size:101
Alignment explanation
Indices: 31503757--31503972 Score: 292
Period size: 100 Copynumber: 2.1 Consensus size: 101
31503747 TAAAGGCTTT
* * *** * * *
31503757 TCCCTTTTGTCTTTTTGCGGTACTGGATCTGTCGTTGCGGTCCTAGATCTTTCCCTTCCATGCTT
1 TCCCTTTTGTGTTTTTGCGGTACTAGATCCACCATTGCAGTCCTAGATCTTTCCCGTCCATGCTT
* * *
31503822 TTGAGGTACACGGTCTGCCATTGTGACTTAGACCTT
66 CTGAGGTACACGGTCTGCCATTGTGACTTAAACCTC
*
31503858 TCCCTTTTGTGTTTTTGCGGTACTAGATCCACCATTGCAGTCTTAGATCTTTCCCGT-CATGCTT
1 TCCCTTTTGTGTTTTTGCGGTACTAGATCCACCATTGCAGTCCTAGATCTTTCCCGTCCATGCTT
*
31503922 CTGAGGTGCACGGTCTGCCATTGTGACTTAAACCTC
66 CTGAGGTACACGGTCTGCCATTGTGACTTAAACCTC
31503958 T-CCTTGTTGTGTTTT
1 TCCCTT-TTGTGTTTT
31503973 GTGGTGCTGA
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 4 0.04
100 49 0.49
101 48 0.48
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.41
Consensus pattern (101 bp):
TCCCTTTTGTGTTTTTGCGGTACTAGATCCACCATTGCAGTCCTAGATCTTTCCCGTCCATGCTT
CTGAGGTACACGGTCTGCCATTGTGACTTAAACCTC
Found at i:31516038 original size:31 final size:31
Alignment explanation
Indices: 31515947--31516039 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 31
31515937 TGGAAGTTTA
*
31515947 GGGGTAAAATGGTAATTTTTGGTGAAAT--TG
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGG
* *
31515977 GGGTTAAAAATGG-AATTTTGG-GAAGTTCGGG
1 GGGGT-AAAATGGTAATTTTGGTGAA-ATCGGG
*
31516008 GGGGTGAAATGGTAATTTTGGTGAAATCGGG
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGG
31516039 G
1 G
31516040 TAAAAATGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
28 3 0.06
29 7 0.14
30 12 0.24
31 26 0.51
32 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.31
Consensus pattern (31 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGG
Found at i:31516051 original size:59 final size:57
Alignment explanation
Indices: 31515889--31516082 Score: 221
Period size: 59 Copynumber: 3.4 Consensus size: 57
31515879 TTGGATACCT
* * * * * *
31515889 AGGGGCAAAATGGTAATTTTAGTAAAATCAAGGTTAAAAATGGAATTTT-GGAAGTTT
1 AGGGGTAAAATGGTAATTTTGGTGAAATC-GGGGTAAAAATGGAATTTTGGGAAGTTG
*
31515946 AGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGGAAGTTCGG
1 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGG-TAAAAATGGAATTTTGGGAAGTT--G
* * * * *
31516007 GGGGGTGAAATGGTAATTTTGGTGAAATCGGGGTAAAAATGGAATCTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGGAAGTTG
31516064 A-GGGTAAAATGGTAATTTT
1 AGGGGTAAAATGGTAATTTT
31516083 TTGGAAGTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
56 17 0.15
57 17 0.15
58 25 0.21
59 28 0.24
60 16 0.14
61 14 0.12
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.32
Consensus pattern (57 bp):
AGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGGAAGTTG
Found at i:31516112 original size:29 final size:30
Alignment explanation
Indices: 31516053--31516112 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
31516043 AAATGGAATC
31516053 TTGGAAAGTTTAGGGTAAAATGGTAATTTT
1 TTGGAAAGTTTAGGGTAAAATGGTAATTTT
*
31516083 TTGG-AAGTTTCGAGGTCAAAAT-GTAATTTT
1 TTGGAAAGTTTAG-GGT-AAAATGGTAATTTT
31516113 CTAAAGGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 7 0.26
30 15 0.56
31 5 0.19
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (30 bp):
TTGGAAAGTTTAGGGTAAAATGGTAATTTT
Found at i:31518074 original size:6 final size:6
Alignment explanation
Indices: 31518065--31518153 Score: 75
Period size: 6 Copynumber: 15.8 Consensus size: 6
31518055 ACAAATAATA
* *
31518065 TTAAAT TTAAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
31518109 CTAAAT TTAAA- TTAAA- TTAAGAT TTAAA- ATAAAT TTAATT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAA
31518154 GTAAATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
4 4 0.06
5 23 0.34
6 37 0.54
7 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:31518080 original size:11 final size:11
Alignment explanation
Indices: 31518065--31518146 Score: 80
Period size: 11 Copynumber: 7.4 Consensus size: 11
31518055 ACAAATAATA
31518065 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
31518076 TTAAATTCAAAC
1 TTAAATT-AAAT
31518088 TTAAATTAAAT
1 TTAAATTAAAT
31518099 TTAAA-TAAAT
1 TTAAATTAAAT
*
31518109 CTAAATTTAAA-
1 TTAAA-TTAAAT
31518120 TTAAATTAAGAT
1 TTAAATTAA-AT
*
31518132 TTAAAATAAAT
1 TTAAATTAAAT
31518143 TTAA
1 TTAA
31518147 TTTTAAAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
10 15 0.25
11 27 0.44
12 19 0.31
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:31518081 original size:5 final size:5
Alignment explanation
Indices: 31518064--31518148 Score: 73
Period size: 5 Copynumber: 15.6 Consensus size: 5
31518054 TACAAATAAT
31518064 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTTAA A-TAA ATCTAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA AT-TAA
* *
31518113 ATTTAA ATTAA ATTAA GATTTAA AATAA ATTTA ATT
1 A-TTAA ATTAA ATTAA -A-TTAA ATTAA ATTAA ATT
31518149 TTAAAGTAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
4 4 0.06
5 31 0.46
6 26 0.38
7 7 0.10
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:31518093 original size:17 final size:16
Alignment explanation
Indices: 31518065--31518160 Score: 104
Period size: 17 Copynumber: 5.8 Consensus size: 16
31518055 ACAAATAATA
31518065 TTAAATTTAAATTAAAT
1 TTAAA-TTAAATTAAAT
*
31518082 TCAAACTTAAATTAAAT
1 TTAAA-TTAAATTAAAT
31518099 TTAAA-TAAATCTAAAT
1 TTAAATTAAAT-TAAAT
31518115 TTAAATTAAATTAAGAT
1 TTAAATTAAATTAA-AT
* *
31518132 TTAAAATAAATTTAATT
1 TTAAATTAAA-TTAAAT
*
31518149 TTAAAGTAAATT
1 TTAAATTAAATT
31518161 TTAAAACGGT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.07
16 15 0.22
17 45 0.65
18 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAATTAAATTAAAT
Found at i:31518114 original size:44 final size:44
Alignment explanation
Indices: 31518047--31518146 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 44
31518037 ATTGGACATT
31518047 TTAAATTTACAAATAATATTAAATTTAAATTAAATTCAA-ACTTAAA
1 TTAAATTT--AAATAATATTAAATTTAAATTAAATT-AAGACTTAAA
*
31518093 TTAAATTTAAATAA-ATCTAAATTTAAATTAAATTAAGATTTAAA
1 TTAAATTTAAATAATAT-TAAATTTAAATTAAATTAAGACTTAAA
*
31518137 ATAAATTTAA
1 TTAAATTTAA
31518147 TTTTAAAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
43 4 0.08
44 38 0.76
46 8 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (44 bp):
TTAAATTTAAATAATATTAAATTTAAATTAAATTAAGACTTAAA
Found at i:31519748 original size:18 final size:17
Alignment explanation
Indices: 31519725--31519767 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
31519715 TAACAAGTTC
31519725 TTAATTTTTAATTTTTT
1 TTAATTTTTAATTTTTT
*
31519742 TTGAATTTTTTATTTTTT
1 TT-AATTTTTAATTTTTT
31519760 TTAATTTT
1 TTAATTTT
31519768 CTCTTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
TTAATTTTTAATTTTTT
Found at i:31519774 original size:17 final size:18
Alignment explanation
Indices: 31519735--31519775 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
31519725 TTAATTTTTA
*
31519735 ATTTTTTTTGAATTTTTT
1 ATTTTTTTTGAATTTTCT
31519753 ATTTTTTTT-AATTTTCT
1 ATTTTTTTTGAATTTTCT
*
31519770 CTTTTT
1 ATTTTT
31519776 CATTGTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (18 bp):
ATTTTTTTTGAATTTTCT
Found at i:31519807 original size:2 final size:2
Alignment explanation
Indices: 31519802--31519845 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
31519792 TAAAAAAAGC
31519802 AT AT AT AT -T AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31519842 AT AT
1 AT AT
31519846 TAAAAAAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:31519820 original size:15 final size:15
Alignment explanation
Indices: 31519802--31519845 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
31519792 TAAAAAAAGC
31519802 ATATATATTATATAT
1 ATATATATTATATAT
31519817 ATATATATTATATAT
1 ATATATATTATATAT
31519832 ATATATA-TATATAT
1 ATATATATTATATAT
31519846 TAAAAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATATTATATAT
Found at i:31519875 original size:18 final size:19
Alignment explanation
Indices: 31519854--31519890 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
31519844 ATTAAAAAAG
31519854 GAAAATATTT-TAT-TTTTT
1 GAAAAT-TTTCTATATTTTT
31519872 GAAAATTTTCTATATTTTT
1 GAAAATTTTCTATATTTTT
31519891 TCTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 9 0.53
19 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
GAAAATTTTCTATATTTTT
Found at i:31528769 original size:802 final size:802
Alignment explanation
Indices: 31527225--31528825 Score: 2807
Period size: 802 Copynumber: 2.0 Consensus size: 802
31527215 ATTACAAATA
31527225 GGTATTTGTAAAGAGTCTTGGTTGGATGAAAATGGGTCCAAAGATGTTAGAGAATTGTTGGAAAG
1 GGTATTTGTAAAGAGTCTTGGTTGGATGAAAATGGGTCCAAAGATGTTAGAGAATTGTTGGAAAG
*
31527290 ATCCAAATGCCTCAAACTTTTCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTG
66 ATCCAAATACCTCAAACTTTTCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTG
31527355 AAAGGTCAAGATCTTCTAAGCTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAG
131 AAAGGTCAAGATCTTCTAAGCTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAG
* *
31527420 TATCCCAACAACAAACTACTCAGCATTGGAAAGGAGGAATTTACATCATCAAATGGAAACTGATT
196 TATCCCAACAACAAACTACTCAACATTGGAAAGGAGGAATTTACATCATCAAAAGGAAACTGATT
31527485 TGGAATATCAATTGCATTGGAAGAAAGGTCTACCCATGTAAGAGTGCTCTTCCACAACCAATTTG
261 TGGAATATCAATTGCATTGGAAGAAAGGTCTACCCATGTAAGAGTGCTCTTCCACAACCAATTTG
31527550 GAACAAGACCCTGGATTCGATTATTAGAAAGCTATAGGGAAGTCAACTTGTTTTGGCTTTTGATG
326 GAACAAGACCCTGGATTCGATTATTAGAAAGCTATAGGGAAGTCAACTTGTTTTGGCTTTTGATG
*
31527615 AATTCTGGAAATTCAGTAAGGTTGCATGAGCTTAGGCCTAGATACTCTAATTGGGGAAAAGTACG
391 AATTCTGGAAATTCAGTAAGGTTGCATGAGCTTAGGCATAGATACTCTAATTGGGGAAAAGTACG
** *
31527680 GCTTTTGTTGTGGCTTCCAATTAACAAGCTCGTGTTGGATAGGTCGAGAAACGTTAAGTTGTTGA
456 GCTTTTGTTGTGGCTTCCAATTAACAAGCTCGTGTTGGATAGGTCGAGAAACGTTAAAATGCTGA
*
31527745 GTTGGAAAAACATGTCAAGCTTTAATTGGGGATCACTAAAGCTGTTGAATCCAAGCAAGAGGGTT
521 GTTGGAAAAACATGTCAAGCTTTAATTGGGGATCACTAAAGCTGTTGAATCCAAGAAAGAGGGTT
* * *
31527810 TGCAATGTTGAAAGAGTAAATAAAGAAGAAGGTATTGATCTAGAAAGTTGGTTCCATGACAAATC
586 TGCAATGTTGAAAGAGTAAATAAAGAAGAAGGTATTGATCCAGAAAGCTGGTTCCATAACAAATC
*
31527875 AAGATATTCAAGATTTGGAACTCCAGATCTATGAAATGGAGGGATCAAACCATTGAAATTGTTAT
651 AAGATATGCAAGATTTGGAACTCCAGATCTATGAAATGGAGGGATCAAACCATTGAAATTGTTAT
* * * *
31527940 CCGATAAATCCAATTCCACGAGGTTACTGGGATTTGTGATTGATGGTGGAATGGATCCGGAAATG
716 CCGATAAATCCAATTCCACGAGGTTACTGAGATTTGCGATTCATGGTGGAATGGATCCGGAAAGG
** *
31528005 TGGTTCCATGACAAATCAATTT
781 TGGTTAAATGAAAAATCAATTT
31528027 GGTATTTGTAAAGAGTCTTGGTTGGATGAAAATGGGTCCAAAGATGTTAGAGAATTGTTGGAAAG
1 GGTATTTGTAAAGAGTCTTGGTTGGATGAAAATGGGTCCAAAGATGTTAGAGAATTGTTGGAAAG
*
31528092 ATCCAAATACCTCAAACTTTTCTTCCACACCCAATTTGGTACTGCCCCGCTTATTTGGTTATTTG
66 ATCCAAATACCTCAAACTTTTCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTG
31528157 AAAGGTCAAGATCTTCTAAGCTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAG
131 AAAGGTCAAGATCTTCTAAGCTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAG
* * * * *
31528222 TGTCCCAACCACAACCTTCTCAACATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATT
196 TATCCCAACAACAAACTACTCAACATTGGAAAGGAGGAATTTACATCATCAAAAGGAAACTGATT
31528287 TGGAATATCAATTGCATTGGAAGAAAGGTCTACCCATGTAAGAGTGCTCTTCCACAACCAATTTG
261 TGGAATATCAATTGCATTGGAAGAAAGGTCTACCCATGTAAGAGTGCTCTTCCACAACCAATTTG
* * *
31528352 GAACAAGACGCTGGATTCGATTGTTAGAAAGCTGTAGGGAAGTCAACTTGTTTTGGCTTTTGATG
326 GAACAAGACCCTGGATTCGATTATTAGAAAGCTATAGGGAAGTCAACTTGTTTTGGCTTTTGATG
*
31528417 AATTCTGGAAATTCAGTAAGGTTGCATGAGCTTAGG-ATGAGATTCTCTAATTGGGGAAAAGTAC
391 AATTCTGGAAATTCAGTAAGGTTGCATGAGCTTAGGCAT-AGATACTCTAATTGGGGAAAAGTAC
* *
31528481 GGCTTTTGTTGTGGCTTCCAATTAACAAGCTCGTGTTGGATAGGTGGAGATACGTTAAAATGCTG
455 GGCTTTTGTTGTGGCTTCCAATTAACAAGCTCGTGTTGGATAGGTCGAGAAACGTTAAAATGCTG
*
31528546 AGTTGGAAAAACATGTCAAGCTTTAATTGGGGATCACTAAAGCTGTTGTATCCAAGAAAGAGGGT
520 AGTTGGAAAAACATGTCAAGCTTTAATTGGGGATCACTAAAGCTGTTGAATCCAAGAAAGAGGGT
31528611 TTGCAATGTTGAAAGAGTAAATAAAGAAGAAGGTATTGATCCAGAAAGCTGGTTCCCA-AAC-AA
585 TTGCAATGTTGAAAGAGTAAATAAAGAAGAAGGTATTGATCCAGAAAGCTGGTT-CCATAACAAA
* *
31528674 TCTAAGATATGCAAGATTTGGAATTCCAGATCTATGTAATGGAGGGATCAAACCATTGAAATTGT
649 TC-AAGATATGCAAGATTTGGAACTCCAGATCTATGAAATGGAGGGATCAAACCATTGAAATTGT
*
31528739 TA-CC-ACTTAGATCCAATTCCACGAGGTTACTGAGATTTGCGATTCATGGTGGAATGGATCCGG
713 TATCCGA--TAAATCCAATTCCACGAGGTTACTGAGATTTGCGATTCATGGTGGAATGGATCCGG
31528802 AAAGGTGGTTAAATGAAAAATCAA
776 AAAGGTGGTTAAATGAAAAATCAA
31528826 GATATGCAAG
Statistics
Matches: 759, Mismatches: 35, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
800 1 0.00
801 7 0.01
802 748 0.99
803 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (802 bp):
GGTATTTGTAAAGAGTCTTGGTTGGATGAAAATGGGTCCAAAGATGTTAGAGAATTGTTGGAAAG
ATCCAAATACCTCAAACTTTTCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTG
AAAGGTCAAGATCTTCTAAGCTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAG
TATCCCAACAACAAACTACTCAACATTGGAAAGGAGGAATTTACATCATCAAAAGGAAACTGATT
TGGAATATCAATTGCATTGGAAGAAAGGTCTACCCATGTAAGAGTGCTCTTCCACAACCAATTTG
GAACAAGACCCTGGATTCGATTATTAGAAAGCTATAGGGAAGTCAACTTGTTTTGGCTTTTGATG
AATTCTGGAAATTCAGTAAGGTTGCATGAGCTTAGGCATAGATACTCTAATTGGGGAAAAGTACG
GCTTTTGTTGTGGCTTCCAATTAACAAGCTCGTGTTGGATAGGTCGAGAAACGTTAAAATGCTGA
GTTGGAAAAACATGTCAAGCTTTAATTGGGGATCACTAAAGCTGTTGAATCCAAGAAAGAGGGTT
TGCAATGTTGAAAGAGTAAATAAAGAAGAAGGTATTGATCCAGAAAGCTGGTTCCATAACAAATC
AAGATATGCAAGATTTGGAACTCCAGATCTATGAAATGGAGGGATCAAACCATTGAAATTGTTAT
CCGATAAATCCAATTCCACGAGGTTACTGAGATTTGCGATTCATGGTGGAATGGATCCGGAAAGG
TGGTTAAATGAAAAATCAATTT
Found at i:31531015 original size:30 final size:29
Alignment explanation
Indices: 31530971--31531050 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
31530961 AAATTTTAAA
31530971 TTAATAAA-AATAAAATTATACTTTAATCTC
1 TTAA-AAATAATAAAATTATACTTTAAT-TC
* *
31531001 TTAAAAATAATAAAAATT-TAATTTAATTT
1 TTAAAAATAAT-AAAATTATACTTTAATTC
* *
31531030 TTAAAAATTATAAAAATATAC
1 TTAAAAATAATAAAATTATAC
31531051 ATTATTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 5 0.12
29 16 0.38
30 15 0.36
31 6 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
TTAAAAATAATAAAATTATACTTTAATTC
Found at i:31531043 original size:29 final size:31
Alignment explanation
Indices: 31530982--31531046 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
31530972 TAATAAAAAT
*
31530982 AAAATTATACTTTAATCTCTTAAAAATAATA
1 AAAATTATAATTTAATCTCTTAAAAATAATA
* *
31531013 AAAATT-TAATTTAAT-TTTTAAAAATTATA
1 AAAATTATAATTTAATCTCTTAAAAATAATA
31531042 AAAAT
1 AAAAT
31531047 ATACATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 17 0.55
30 8 0.26
31 6 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAATTATAATTTAATCTCTTAAAAATAATA
Found at i:31532019 original size:35 final size:35
Alignment explanation
Indices: 31531973--31532057 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 35
31531963 AATCAACTCA
*
31531973 AAAAATGTTGGGATAGACCCGTCTAAAGAAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAAGAAACCTT
* *
31532008 AAAAAGGTTGGGATAGACCCGTCTAAGGAAAGCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAAGAAACCTT
31532043 AAAAAGGTTGGGATA
1 AAAAAGGTTGGGATA
31532058 AACCTTGTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCCGTCTAAAGAAACCTT
Found at i:31533561 original size:6 final size:6
Alignment explanation
Indices: 31533523--31533560 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
31533513 ACCAAACCTT
* *
31533523 ATCTTG ATCTTG ATCTTG ATCTTT ATCTTG ATGTTG AT
1 ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG AT
31533561 GGACATCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (6 bp):
ATCTTG
Found at i:31538734 original size:18 final size:18
Alignment explanation
Indices: 31538684--31538735 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
31538674 ATACCAAACC
* *
31538684 TTATCTTGATTTTCATCT
1 TTATCTTGATCTTGATCT
** *
31538702 TGGTCTTGGTCTTGATCT
1 TTATCTTGATCTTGATCT
*
31538720 TTATCTTGATGTTGAT
1 TTATCTTGATCTTGAT
31538736 AGACATCCAT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.56
Consensus pattern (18 bp):
TTATCTTGATCTTGATCT
Found at i:31545147 original size:30 final size:30
Alignment explanation
Indices: 31545108--31545535 Score: 474
Period size: 30 Copynumber: 14.3 Consensus size: 30
31545098 ATTTTTGAAA
* *
31545108 TACATTTTAACCCCCAAGCTTTTCTAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
* *
31545138 TATATTTTAACCCTTAAACTTTTCTAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
31545168 TACATTTTAACCCCTAAACTTTTCTAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
31545198 TACATTTTAACCCCTTAAACTTCTTC-AAAAT
1 TACATTTTAACCCC-TAAACTT-TTCTAAAAT
* * *
31545229 TACCTTTTAACCTCTAAACTTTTCCAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
* * *
31545259 CACATTATGACCCCTAAAC-TTTCTCAAAAT
1 TACATTTTAACCCCTAAACTTTTCT-AAAAT
*
31545289 TACATTTTGACCCCTAAAC-TTTCTCAAAAT
1 TACATTTTAACCCCTAAACTTTTCT-AAAAT
* * *
31545319 TACATTTTGACCCCTAAACTTCTCCAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
*
31545349 TACATTTTAACCCCTAAAC-TTCCATAAAAT
1 TACATTTTAACCCCTAAACTTTTC-TAAAAT
* * *
31545379 CACAATTTAACCCCTAAACTTTCCTAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
* * * *
31545409 CACATTTTAA-CCATAAACTTTTCCAAAAC
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
* * * * * *
31545438 CATAATTTAATCCTTAAACTTTCCTAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
*
31545468 AACATTTTAA-CCCTAAACTTTTCTAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
* *
31545497 TACATTTTAACCTC-AAACTTTTCCAAAAT
1 TACATTTTAACCCCTAAACTTTTCTAAAAT
*
31545526 TACGTTTTAA
1 TACATTTTAA
31545536 TCTAGAATTC
Statistics
Matches: 345, Mismatches: 44, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
29 81 0.23
30 230 0.67
31 31 0.09
32 3 0.01
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.37
Consensus pattern (30 bp):
TACATTTTAACCCCTAAACTTTTCTAAAAT
Found at i:31547479 original size:19 final size:19
Alignment explanation
Indices: 31547443--31547480 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31547433 GTAATAATCA
**
31547443 CAAGTTTAAAAGTTAAAAG
1 CAAGTTTAAAAGGAAAAAG
31547462 CAAGTTTAAAAGGAAAAAG
1 CAAGTTTAAAAGGAAAAAG
31547481 AAAACCAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.21
Consensus pattern (19 bp):
CAAGTTTAAAAGGAAAAAG
Found at i:31547966 original size:23 final size:22
Alignment explanation
Indices: 31547935--31548018 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 22
31547925 TCAAACAACC
31547935 AAAACAGCAGCAAAAATAATAAA
1 AAAACAGCA-CAAAAATAATAAA
* *
31547958 AAAATAGCAACAAAAATAACAATA
1 AAAACAGC-ACAAAAATAATAA-A
* * *
31547982 AAAACATCACCAAAATAGTAAA
1 AAAACAGCACAAAAATAATAAA
*
31548004 AAAATAGCATCAAAA
1 AAAACAGCA-CAAAA
31548019 CAACAACCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
22 8 0.17
23 32 0.67
24 8 0.17
ACGTcount: A:0.68, C:0.14, G:0.06, T:0.12
Consensus pattern (22 bp):
AAAACAGCACAAAAATAATAAA
Found at i:31548046 original size:18 final size:18
Alignment explanation
Indices: 31548023--31548079 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 18
31548013 TCAAAACAAC
31548023 AACCAAAACAATAAAAAA
1 AACCAAAACAATAAAAAA
*
31548041 AACCAAAACAGTAAAAACACA
1 AACCAAAACAAT-AAAA-A-A
31548062 ACACCAAAACAA-AAAAAA
1 A-ACCAAAACAATAAAAAA
31548080 TAGCAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 5 0.15
21 2 0.06
22 9 0.27
ACGTcount: A:0.74, C:0.21, G:0.02, T:0.04
Consensus pattern (18 bp):
AACCAAAACAATAAAAAA
Found at i:31548099 original size:22 final size:22
Alignment explanation
Indices: 31548015--31548102 Score: 80
Period size: 21 Copynumber: 4.2 Consensus size: 22
31548005 AAATAGCATC
*
31548015 AAAACAACAACCAAAAC--AAT
1 AAAACAACAACCAAAACAGAAA
31548035 AAAA-AA-AACCAAAACAGTAAA
1 AAAACAACAACCAAAACAG-AAA
*
31548056 AACACAAC-ACCAAAACA-AAA
1 AAAACAACAACCAAAACAGAAA
* *
31548076 AAAATAGCAACCAAAACAGCAAA
1 AAAACAACAACCAAAACAG-AAA
31548099 AAAA
1 AAAA
31548103 TATCACCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.16
19 2 0.04
20 12 0.22
21 14 0.25
22 11 0.20
23 7 0.13
ACGTcount: A:0.72, C:0.22, G:0.03, T:0.03
Consensus pattern (22 bp):
AAAACAACAACCAAAACAGAAA
Found at i:31548110 original size:22 final size:21
Alignment explanation
Indices: 31548015--31548113 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
31548005 AAATAGCATC
* *
31548015 AAAACAACAACCAAAACA-ATA
1 AAAATAAC-ACCAAAACAGAAA
31548036 AAAA-AA-ACCAAAACAGTAAA
1 AAAATAACACCAAAACAG-AAA
* *
31548056 AACACAACACCAAAACA-AAA
1 AAAATAACACCAAAACAGAAA
*
31548076 AAAATAGCAACCAAAACAGCAAA
1 AAAATAAC-ACCAAAACAG-AAA
*
31548099 AAAATATCACCAAAA
1 AAAATAACACCAAAA
31548114 TAATAATATA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
18 9 0.14
20 15 0.23
21 15 0.23
22 16 0.25
23 10 0.15
ACGTcount: A:0.70, C:0.22, G:0.03, T:0.05
Consensus pattern (21 bp):
AAAATAACACCAAAACAGAAA
Found at i:31548110 original size:43 final size:40
Alignment explanation
Indices: 31548015--31548113 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 40
31548005 AAATAGCATC
* *
31548015 AAAACAACAACCAAAACAATAAAAAAAACCAAAACAGTAAA
1 AAAACAAC-ACCAAAACAAAAAAAAAAACCAAAACAGCAAA
*
31548056 AACACAACACCAAAACAAAAAAAATAGCAACCAAAACAGCAAA
1 AAAACAACACCAAAACAAAAAAAA-A--AACCAAAACAGCAAA
* *
31548099 AAAATATCACCAAAA
1 AAAACAACACCAAAA
31548114 TAATAATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 15 0.31
41 8 0.16
43 26 0.53
ACGTcount: A:0.70, C:0.22, G:0.03, T:0.05
Consensus pattern (40 bp):
AAAACAACACCAAAACAAAAAAAAAAACCAAAACAGCAAA
Found at i:31550454 original size:23 final size:22
Alignment explanation
Indices: 31550428--31550499 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 22
31550418 TATTTAAATT
31550428 TATTTCAAATATATAATATTATA
1 TATTT-AAATATATAATATTATA
* *
31550451 TATTTAAATCTACAATAGTTATA
1 TATTTAAATATATAATA-TTATA
*
31550474 T-TTTATAATATCTAATATATATA
1 TATTTA-AATATATAATAT-TATA
31550497 TAT
1 TAT
31550500 ATATTCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
22 15 0.38
23 24 0.60
24 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (22 bp):
TATTTAAATATATAATATTATA
Found at i:31551624 original size:23 final size:24
Alignment explanation
Indices: 31551592--31551637 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
31551582 TGCAACCCCC
*
31551592 AACCCTACACACC-ATCTCCATCT
1 AACCCAACACACCAATCTCCATCT
*
31551615 AACCCAACACACCAATGTCCATC
1 AACCCAACACACCAATCTCCATC
31551638 CATATTATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.46, G:0.02, T:0.17
Consensus pattern (24 bp):
AACCCAACACACCAATCTCCATCT
Found at i:31552801 original size:30 final size:30
Alignment explanation
Indices: 31552734--31552939 Score: 165
Period size: 30 Copynumber: 7.0 Consensus size: 30
31552724 CGGAGAATTT
* * *
31552734 GGGGTTAAAATATAA-TTTTGTAAAAATTTA
1 GGGGTTAAAATGTAATTTTTG-GAAAGTTTA
* * *
31552764 --GG-TAAAATGTGATCTTTGGATAGTTTA
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
* *
31552791 GGGGTTAAAATGCAATTTTTGGAAAGTTCA
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
* * * *
31552821 -AGGAT-AAATCTAAATTTTTGGAAAGTTTT
1 GGGGTTAAAATGT-AATTTTTGGAAAGTTTA
*
31552850 GGGGTTAAAATGTAATTTTTTGAAAAGTTTA
1 GGGGTTAAAATGTAA-TTTTTGGAAAGTTTA
* ** *
31552881 GGGATT-AAATCCAAATTTTTGGAATGTTTA
1 GGGGTTAAAAT-GTAATTTTTGGAAAGTTTA
*
31552911 GGGGTTAAAATGTGATTTTTGGAAAGTTT
1 GGGGTTAAAATGTAATTTTTGGAAAGTTT
31552940 TGAGACCTAC
Statistics
Matches: 134, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
27 14 0.10
28 10 0.07
29 20 0.15
30 61 0.46
31 29 0.22
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTTGGAAAGTTTA
Found at i:31552915 original size:61 final size:59
Alignment explanation
Indices: 31552778--31552939 Score: 218
Period size: 61 Copynumber: 2.7 Consensus size: 59
31552768 AAATGTGATC
* * *
31552778 TTTGG-ATAGTTTAGGGGTTAAAATGCAATTTTTGGAAAGTTCAAGGATAAATCTAAATT
1 TTTGGAAT-GTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGATAAATCCAAATT
* * * *
31552837 TTTGGAAAGTTTTGGGGTTAAAATGTAATTTTTTGAAAAGTTTAGGGATTAAATCCAAATT
1 TTTGGAATGTTTAGGGGTTAAAATGTAA-TTTTTGGAAAGTTTAAGGA-TAAATCCAAATT
*
31552898 TTTGGAATGTTTAGGGGTTAAAATGTGATTTTTGGAAAGTTT
1 TTTGGAATGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTT
31552940 TGAGACCTAC
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
59 23 0.26
60 30 0.34
61 36 0.40
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (59 bp):
TTTGGAATGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGATAAATCCAAATT
Found at i:31554738 original size:48 final size:48
Alignment explanation
Indices: 31554667--31554806 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
31554657 ATTGAACTTC
**
31554667 GCTTCATTGATTTGATTTACTTCTCTGTATCTCATCAGGAAGATAACT
1 GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATAACT
* * * **
31554715 GCTTCATTGATTTAATCCACTTCTCTATATCTCATAAGGAAGATGGCT
1 GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATAACT
* * * *
31554763 GCTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGAT
1 GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGAT
31554807 GTGATTTGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (48 bp):
GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATAACT
Found at i:31554872 original size:171 final size:172
Alignment explanation
Indices: 31554561--31554928 Score: 442
Period size: 171 Copynumber: 2.1 Consensus size: 172
31554551 CTCTTGGTTT
* *
31554561 ACTTCTCTGTATCTCATCAA-GAAGATTACCGCTTTATCGCTTCGACCCACTTCTCTGTATCTCA
1 ACTTCTCTATATCTCAT-AAGGAAGATGACCGCTTTATCGCTTCGACCCACTTCTCTGTATCTCA
* * * * *
31554625 TCGAAAAGATAGGGGTTTGAAGTTTCCCTCGCATTGAACTTCGCTTCATTGATTTGATTTACTTC
65 TCGAAAAGATAGGGATTTGAAGTCTCACTCGCATTGAACTTCGCTTCATTAATTTGATCTACTTC
* **
31554690 TCTGTATCTCATCAGGAAGATAA-CTGCTTCATTGATTT-AATCC
130 TCTGTATCTCATCAAGAAGATAATC-GCCCCATT-ATTTCAATCC
* * * * *
31554733 ACTTCTCTATATCTCATAAGGAAGATGGCTGCTTTATTGCTTTGACCCACTTCTTTGTATCTCAT
1 ACTTCTCTATATCTCATAAGGAAGATGACCGCTTTATCGCTTCGACCCACTTCTCTGTATCTCAT
* * * * * *
31554798 C-AGGAAGAT-GTGATTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTAATTTGGTCTACTTC
66 CGA-AAAGATAGGGATTTGAAGTCTCACTCGCATTGAACTTCGCTTCATTAATTTGATCTACTTC
*
31554861 TCTGTATCTCATCAAGAAGATGATCGCCCCATTATTTCAATCC
130 TCTGTATCTCATCAAGAAGATAATCGCCCCATTATTTCAATCC
*
31554904 ACTTCTCTGA-ATCTCATCAGGAAGA
1 ACTTCTCT-ATATCTCATAAGGAAGA
31554929 CGGATTTGGT
Statistics
Matches: 168, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
170 4 0.02
171 101 0.60
172 63 0.38
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (172 bp):
ACTTCTCTATATCTCATAAGGAAGATGACCGCTTTATCGCTTCGACCCACTTCTCTGTATCTCAT
CGAAAAGATAGGGATTTGAAGTCTCACTCGCATTGAACTTCGCTTCATTAATTTGATCTACTTCT
CTGTATCTCATCAAGAAGATAATCGCCCCATTATTTCAATCC
Found at i:31555079 original size:42 final size:41
Alignment explanation
Indices: 31555020--31555173 Score: 197
Period size: 42 Copynumber: 3.8 Consensus size: 41
31555010 AAGATGACTT
31555020 CAATCTGCCTCATGATCGGGGTAAGAGATTGAATGATGGCTG
1 CAATCTGCCTCATGATCGGGGTAAGAGATTG-ATGATGGCTG
* *
31555062 CAATCTGCCTCATGATCGGGATAAGAGATTG--GATGGCTT
1 CAATCTGCCTCATGATCGGGGTAAGAGATTGATGATGGCTG
* * *
31555101 CAATCTGCCCCATGATC-GGGTAACAGATTGGATGATGACTG
1 CAATCTGCCTCATGATCGGGGTAAGAGATT-GATGATGGCTG
* *
31555142 CAATTTGCCTCATGATTAGGGGTAAGAGATTG
1 CAATCTGCCTCATGA-TCGGGGTAAGAGATTG
31555174 GTGTCTTCAA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 10 0.10
39 24 0.25
41 19 0.20
42 32 0.33
43 11 0.11
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (41 bp):
CAATCTGCCTCATGATCGGGGTAAGAGATTGATGATGGCTG
Found at i:31555151 original size:80 final size:82
Alignment explanation
Indices: 31555012--31555191 Score: 249
Period size: 80 Copynumber: 2.2 Consensus size: 82
31555002 TCATCAGGAA
* * *
31555012 GATGACTTCAATCTGCCTCATGATCGGGGTAAGAGATTGAATGATGGCTGCAATCTGCCTCATGA
1 GATGACTTCAATCTGCCCCATGATCGGGGTAACAGATTGAATGATGACTGCAATCTGCCTCATGA
*
31555077 -TCGGGATAAGAGATTG
66 TTAGGGATAAGAGATTG
* * *
31555093 GATGGCTTCAATCTGCCCCATGATC-GGGTAACAGATTGGATGATGACTGCAATTTGCCTCATGA
1 GATGACTTCAATCTGCCCCATGATCGGGGTAACAGATTGAATGATGACTGCAATCTGCCTCATGA
*
31555157 TTAGGGGTAAGAGATTG
66 TTAGGGATAAGAGATTG
* *
31555174 G-TGTCTTCAATCTACCCC
1 GATGACTTCAATCTGCCCC
31555192 TTTTGATTAG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 50 0.57
81 38 0.43
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (82 bp):
GATGACTTCAATCTGCCCCATGATCGGGGTAACAGATTGAATGATGACTGCAATCTGCCTCATGA
TTAGGGATAAGAGATTG
Found at i:31555207 original size:41 final size:41
Alignment explanation
Indices: 31555154--31555504 Score: 402
Period size: 41 Copynumber: 8.6 Consensus size: 41
31555144 ATTTGCCTCA
* ** *
31555154 TGATTAGGGGTAAGAGATTGGTGTCTTCAATCTACCCCTTT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
* * * * *
31555195 TGATTAGGGGTAAAAGACTAGAATCTTTAATCTACCCCTCT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
*
31555236 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCTCTTT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
* * ** *
31555277 TGATTAGGAGTAAAAGATTGGACTCTTCAAT-TTTCCCTAT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
* * *
31555317 TGATTAAGGGTAAAAGATTGGATTCTTCAATCTGCCTCTTT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
* ** * *
31555358 TGATTAGGGGTAAGAGATTAAAATCTTCAATCTGCCTCTCT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
* * * *
31555399 TGATTAGGGGTAAAAGACTGGAAT-TTACAATTTCCCCCTCT
1 TGATTAGGGGTAAAAGATTGGAATCTT-CAATCTGCCCCTTT
* *
31555440 TGATTAGGGGTAAAAGACTGGAATCTTCAATCTGTCCCTCTT
1 TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCT-TT
31555482 T-ATTAGGGGTAAAAGATTGGAAT
1 TGATTAGGGGTAAAAGATTGGAAT
31555505 GATATAGTTT
Statistics
Matches: 262, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 35 0.13
41 223 0.85
42 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (41 bp):
TGATTAGGGGTAAAAGATTGGAATCTTCAATCTGCCCCTTT
Found at i:31555337 original size:163 final size:164
Alignment explanation
Indices: 31555154--31555502 Score: 470
Period size: 163 Copynumber: 2.1 Consensus size: 164
31555144 ATTTGCCTCA
* *
31555154 TGATTAGGGGTAAGAGATTGG-TGTCTTCAATCTACCCCTTTTGATTAGGGGTAAAAGACTAGAA
1 TGATTAGGGGTAAAAGATTGGAT-TCTTCAATCTACCCCTTTTGATTAGGGGTAAAAGACTAAAA
* * * * *
31555218 TCTTTAATCTACCCCTCTTGATTAGGGGTAAAAGATTGGAATCTT-CAATCTGCCTCTTTTGATT
65 TCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGACTGGAAT-TTACAATCTCCCCCTCTTGATT
* * *
31555282 AGGAGTAAAAGATTGGACTCTTCAAT-TTTCCCTAT
129 AGGAGTAAAAGACTGGAATCTTCAATCTGTCCCTAT
* * * * *
31555317 TGATTAAGGGTAAAAGATTGGATTCTTCAATCTGCCTCTTTTGATTAGGGGTAAGAGATTAAAAT
1 TGATTAGGGGTAAAAGATTGGATTCTTCAATCTACCCCTTTTGATTAGGGGTAAAAGACTAAAAT
* * *
31555382 CTTCAATCTGCCTCTCTTGATTAGGGGTAAAAGACTGGAATTTACAATTTCCCCCTCTTGATTAG
66 CTTCAATCTACCCCTCTTGATTAGGGGTAAAAGACTGGAATTTACAATCTCCCCCTCTTGATTAG
* *
31555447 GGGTAAAAGACTGGAATCTTCAATCTGTCCCTCT
131 GAGTAAAAGACTGGAATCTTCAATCTGTCCCTAT
*
31555481 TTATTAGGGGTAAAAGATTGGA
1 TGATTAGGGGTAAAAGATTGGA
31555503 ATGATATAGT
Statistics
Matches: 161, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
162 2 0.01
163 131 0.81
164 28 0.17
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (164 bp):
TGATTAGGGGTAAAAGATTGGATTCTTCAATCTACCCCTTTTGATTAGGGGTAAAAGACTAAAAT
CTTCAATCTACCCCTCTTGATTAGGGGTAAAAGACTGGAATTTACAATCTCCCCCTCTTGATTAG
GAGTAAAAGACTGGAATCTTCAATCTGTCCCTAT
Found at i:31556073 original size:99 final size:99
Alignment explanation
Indices: 31555755--31556569 Score: 373
Period size: 98 Copynumber: 8.3 Consensus size: 99
31555745 AGATTTGTCT
* * * * ** * *
31555755 TTGCGACCTCAACCTTTTCCTTCA-A-CTCTTCATGGTATCGGGTTCGCCATTGCAGG-CTCAAC
1 TTGCGGCCTCAACCTTTCCCATCATATCT-TTCAAGGTATCAAGTTCGCCGTTAC-GGCCTCAAC
* * * * ** *
31555817 CTTTCTCATCACAT-TTCATGGAATCGAATTTGCCA
64 CTTTCCCATCAAATCTTCATGGTATAGGGTTCGCCA
* * * * * * * *
31555852 TTACGGCCCCAATCC-TCCCCATCACATCTTTTAAGGTA-CCAGATTCGTCGTTACGACCTCAAC
1 TTGCGGCCTCAA-CCTTTCCCATCATATCTTTCAAGGTATCAAG-TTCGCCGTTACGGCCTCAAC
* * * **
31555915 CTTTCTCATCACAT-TTCATGGTACT-GGATTCGTTA
64 CTTTCCCATCAAATCTTCATGGTA-TAGGGTTCGCCA
** * ** *
31555950 TTGCGGTATCAATCC-TTCCCATCATATCTTTTAAGGTA-CTAAGTTCGCCGTTGTGGTCTCAAC
1 TTGCGGCCTCAA-CCTTTCCCATCATATCTTTCAAGGTATC-AAGTTCGCCGTTACGGCCTCAAC
** *
31556013 CTTTCCTTTCAAATCTTCATGGTATAGGGTTCGCCG
64 CTTTCCCATCAAATCTTCATGGTATAGGGTTCGCCA
* * * * *
31556049 TTGCGGCTTCAACTTTTCCCATCATA--TTTCATGGTATCAAATTCGCCGTTACGGCCTCAATCT
1 TTGCGGCCTCAACCTTTCCCATCATATCTTTCAAGGTATCAAGTTCGCCGTTACGGCCTCAACCT
* * * *
31556112 TTCCCATCACATCTT-TTGAGGTATCGGGTTCGTCA
66 TTCCCATCAAATCTTCAT--GGTATAGGGTTCGCCA
* * * ** * * ** * * *
31556147 TTACGACCTTAACCTTTCCTTTCAAATC-TTCATGGTATCGGGTTCGCCGTTGCTGCCTCAACTT
1 TTGCGGCCTCAACCTTTCCCATCATATCTTTCAAGGTATCAAGTTCGCCGTTACGGCCTCAACCT
* * * *
31556211 TTCCCATCACAT-TTCATGCTACCA-GATTCGCCA
66 TTCCCATCAAATCTTCATGGTA-TAGGGTTCGCCA
* * *** *
31556244 TTGCGGCCTCAATCC-TTCCCATCACATCTTTTAAGGTATTGGGTTTGCCGTTACGGCCTCAACC
1 TTGCGGCCTCAA-CCTTTCCCATCATATCTTTCAAGGTATCAAGTTCGCCGTTACGGCCTCAACC
** * *
31556308 TTTCCTTTCAAATCTTCATGGTATCGAGTTCGCCA
65 TTTCCCATCAAATCTTCATGGTATAGGGTTCGCCA
* * * * * * *
31556343 TTGCGGCCTCAACCTTTCCCATCACA--TTTCATGGTACCGACTTCACCGTTGA-GGTCTCAATC
1 TTGCGGCCTCAACCTTTCCCATCATATCTTTCAAGGTATCAAGTTCGCCGTT-ACGGCCTCAA-C
* * * * *
31556405 C-TTCCCATCACATCTTTTAAGGTACCA-GGTTCGTCA
64 CTTTCCCATCAAATC-TTCATGGTA-TAGGGTTCGCCA
* * * * * ** * * * *
31556441 TTGCAGCCTCAACATTTCCCTTTATATC-TTCATGGTATCGGGTTCGTCTTTGCGACCTCAACCT
1 TTGCGGCCTCAACCTTTCCCATCATATCTTTCAAGGTATCAAGTTCGCCGTTACGGCCTCAACCT
** * * * *
31556505 TTCCTGTCACATCTTTTAAGGTACTA-GGTTCACCA
66 TTCCCATCAAATC-TTCATGGTA-TAGGGTTCGCCA
* * *
31556540 TTGCAGCCTCAACCTTTCTCTTCATATCTT
1 TTGCGGCCTCAACCTTTCCCATCATATCTT
31556570 CATGTTTTCT
Statistics
Matches: 549, Mismatches: 138, Indels: 59
0.74 0.18 0.08
Matches are distributed among these distances:
96 1 0.00
97 120 0.22
98 228 0.42
99 199 0.36
100 1 0.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (99 bp):
TTGCGGCCTCAACCTTTCCCATCATATCTTTCAAGGTATCAAGTTCGCCGTTACGGCCTCAACCT
TTCCCATCAAATCTTCATGGTATAGGGTTCGCCA
Found at i:31556303 original size:98 final size:97
Alignment explanation
Indices: 31555788--31556369 Score: 408
Period size: 98 Copynumber: 5.9 Consensus size: 97
31555778 AACTCTTCAT
* * * * * *
31555788 GGTATCGGGTTCGCCATTGCAGG-CTCAACCTTTCTCATCACAT-TTCATGGAATCGAATTTGCC
1 GGTATCAGGTTCGCCGTTAC-GGCCTCAACCTTTCCCATCACATCTTCATGGTATCG-ATTCGCC
* * *
31555851 ATTACGGCCCCAATCCTCCCCATCACATCTTTTAA
64 ATTGCGGCCTCAA-CCTTCCCATCACATCTTTTAA
* * * * * * **
31555886 GGTACCAGATTCGTCGTTACGACCTCAACCTTTCTCATCACAT-TTCATGGTACTGGATTCGTTA
1 GGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCATGGTA-TCGATTCGCCA
** *
31555950 TTGCGGTATCAATCCTTCCCATCATATCTTTTAA
65 TTGCGGCCTCAA-CCTTCCCATCACATCTTTTAA
* ** * ** * * *
31555984 GGTA-CTAAGTTCGCCGTTGTGGTCTCAACCTTTCCTTTCAAATCTTCATGGTATAGGGTTCGCC
1 GGTATC-AGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCATGGTAT-CGATTCGCC
* * * * * *
31556048 GTTGCGGCTTCAACTTTTCCCAT--CATATTTCAT
64 ATTGCGGCCTCAAC-CTTCCCATCACATCTTTTAA
** * * * *
31556081 GGTATCAAATTCGCCGTTACGGCCTCAATCTTTCCCATCACATCTT-TTGAGGTATCGGGTTCGT
1 GGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCAT--GGTATC-GATTCGC
* * * ** * * *
31556145 CATTACGACCTTAACCTTTCCTTTCAAATC-TTCAT
63 CATTGCGGCCTCAACC-TTCCCATCACATCTTTTAA
* * * * * *
31556180 GGTATCGGGTTCGCCGTTGCTGCCTCAACTTTTCCCATCACAT-TTCATGCTACCAGATTCGCCA
1 GGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCATGGTATC-GATTCGCCA
31556244 TTGCGGCCTCAATCCTTCCCATCACATCTTTTAA
65 TTGCGGCCTCAA-CCTTCCCATCACATCTTTTAA
** * ** *
31556278 GGTATTGGGTTTGCCGTTACGGCCTCAACCTTTCCTTTCAAATCTTCATGGTATCGAGTTCGCCA
1 GGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCATGGTATCGA-TTCGCCA
31556343 TTGCGGCCTCAACCTTTCCCATCACAT
65 TTGCGGCCTCAACC-TTCCCATCACAT
31556370 TTCATGGTAC
Statistics
Matches: 373, Mismatches: 92, Indels: 37
0.74 0.18 0.07
Matches are distributed among these distances:
96 1 0.00
97 74 0.20
98 180 0.48
99 116 0.31
100 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (97 bp):
GGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCATGGTATCGATTCGCCAT
TGCGGCCTCAACCTTCCCATCACATCTTTTAA
Found at i:31556307 original size:294 final size:294
Alignment explanation
Indices: 31555895--31556508 Score: 804
Period size: 294 Copynumber: 2.1 Consensus size: 294
31555885 AGGTACCAGA
* * * * ** ** *
31555895 TTCGTCGTTACGACCTCAACCTTTCTCATCACATTTCATGGTACTGGATTCGTTATTGCGGTATC
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATTTCATGCTACCAGATTCGCCATTGCGGCATC
* ** *
31555960 AATCCTTCCCATCATATCTTTTAAGGTACTAAGTTCGCCGTTGTGGTCTCAACCTTTCCTTTCAA
66 AATCCTTCCCATCACATCTTTTAAGGTACTAAGTTCGCCGTTACGGCCTCAACCTTTCCTTTCAA
* * * * * *
31556025 ATCTTCATGGTATAGGGTTCGCCGTTGCGGCTTCAACTTTTCCCATCATATTTCATGGTATCAAA
131 ATCTTCATGGTATAGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACCAAA
* * * * *
31556090 TTCGCCGTT-ACGGCCTCAATCTTTCCCATCACATCTTTTGAGGTATCGGGTTCGTCATTAC-GA
196 TTCACCGTTGA-GGCCTCAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGTCATTACAG-
* *
31556153 CCTTAACCTTT-CCTTTCAAATCTTCATGGTATCGGG
259 CCTCAACATTTCCCTTT-AAATCTTCATGGTATCGGG
* *
31556189 TTCGCCGTTGCTG-CCTCAACTTTTCCCATCACATTTCATGCTACCAGATTCGCCATTGCGGCCT
1 TTCGCCGTTGC-GACCTCAACCTTTCCCATCACATTTCATGCTACCAGATTCGCCATTGCGGCAT
* ** *
31556253 CAATCCTTCCCATCACATCTTTTAAGGTATTGGGTTTGCCGTTACGGCCTCAACCTTTCCTTTCA
65 CAATCCTTCCCATCACATCTTTTAAGGTACTAAGTTCGCCGTTACGGCCTCAACCTTTCCTTTCA
* *
31556318 AATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACCGA
130 AATCTTCATGGTATAGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACCAA
* * *
31556383 CTTCACCGTTGAGGTCTCAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGTCATTGCAGC
195 ATTCACCGTTGAGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGTCATTACAGC
*
31556448 CTCAACATTTCCCTTTATATCTTCATGGTATCGGG
260 CTCAACATTTCCCTTTAAATCTTCATGGTATCGGG
* *
31556483 TTCGTCTTTGCGACCTCAACCTTTCC
1 TTCGCCGTTGCGACCTCAACCTTTCC
31556509 TGTCACATCT
Statistics
Matches: 274, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
293 1 0.00
294 265 0.97
295 8 0.03
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (294 bp):
TTCGCCGTTGCGACCTCAACCTTTCCCATCACATTTCATGCTACCAGATTCGCCATTGCGGCATC
AATCCTTCCCATCACATCTTTTAAGGTACTAAGTTCGCCGTTACGGCCTCAACCTTTCCTTTCAA
ATCTTCATGGTATAGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACCAAA
TTCACCGTTGAGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGTCATTACAGCC
TCAACATTTCCCTTTAAATCTTCATGGTATCGGG
Found at i:31556415 original size:48 final size:48
Alignment explanation
Indices: 31556201--31556417 Score: 145
Period size: 48 Copynumber: 4.5 Consensus size: 48
31556191 CGCCGTTGCT
* * * *
31556201 GCCTCAACTTTTCCCATCACATTTCATGCTACCAGA-TTCGCCATTGCG
1 GCCTCAACCTTTCCCATCACATTTCATGGTACC-GACTTCACCATTGAG
* * ** ** ** *
31556249 GCCTCAATCC-TTCCCATCACATCTTTTAAGGTATTGGGTTTGCCGTT-ACG
1 GCCTCAA-CCTTTCCCATCACA--TTTCATGGTACCGACTTCACCATTGA-G
** * * * * *
31556299 GCCTCAACCTTTCCTTTCAAATCTTCATGGTATCGAGTTCGCCATTGCG
1 GCCTCAACCTTTCCCATCACAT-TTCATGGTACCGACTTCACCATTGAG
*
31556348 GCCTCAACCTTTCCCATCACATTTCATGGTACCGACTTCACCGTTGAG
1 GCCTCAACCTTTCCCATCACATTTCATGGTACCGACTTCACCATTGAG
*
31556396 GTCTCAATCC-TTCCCATCACAT
1 GCCTCAA-CCTTTCCCATCACAT
31556418 CTTTTAAGGT
Statistics
Matches: 131, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
48 58 0.44
49 43 0.33
50 30 0.23
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (48 bp):
GCCTCAACCTTTCCCATCACATTTCATGGTACCGACTTCACCATTGAG
Found at i:31556516 original size:147 final size:146
Alignment explanation
Indices: 31555895--31556508 Score: 676
Period size: 147 Copynumber: 4.2 Consensus size: 146
31555885 AGGTACCAGA
* * * * ** * **
31555895 TTCGTCGTTACGACCTCAACCTTTCTCATCACATTTCATGGTACTGGATTCGTTATTGCGGTATC
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATTTCATGGTAC-CGATTCGCCATTGAGGCCTC
* * * * ** *
31555960 AATCCTTCCCATCATATCTTTTAAGGTACTAAGTTCGCCGTTGTGGTCTCAACCTTTCCTTTCAA
65 AATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCATTACGGCCTCAACCTTTCCTTTCAA
*
31556025 ATCTTCATGGTATAGGG
130 ATCTTCATGGTATCGGG
* * * * ** *
31556042 TTCGCCGTTGCGGCTTCAACTTTTCCCATCATATTTCATGGTATCAAATTCGCCGTT-ACGGCCT
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATTTCATGGTA-CCGATTCGCCATTGA-GGCCT
* * * * * * *
31556106 CAATCTTTCCCATCACATCTTTTGAGGTATCGGGTTCGTCATTACGACCTTAACCTTTCCTTTCA
64 CAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCATTACGGCCTCAACCTTTCCTTTCA
31556171 AATCTTCATGGTATCGGG
129 AATCTTCATGGTATCGGG
* * *
31556189 TTCGCCGTTGCTG-CCTCAACTTTTCCCATCACATTTCATGCTACCAGATTCGCCATTGCGGCCT
1 TTCGCCGTTGC-GACCTCAACCTTTCCCATCACATTTCATGGTACC-GATTCGCCATTGAGGCCT
*** * *
31556253 CAATCCTTCCCATCACATCTTTTAAGGTATTGGGTTTGCCGTTACGGCCTCAACCTTTCCTTTCA
64 CAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCATTACGGCCTCAACCTTTCCTTTCA
*
31556318 AATCTTCATGGTATCGAG
129 AATCTTCATGGTATCGGG
* * * * *
31556336 TTCGCCATTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACCGACTTCACCGTTGAGGTCTC
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATTTCATGGTACCGA-TTCGCCATTGAGGCCTC
* * * *
31556401 AATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGTCATTGCAGCCTCAACATTTCCCTTT-A
65 AATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCATTACGGCCTCAACCTTT-CCTTTCA
*
31556465 TATCTTCATGGTATCGGG
129 AATCTTCATGGTATCGGG
* *
31556483 TTCGTCTTTGCGACCTCAACCTTTCC
1 TTCGCCGTTGCGACCTCAACCTTTCC
31556509 TGTCACATCT
Statistics
Matches: 392, Mismatches: 67, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
146 4 0.01
147 381 0.97
148 7 0.02
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (146 bp):
TTCGCCGTTGCGACCTCAACCTTTCCCATCACATTTCATGGTACCGATTCGCCATTGAGGCCTCA
ATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCATTACGGCCTCAACCTTTCCTTTCAAA
TCTTCATGGTATCGGG
Found at i:31556551 original size:50 final size:49
Alignment explanation
Indices: 31556398--31556569 Score: 152
Period size: 50 Copynumber: 3.4 Consensus size: 49
31556388 CCGTTGAGGT
* * *
31556398 CTCAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCGTCATTGCAGC
1 CTCAA-CCTTTCCTTCACATCTTTTAAGGTACTAGGTTCGTCATTGCAGC
* * * * * * *
31556448 CTCAACATTTCCCTTTATATC-TTCATGGTA-TCGGGTTCGTCTTTGC-GAC
1 CTCAACCTTT-CCTTCACATCTTTTAAGGTACT-AGGTTCGTCATTGCAG-C
**
31556497 CTCAACCTTTCCTGTCACATCTTTTAAGGTACTAGGTTCACCATTGCAGC
1 CTCAACCTTTCCT-TCACATCTTTTAAGGTACTAGGTTCGTCATTGCAGC
*
31556547 CTCAACCTTTCTCTTCATATCTT
1 CTCAACCTTTC-CTTCACATCTT
31556570 CATGTTTTCT
Statistics
Matches: 94, Mismatches: 20, Indels: 16
0.72 0.15 0.12
Matches are distributed among these distances:
48 4 0.04
49 37 0.39
50 49 0.52
51 4 0.04
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (49 bp):
CTCAACCTTTCCTTCACATCTTTTAAGGTACTAGGTTCGTCATTGCAGC
Found at i:31562912 original size:30 final size:28
Alignment explanation
Indices: 31562845--31562983 Score: 113
Period size: 29 Copynumber: 4.8 Consensus size: 28
31562835 AAGGTTTGGG
* * *
31562845 GGTTAAAATGTAATTTTTGGAAATTTTGA
1 GGTTAAAATTTAATTTTT-GAAAGTTTAA
**
31562874 GACT-AAATTTGAATTTTTTGAAAGTTTAA
1 GGTTAAAATTT-AA-TTTTTGAAAGTTTAA
*
31562903 GGTTAAAA-TTAATTTTTGAAAAGTTTTAG
1 GGTTAAAATTTAATTTTTG-AAAG-TTTAA
*
31562932 GGTT-AAATTCTAATTTTTAAAAAGTTTAA
1 GGTTAAAATT-TAATTTTT-GAAAGTTTAA
*
31562961 GGGTTAAAATGTAATTTTTGAAA
1 -GGTTAAAATTTAATTTTTGAAA
31562984 AGTTCAGGGG
Statistics
Matches: 88, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
27 6 0.07
28 14 0.16
29 32 0.36
30 32 0.36
31 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (28 bp):
GGTTAAAATTTAATTTTTGAAAGTTTAA
Found at i:31562939 original size:58 final size:60
Alignment explanation
Indices: 31562844--31562987 Score: 190
Period size: 58 Copynumber: 2.5 Consensus size: 60
31562834 GAAGGTTTGG
* **
31562844 GGGTTAAAATGTAATTTTTGGAAA-TTTTGAGACTAAATT-TGAATTTTTTGAAAGTTTAA
1 GGGTTAAAATGTAATTTTTGAAAAGTTTTGAGACTAAATTCT-AATTTTTAAAAAGTTTAA
**
31562903 -GGTTAAAAT-TAATTTTTGAAAAGTTTT-AGGGTTAAATTCTAATTTTTAAAAAGTTTAA
1 GGGTTAAAATGTAATTTTTGAAAAGTTTTGA-GACTAAATTCTAATTTTTAAAAAGTTTAA
31562961 GGGTTAAAATGTAATTTTTGAAAAGTT
1 GGGTTAAAATGTAATTTTTGAAAAGTT
31562988 CAGGGGCCTT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
57 13 0.17
58 36 0.48
59 10 0.13
60 16 0.21
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (60 bp):
GGGTTAAAATGTAATTTTTGAAAAGTTTTGAGACTAAATTCTAATTTTTAAAAAGTTTAA
Found at i:31562985 original size:30 final size:30
Alignment explanation
Indices: 31562784--31562987 Score: 154
Period size: 30 Copynumber: 6.9 Consensus size: 30
31562774 AGAGAATTTG
* * *
31562784 GGGTCAAAATGTAA-TTTTGTAAAAATTCAA
1 GGGTTAAAATGTAATTTTTG-AAAAGTTTAA
* * **
31562814 -GGTTAAAAATGTGATTTTT-AGAAGGTTTGG
1 GGGTT-AAAATGTAATTTTTGA-AAAGTTTAA
* * *
31562844 GGGTTAAAATGTAATTTTTGGAAATTTTGA
1 GGGTTAAAATGTAATTTTTGAAAAGTTTAA
** *
31562874 -GACT-AAATTTGAATTTTTTG-AAAGTTTAA
1 GGGTTAAAATGT-AA-TTTTTGAAAAGTTTAA
*
31562903 -GGTTAAAAT-TAATTTTTGAAAAGTTTTA
1 GGGTTAAAATGTAATTTTTGAAAAGTTTAA
* * *
31562931 GGGTTAAATTCTAATTTTTAAAAAGTTTAA
1 GGGTTAAAATGTAATTTTTGAAAAGTTTAA
31562961 GGGTTAAAATGTAATTTTTGAAAAGTT
1 GGGTTAAAATGTAATTTTTGAAAAGTT
31562988 CAGGGGCCTT
Statistics
Matches: 137, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.04
28 15 0.11
29 26 0.19
30 82 0.60
31 8 0.06
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (30 bp):
GGGTTAAAATGTAATTTTTGAAAAGTTTAA
Found at i:31564803 original size:13 final size:13
Alignment explanation
Indices: 31564785--31564809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31564775 TCTGACACAT
31564785 ACTCGTGTGCCCA
1 ACTCGTGTGCCCA
31564798 ACTCGTGTGCCC
1 ACTCGTGTGCCC
31564810 CAAGACAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.40, G:0.24, T:0.24
Consensus pattern (13 bp):
ACTCGTGTGCCCA
Found at i:31565481 original size:24 final size:24
Alignment explanation
Indices: 31565438--31565488 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
31565428 TCTAAACAAC
** *
31565438 AAAGAACAACAAAAGTAAAAAATA
1 AAAGAACAACAAAACCAAAAAAGA
*
31565462 AAAGAACGACAAAACCAAAAAAGA
1 AAAGAACAACAAAACCAAAAAAGA
31565486 AAA
1 AAA
31565489 CTAACCATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.75, C:0.12, G:0.10, T:0.04
Consensus pattern (24 bp):
AAAGAACAACAAAACCAAAAAAGA
Found at i:31566646 original size:264 final size:264
Alignment explanation
Indices: 31566173--31566707 Score: 989
Period size: 264 Copynumber: 2.0 Consensus size: 264
31566163 TAAGAAATAG
31566173 GTCCAACCCGTTTCAAAATCCAATAAGGTCCGATGACTCTTGGACTCATTTTACCTTTACGACCA
1 GTCCAACCCGTTTCAAAATCCAATAAGGTCCGATGACTCTTGGACTCATTTTACCTTTACGACCA
*
31566238 AACCGAAGAACTTTCTTCCATGGTGACACTTTCAGGAATACCTGATCCCTCACAAAAAAATTCGA
66 AACCGAAGAACTTTCTTCCATGGTGACACTTTCAGAAATACCTGATCCCTCACAAAAAAATTCGA
*
31566303 AGTTTTTTCTCTTTAAAACCGCATATGACTTTTGTCGATCAAAAGTAGCTTTCAATCAATCTCGA
131 AGTTTTTTCTCTTTAAAACCACATATGACTTTTGTCGATCAAAAGTAGCTTTCAATCAATCTCGA
31566368 ATCAATCTAACAGTATTCTCAATCTCAAACACTAACTCAAGACCCAAAACTCGTCTCTCACCCAA
196 ATCAATCTAACAGTATTCTCAATCTCAAACACTAACTCAAGACCCAAAACTCGTCTCTCACCCAA
31566433 TTCA
261 TTCA
*
31566437 GTTCAACCCGTTTCAAAATCCAATAAGGTCCGATGACTCTTGGACTCATTTTACCTTTACGACCA
1 GTCCAACCCGTTTCAAAATCCAATAAGGTCCGATGACTCTTGGACTCATTTTACCTTTACGACCA
31566502 AACCGAAGAACTTTCTTCCATGGTGACACTTTCAGAAATACCTGATCCCTCACAAAAAAATTCGA
66 AACCGAAGAACTTTCTTCCATGGTGACACTTTCAGAAATACCTGATCCCTCACAAAAAAATTCGA
* *
31566567 AGTTTTTTCTCTTTAAATCCACATATGACTTTTGTCGATCAAAAGTAGCTTTCAATCGATCTCGA
131 AGTTTTTTCTCTTTAAAACCACATATGACTTTTGTCGATCAAAAGTAGCTTTCAATCAATCTCGA
* * * *
31566632 ATCAATCTAACAGTATTCTTAGTCTCAAACACTAACTCAAGACCCAAAACTCTTCTCTCACCTAA
196 ATCAATCTAACAGTATTCTCAATCTCAAACACTAACTCAAGACCCAAAACTCGTCTCTCACCCAA
31566697 TTCA
261 TTCA
31566701 GTCCAAC
1 GTCCAAC
31566708 ACAAAAGAGT
Statistics
Matches: 261, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
264 261 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (264 bp):
GTCCAACCCGTTTCAAAATCCAATAAGGTCCGATGACTCTTGGACTCATTTTACCTTTACGACCA
AACCGAAGAACTTTCTTCCATGGTGACACTTTCAGAAATACCTGATCCCTCACAAAAAAATTCGA
AGTTTTTTCTCTTTAAAACCACATATGACTTTTGTCGATCAAAAGTAGCTTTCAATCAATCTCGA
ATCAATCTAACAGTATTCTCAATCTCAAACACTAACTCAAGACCCAAAACTCGTCTCTCACCCAA
TTCA
Found at i:31578275 original size:24 final size:23
Alignment explanation
Indices: 31578240--31578286 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
31578230 AAAAAGAAAC
*
31578240 TTTTAAACAATTTAATAATTATT
1 TTTTAAAAAATTTAATAATTATT
31578263 TTTTCAAAAAATTTAATAATTATT
1 TTTT-AAAAAATTTAATAATTATT
31578287 ATAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTAAAAAATTTAATAATTATT
Found at i:31581134 original size:191 final size:189
Alignment explanation
Indices: 31580789--31581169 Score: 694
Period size: 191 Copynumber: 2.0 Consensus size: 189
31580779 GGGGGCGGAG
31580789 TTGGTAGATCTCCATTTTCAAACTCTCCAATAATTCCATTATTACAAAATTAATATTTTTTTTAT
1 TTGGTAGATCTCCATTTTCAAACTCTCCAATAATTCCATTATTACAAAATTAATA--TTTTTTAT
31580854 TTTATTTTAATTATATAAAAATGTTATTAATATTAAAAAAAACTATAATTTTTTTATTATTTAAG
64 TTTATTTTAATTATATAAAAATGTTATTAATATTAAAAAAAACTATAATTTTTTTATTATTTAAG
31580919 TGAATCAAATATTAAATTAAAAAATATTAAAATACCCTTTTATATCTAAAATAAATTAAAAA
129 TGAATCAAATATTAAATTAAAAAATATTAAAATACCC-TTTATATCTAAAATAAATTAAAAA
31580981 TTGGTAGATCTCCATTTTCAAACTCTCCAATAATTCCATTATTACAAAATTAATA-TTTTTATTT
1 TTGGTAGATCTCCATTTTCAAACTCTCCAATAATTCCATTATTACAAAATTAATATTTTTTATTT
31581045 TATTTTAATTATATAAATAAATGTTATTAATATT-AAAAAAACTATAATTTTTATTATTATTTAA
66 TATTTTAATTATAT-AA-AAATGTTATTAATATTAAAAAAAACTATAATTTTT-TTATTATTTAA
31581109 GTGAATCAAATATTAAATTAAAAAATATTAAAATACCCTTTATATCTAAAATAAATTAAAA
128 GTGAATCAAATATTAAATTAAAAAATATTAAAATACCCTTTATATCTAAAATAAATTAAAA
31581170 TTATATTTAA
Statistics
Matches: 186, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
189 23 0.12
190 43 0.23
191 65 0.35
192 55 0.30
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (189 bp):
TTGGTAGATCTCCATTTTCAAACTCTCCAATAATTCCATTATTACAAAATTAATATTTTTTATTT
TATTTTAATTATATAAAAATGTTATTAATATTAAAAAAAACTATAATTTTTTTATTATTTAAGTG
AATCAAATATTAAATTAAAAAATATTAAAATACCCTTTATATCTAAAATAAATTAAAAA
Found at i:31587007 original size:14 final size:14
Alignment explanation
Indices: 31586988--31587014 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31586978 AAATTTATTA
31586988 AAAAAGAAGAAGAG
1 AAAAAGAAGAAGAG
31587002 AAAAAGAAGAAGA
1 AAAAAGAAGAAGA
31587015 CAATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGAAGAG
Found at i:31590157 original size:19 final size:20
Alignment explanation
Indices: 31590122--31590167 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
31590112 TATTAATGTA
31590122 TAATTAATTAAGATTAAGT-
1 TAATTAATTAAGATTAAGTG
* * *
31590141 TAATTAATTTAGTTTAATTG
1 TAATTAATTAAGATTAAGTG
31590161 TAATTAA
1 TAATTAA
31590168 ACCTAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (20 bp):
TAATTAATTAAGATTAAGTG
Found at i:31591722 original size:18 final size:18
Alignment explanation
Indices: 31591699--31591735 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
31591689 ACAATTCATA
31591699 TCACTTTCAATTGCAATT
1 TCACTTTCAATTGCAATT
* *
31591717 TCACTTTCACTTTCAATT
1 TCACTTTCAATTGCAATT
31591735 T
1 T
31591736 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTGCAATT
Found at i:31595230 original size:31 final size:31
Alignment explanation
Indices: 31595194--31595301 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
31595184 TTAATATAAT
*
31595194 ATTTGGTA-CTTAAACTTGATAATTTTTCCTA
1 ATTTGGTATC-TAAACTTGATATTTTTTCCTA
*
31595225 ATTTGGTATCTAAAC-T-AT-TTTTTTACCCA
1 ATTTGGTATCTAAACTTGATATTTTTT-CCTA
* * *
31595254 ATTTGATATCTGAACTTGACATTTTTTCCTA
1 ATTTGGTATCTAAACTTGATATTTTTTCCTA
31595285 ATTTGGTA-CTTAAACTT
1 ATTTGGTATC-TAAACTT
31595302 TTTGGACCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.08
29 18 0.29
30 3 0.05
31 30 0.48
32 7 0.11
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (31 bp):
ATTTGGTATCTAAACTTGATATTTTTTCCTA
Found at i:31595335 original size:58 final size:60
Alignment explanation
Indices: 31595206--31595354 Score: 200
Period size: 58 Copynumber: 2.5 Consensus size: 60
31595196 TTGGTACTTA
* * ** *
31595206 AACTTGATAATTTTTCCTAATTTGGTA-TCTAAACTATTTTTTTACCCAATTTGATATCTG
1 AACTTGACATTTTTTCCTAATTTGGTACTCTAAAC-ATTTTTGGACCCAATTTGATACCTG
31595266 AACTTGACATTTTTTCCTAATTTGGTACT-TAAAC-TTTTTGGACCCAATTTGATACCTG
1 AACTTGACATTTTTTCCTAATTTGGTACTCTAAACATTTTTGGACCCAATTTGATACCTG
*
31595324 AACTTGGCATTTTTT-CTAATTTGGTAC-CTAA
1 AACTTGACATTTTTTCCTAATTTGGTACTCTAA
31595355 GTTTTTTTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
57 15 0.19
58 35 0.43
60 30 0.37
61 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (60 bp):
AACTTGACATTTTTTCCTAATTTGGTACTCTAAACATTTTTGGACCCAATTTGATACCTG
Found at i:31595619 original size:30 final size:32
Alignment explanation
Indices: 31595578--31595659 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
31595568 TTGGATTCTA
*
31595578 AAAAGTTTAAGTACCAACTTA-AAAAAAGTGT
1 AAAAGTTTAAGTACCAAATTACAAAAAAGTGT
*
31595609 AAAA-TTTAAGTATCAAATTAGCAAAAAAGTGT
1 AAAAGTTTAAGTACCAAATTA-CAAAAAAGTGT
* * *
31595641 -CAAGTTTGAGTACTAAATT
1 AAAAGTTTAAGTACCAAATT
31595660 TAACCAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 14 0.33
31 6 0.14
32 22 0.52
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (32 bp):
AAAAGTTTAAGTACCAAATTACAAAAAAGTGT
Found at i:31595659 original size:32 final size:32
Alignment explanation
Indices: 31595578--31595640 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
31595568 TTGGATTCTA
* *
31595578 AAAAGTTTAAGTACCAACTTA--AAAAAAGTGT
1 AAAA-TTTAAGTATCAAATTAGCAAAAAAGTGT
31595609 AAAATTTAAGTATCAAATTAGCAAAAAAGTGT
1 AAAATTTAAGTATCAAATTAGCAAAAAAGTGT
31595641 CAAGTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 14 0.50
31 4 0.14
32 10 0.36
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (32 bp):
AAAATTTAAGTATCAAATTAGCAAAAAAGTGT
Found at i:31597458 original size:31 final size:31
Alignment explanation
Indices: 31597420--31597513 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
31597410 TATGGAAAAA
*
31597420 AAAATTATATTTTTCATCTTTCTAATTTTCT
1 AAAATTATATTTTCCATCTTTCTAATTTTCT
*
31597451 AAAATTATGTTTTCCATCTTTCTAATTTTCT
1 AAAATTATATTTTCCATCTTTCTAATTTTCT
** * *
31597482 ACTCATTCA-ATTTTCAATCTTTCTGATTTTCT
1 A-AAATT-ATATTTTCCATCTTTCTAATTTTCT
31597514 TTCCTTCTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.56
32 23 0.43
33 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.02, T:0.55
Consensus pattern (31 bp):
AAAATTATATTTTCCATCTTTCTAATTTTCT
Found at i:31597510 original size:16 final size:16
Alignment explanation
Indices: 31597460--31597512 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
31597450 TAAAATTATG
*
31597460 TTTTCCATCTTTCTAA
1 TTTTCAATCTTTCTAA
* *
31597476 TTTTCTACTCATTC-AA
1 TTTTC-AATCTTTCTAA
*
31597492 TTTTCAATCTTTCTGA
1 TTTTCAATCTTTCTAA
31597508 TTTTC
1 TTTTC
31597513 TTTCCTTCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 6 0.21
16 18 0.62
17 5 0.17
ACGTcount: A:0.19, C:0.23, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTCAATCTTTCTAA
Found at i:31603775 original size:12 final size:13
Alignment explanation
Indices: 31603758--31603787 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
31603748 TCTTTTCAAC
31603758 ATTTAATTTTTT-
1 ATTTAATTTTTTA
31603770 ATTTAATTTTTTA
1 ATTTAATTTTTTA
31603783 ATTTA
1 ATTTA
31603788 TCAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTAATTTTTTA
Found at i:31608973 original size:6 final size:6
Alignment explanation
Indices: 31608946--31609019 Score: 77
Period size: 6 Copynumber: 13.0 Consensus size: 6
31608936 GCCTTTGATT
* * *
31608946 TTTAAA GTTTAAA -TTAAT TTTAAA TTT-AT TTTAAA TTTAAA TTT-AC
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31608992 TTTAAA TTTAAA TTT-AA TTT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31609020 ATAATATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
5 22 0.39
6 29 0.51
7 6 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:31608979 original size:17 final size:17
Alignment explanation
Indices: 31608945--31609021 Score: 91
Period size: 17 Copynumber: 4.5 Consensus size: 17
31608935 GGCCTTTGAT
*
31608945 TTTTAAAGTTTAAATTAA
1 TTTTAAA-TTTAATTTAA
*
31608963 TTTTAAATTTATTTTAA
1 TTTTAAATTTAATTTAA
* *
31608980 ATTTAAATTTACTTTAA
1 TTTTAAATTTAATTTAA
*
31608997 ATTTAAATTTAATTTAA
1 TTTTAAATTTAATTTAA
*
31609014 TTTAAAAT
1 TTTTAAAT
31609022 AATATTAAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
17 45 0.87
18 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAATTTAA
Found at i:31608987 original size:28 final size:29
Alignment explanation
Indices: 31608945--31609018 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
31608935 GGCCTTTGAT
*
31608945 TTTTAAAGTTTAAATTAATTTTAAATTT-A
1 TTTTAAA-TTTAAATTAACTTTAAATTTAA
*
31608974 TTTTAAATTTAAATTTACTTTAAATTTAA
1 TTTTAAATTTAAATTAACTTTAAATTTAA
* *
31609003 ATTT-AATTTAATTTAA
1 TTTTAAATTTAAATTAA
31609019 AATAATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.72
29 11 0.28
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTTAAATTTAAATTAACTTTAAATTTAA
Found at i:31609012 original size:11 final size:11
Alignment explanation
Indices: 31608953--31609018 Score: 66
Period size: 11 Copynumber: 6.0 Consensus size: 11
31608943 ATTTTTAAAG
31608953 TTTAAA-TTAA
1 TTTAAATTTAA
*
31608963 TTTTAAATTTAT
1 -TTTAAATTTAA
31608975 TTTAAATTTAAA
1 TTTAAATTT-AA
*
31608987 TTT-ACTTTAAA
1 TTTAAATTT-AA
31608998 TTTAAATTTAA
1 TTTAAATTTAA
31609009 TTT-AATTTAA
1 TTTAAATTTAA
31609019 AATAATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 7 0.15
11 30 0.62
12 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:31609029 original size:16 final size:16
Alignment explanation
Indices: 31608959--31609029 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
31608949 AAAGTTTAAA
* *
31608959 TTAATTTTAAATTTATT
1 TTAA-TTTAAATATAAT
* *
31608976 TTAAATTTAAATTTACT
1 TT-AATTTAAATATAAT
*
31608993 TTAAATTTAAATTTAAT
1 TT-AATTTAAATATAAT
31609010 TTAATTTAAA-ATAAT
1 TTAATTTAAATATAAT
31609025 ATTAA
1 -TTAA
31609030 ACTTAATACA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.08
16 12 0.24
17 31 0.63
18 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATTTAAATATAAT
Found at i:31609941 original size:16 final size:17
Alignment explanation
Indices: 31609920--31609952 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31609910 GACGTCGTCG
31609920 TTCGCC-CCGAAACTTC
1 TTCGCCTCCGAAACTTC
*
31609936 TTCGCCTCCGAACCTTC
1 TTCGCCTCCGAAACTTC
31609953 CCTTCACGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.45, G:0.12, T:0.27
Consensus pattern (17 bp):
TTCGCCTCCGAAACTTC
Found at i:31611071 original size:30 final size:31
Alignment explanation
Indices: 31611023--31611179 Score: 134
Period size: 30 Copynumber: 5.3 Consensus size: 31
31611013 AAAAATTGTA
* *
31611023 TTTTAACCCTCGAAACTTCTCTAAAATTACA-
1 TTTTAACCCT-AAAACTTCTCAAAAATTACAT
*
31611054 TTTTAACCCTAAAACTTCT-AAAAATGACAT
1 TTTTAACCCTAAAACTTCTCAAAAATTACAT
* * *
31611084 TTTTGACCAC-AAAACTTC-CAAAACTTTCAT
1 TTTTAACC-CTAAAACTTCTCAAAAATTACAT
* *
31611114 TTTTAA-CCTCGAAACCTCT-AAAAATTACA-
1 TTTTAACCCT-AAAACTTCTCAAAAATTACAT
* *
31611143 TTTT-ACCCTTAAACTT-TCAAAAATTCCAT
1 TTTTAACCCTAAAACTTCTCAAAAATTACAT
31611172 TTTTAACC
1 TTTTAACC
31611180 TCTATTTTTC
Statistics
Matches: 101, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
27 1 0.01
28 16 0.16
29 20 0.20
30 53 0.52
31 11 0.11
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (31 bp):
TTTTAACCCTAAAACTTCTCAAAAATTACAT
Found at i:31611085 original size:29 final size:29
Alignment explanation
Indices: 31611000--31611211 Score: 121
Period size: 30 Copynumber: 7.1 Consensus size: 29
31610990 CTTTGAAGGT
* **
31611000 CCCTAAAA-TATCCAAAAATTGTATTTTAA
1 CCCTAAAACT-TCTAAAAATTACATTTTAA
* *
31611029 CCCTCGAAACTTCTCTAAAATTACATTTTAA
1 CCCT-AAAACTTCT-AAAAATTACATTTTAA
* *
31611060 CCCTAAAACTTCTAAAAATGACATTTTTGA
1 CCCTAAAACTTCTAAAAATTACA-TTTTAA
* * *
31611090 CCAC-AAAACTTCCAAAACTTTCATTTTTAA
1 CC-CTAAAACTTCTAAAAATTACA-TTTTAA
* *
31611120 -CCTCGAAACCTCTAAAAATTACATTTT-A
1 CCCT-AAAACTTCTAAAAATTACATTTTAA
* *
31611148 CCCTTAAACTT-TCAAAAATTCCATTTTTAA
1 CCCTAAAACTTCT-AAAAATTACA-TTTTAA
*** *
31611178 CCTCT-ATTTTTCTAAAAATTACCATTTTAC
1 CC-CTAAAACTTCTAAAAATTA-CATTTTAA
31611208 CCCT
1 CCCT
31611212 GAACATCCAA
Statistics
Matches: 142, Mismatches: 27, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
27 1 0.01
28 16 0.11
29 26 0.18
30 75 0.53
31 24 0.17
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCTAAAACTTCTAAAAATTACATTTTAA
Found at i:31611181 original size:58 final size:57
Alignment explanation
Indices: 31611035--31611209 Score: 156
Period size: 58 Copynumber: 3.0 Consensus size: 57
31611025 TTAACCCTCG
* *
31611035 AAACTTCTCTAAAATTACA-TTTTAACC-CTAAAACTTCTAAAAATGACATTTTTGACCACA
1 AAACTT-TCAAAAATTACATTTTTAACCTC-AAAACTTCTAAAAATTACA-TTTT-ACC-CA
* * * * * *
31611095 AAACTTCCAAAACTTTCATTTTTAACCTCGAAACCTCTAAAAATTACATTTTACCCTT
1 AAACTTTCAAAAATTACATTTTTAACCTCAAAACTTCTAAAAATTACATTTTACCC-A
* * ***
31611153 AAACTTTCAAAAATTCCATTTTTAACCTCTATTTTTCTAAAAATTACCATTTTACCC
1 AAACTTTCAAAAATTACATTTTTAACCTCAAAACTTCTAAAAATTA-CATTTTACCC
31611210 CTGAACATCC
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 41 0.43
59 22 0.23
60 30 0.32
61 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (57 bp):
AAACTTTCAAAAATTACATTTTTAACCTCAAAACTTCTAAAAATTACATTTTACCCA
Found at i:31611206 original size:30 final size:30
Alignment explanation
Indices: 31611130--31611206 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
31611120 CCTCGAAACC
*
31611130 TCTAAAAATTA-CATTTTACCCTTAAACTT
1 TCTAAAAATTACCATTTTAACCTTAAACTT
**
31611159 TC-AAAAATT-CCATTTTTAACCTCT-ATTTT
1 TCTAAAAATTACCA-TTTTAACCT-TAAACTT
31611188 TCTAAAAATTACCATTTTA
1 TCTAAAAATTACCATTTTA
31611207 CCCCTGAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
28 9 0.22
29 15 0.38
30 13 0.32
31 3 0.08
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (30 bp):
TCTAAAAATTACCATTTTAACCTTAAACTT
Found at i:31624050 original size:40 final size:40
Alignment explanation
Indices: 31624002--31624243 Score: 114
Period size: 40 Copynumber: 5.5 Consensus size: 40
31623992 AAATCCTATC
31624002 CTCT-TGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
1 CTCTCTGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
* ** *
31624041 CTCTCTGAAGTTATAGTAAGAGCAAGG-TGAAGCATTAAACATCAATTCCTAT
1 CTCTCTGAAGTTGTAGTAA-AG-TTGGAT--AG---T-AA-GTC--TT--TAT
*
31624093 C-CTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
1 CTCTC-TGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
* *** *
31624133 CTCTCTCAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTAT
1 CTCTCTGAAGTTGTAGTAA-AGTTGGAT--AG--T--AA-GTC--TT--TAT
*
31624185 C-CTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
1 CTCTC-TGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
31624225 CTCTCTGAAGTTGTAGTAA
1 CTCTCTGAAGTTGTAGTAA
31624244 GAGCAAGATG
Statistics
Matches: 151, Mismatches: 21, Indels: 61
0.65 0.09 0.26
Matches are distributed among these distances:
39 4 0.03
40 48 0.32
41 14 0.09
42 6 0.04
43 4 0.03
44 4 0.03
45 4 0.03
46 1 0.01
47 4 0.03
48 4 0.03
49 4 0.03
50 6 0.04
51 14 0.09
52 34 0.23
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (40 bp):
CTCTCTGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
Found at i:31624349 original size:92 final size:92
Alignment explanation
Indices: 31623066--31624348 Score: 2206
Period size: 92 Copynumber: 13.9 Consensus size: 92
31623056 AGATCAAAAT
* *
31623066 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAATTGGATAGCAAGTCTTTATCTCTCTAAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623131 TTGTAGTAAGAGAAAGATGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
*
31623158 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623223 TTGTAGTAAGAGCAAGATGAAGTATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
*
31623250 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623315 TTGTAGTAAGAGCAAGGTGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
31623342 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623407 TTGTAGTAAGAGCAAGGTGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* * * *
31623434 AACATCAATTCCTATCCTCTTAAAGTTGTAGTAAAGTTCGATAGGAAGTCTTTATCTCTCTAAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623499 TTGTAGTAAGAGAAAGATGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
31623526 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623591 TTGTAATAAGAGCAAGATGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* *
31623618 AACATAAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAACAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
* *
31623683 TTGTAGTAAGAGTAAGGTGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
*
31623710 AACATAAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
* *
31623775 TTGTAGTAAGAGCAAAATTAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
*
31623802 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAACAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31623867 TTGTAGTAAGAGCAAGGTGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* *
31623894 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAATTGGATAGCAAGTCTTTATCTCTTTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
* **
31623959 TTGTATTAAGAGCAAGATGAAGTTTCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* *
31623986 AACATCAAATCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
* * *
31624051 TTATAGTAAGAGCAAGGTGAAGCATTA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
*
31624078 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTCAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
31624143 TTGTAGTAAGAGCAAGATGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
31624170 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
**
31624235 TTGTAGTAAGAGCAAGATGAAGTTTCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* * *
31624262 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAACAAGTCTTCATCTCTTTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
31624327 TTGTAGTAAGAGCAGGATGAAG
66 TTGTAGTAAGAGCAAGATGAAG
31624349 TCTCGACACC
Statistics
Matches: 1126, Mismatches: 65, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 1126 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (92 bp):
AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
TTGTAGTAAGAGCAAGATGAAGCATCA
Found at i:31624631 original size:6 final size:6
Alignment explanation
Indices: 31624606--31624650 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
31624596 GCCTTTGATT
31624606 TTTAAA GTTTAAA TTT--A TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31624651 ATAATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
4 6 0.18
5 4 0.12
6 18 0.53
7 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:31624634 original size:16 final size:16
Alignment explanation
Indices: 31624606--31624650 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
31624596 GCCTTTGATT
31624606 TTTAAAGTTTAAATTTA
1 TTTAAA-TTTAAATTTA
31624623 TTTAAATTTAAATTTA
1 TTTAAATTTAAATTTA
*
31624639 ATTAAATTTAAA
1 TTTAAATTTAAA
31624651 ATAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTAAATTTAAATTTA
Found at i:31624659 original size:17 final size:16
Alignment explanation
Indices: 31624624--31624666 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
31624614 TTAAATTTAT
* *
31624624 TTAAATTTAAATTTAA
1 TTAAATTTAAAATAAA
31624640 TTAAATTTAAAATAATA
1 TTAAATTTAAAATAA-A
*
31624657 TTAAACTTAA
1 TTAAATTTAA
31624667 TACAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAAATAAA
Found at i:31627931 original size:7 final size:7
Alignment explanation
Indices: 31627919--31627945 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31627909 AAGTTTGTGG
31627919 ATGGCAA
1 ATGGCAA
31627926 ATGGCAA
1 ATGGCAA
31627933 ATGGCAA
1 ATGGCAA
31627940 ATGGCA
1 ATGGCA
31627946 TAAAGGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.30, T:0.15
Consensus pattern (7 bp):
ATGGCAA
Found at i:31629680 original size:6 final size:6
Alignment explanation
Indices: 31629669--31629695 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31629659 GTCTTTATCA
31629669 ATCTCC ATCTCC ATCTCC ATCTCC ATC
1 ATCTCC ATCTCC ATCTCC ATCTCC ATC
31629696 ATTGCCTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTCC
Found at i:31631067 original size:39 final size:40
Alignment explanation
Indices: 31631019--31631119 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
31631009 GCAAATAAAT
* * * *
31631019 TTAAAATTA-TTAAAATTATTTTTTTAAAATGTAAAATTA
1 TTAAAATTATTTAAAATTATATTTTAAAAATATAAAATAA
*
31631058 TTAAAATTATTTTAAAA-AATATTTTAAAAATATAAAATAA
1 TTAAAATTA-TTTAAAATTATATTTTAAAAATATAAAATAA
31631098 TTAAAATTATTTTAAAATTATA
1 TTAAAATTA-TTTAAAATTATA
31631120 ATTATCATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 9 0.17
40 35 0.66
41 9 0.17
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (40 bp):
TTAAAATTATTTAAAATTATATTTTAAAAATATAAAATAA
Found at i:31631074 original size:11 final size:11
Alignment explanation
Indices: 31631050--31631118 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 11
31631040 TTTTAAAATG
31631050 TAAAATTA--T
1 TAAAATTATTT
31631059 TAAAATTATTT
1 TAAAATTATTT
*
31631070 TAAAAAATATTT
1 T-AAAATTATTT
*
31631082 TAAAA--A-TA
1 TAAAATTATTT
*
31631090 TAAAA-TA-AT
1 TAAAATTATTT
31631099 TAAAATTATTT
1 TAAAATTATTT
31631110 TAAAATTAT
1 TAAAATTAT
31631119 AATTATCATC
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
8 6 0.12
9 15 0.31
10 2 0.04
11 16 0.33
12 10 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:31631971 original size:5 final size:6
Alignment explanation
Indices: 31631956--31632004 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
31631946 AAAGGAAATA
* * *
31631956 AAGGGG AAGGGG AGGGGGAG AAGGAG AAGGGG AAGGGG AAGTGG AAGGG
1 AAGGGG AAGGGG A-AGGG-G AAGGGG AAGGGG AAGGGG AAGGGG AAGGG
31632005 AAAAAAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 28 0.80
7 5 0.14
8 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.63, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:31631984 original size:20 final size:20
Alignment explanation
Indices: 31631956--31631994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31631946 AAAGGAAATA
* *
31631956 AAGGGGAAGGGGAGGGGGAG
1 AAGGAGAAGGGGAAGGGGAG
31631976 AAGGAGAAGGGGAAGGGGA
1 AAGGAGAAGGGGAAGGGGA
31631995 AGTGGAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGGGGAAGGGGAG
Found at i:31632077 original size:15 final size:15
Alignment explanation
Indices: 31632053--31632095 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
31632043 TTAAAATAAT
31632053 TTTAATAATTTTATA
1 TTTAATAATTTTATA
* *
31632068 TTTAA-AAATTAAT-
1 TTTAATAATTTTATA
31632081 TTTAATAATTTTATA
1 TTTAATAATTTTATA
31632096 ATTTTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAATAATTTTATA
Found at i:31632098 original size:8 final size:9
Alignment explanation
Indices: 31632037--31632128 Score: 66
Period size: 9 Copynumber: 9.7 Consensus size: 9
31632027 GATGGTGATT
31632037 ATAATTTTAAA
1 ATAATTTT--A
31632048 ATAATTTTA
1 ATAATTTTA
31632057 ATAATTTT-
1 ATAATTTTA
*
31632065 AT-ATTTAAAA
1 ATAATTT--TA
31632075 ATTAATTTTA
1 A-TAATTTTA
31632085 ATAATTTT-
1 ATAATTTTA
31632093 ATAATTTTTAAAA
1 ATAA-TTTT---A
31632106 ATAATTTTA
1 ATAATTTTA
31632115 ATAATTTTA
1 ATAATTTTA
31632124 A-AATT
1 ATAATT
31632129 ATTTACTAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 23
0.73 0.02 0.24
Matches are distributed among these distances:
7 4 0.06
8 10 0.14
9 31 0.45
10 3 0.04
11 9 0.13
12 8 0.12
13 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATAATTTTA
Found at i:31632108 original size:21 final size:21
Alignment explanation
Indices: 31632084--31632126 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
31632074 AATTAATTTT
31632084 AATAATTTT-ATAATTTTTAAA
1 AATAATTTTAATAA-TTTTAAA
31632105 AATAATTTTAATAATTTTAAA
1 AATAATTTTAATAATTTTAAA
31632126 A
1 A
31632127 TTATTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTTTAATAATTTTAAA
Found at i:31632113 original size:30 final size:29
Alignment explanation
Indices: 31632035--31632128 Score: 140
Period size: 28 Copynumber: 3.3 Consensus size: 29
31632025 AGGATGGTGA
31632035 TTATAATTTT-AAAATAATTTTAATAATT
1 TTATAATTTTAAAAATAATTTTAATAATT
31632063 TTAT-A-TTTAAAAATTAATTTTAATAATT
1 TTATAATTTTAAAAA-TAATTTTAATAATT
31632091 TTATAATTTTTAAAAATAATTTTAATAATT
1 TTATAA-TTTTAAAAATAATTTTAATAATT
*
31632121 TTAAAATT
1 TTATAATT
31632129 ATTTACTAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
26 3 0.05
27 5 0.08
28 22 0.37
29 3 0.05
30 19 0.32
31 8 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATAATTTTAAAAATAATTTTAATAATT
Found at i:31632569 original size:25 final size:23
Alignment explanation
Indices: 31632541--31632586 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
31632531 TTATTAAATA
31632541 TTAAAATAAAATAAAAAATATATTT
1 TTAAAA-AAAATAAAAAA-ATATTT
*
31632566 TTAAAAAAATTAAAAAAATAT
1 TTAAAAAAAATAAAAAAATAT
31632587 GGACGGGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAAAAATAAAAAAATATTT
Found at i:31633384 original size:15 final size:15
Alignment explanation
Indices: 31633360--31633393 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31633350 ATGGTAAAAA
31633360 TCTTCTAATTTT-TT
1 TCTTCTAATTTTATT
31633374 TCTTACTAATTTTATT
1 TCTT-CTAATTTTATT
31633390 TCTT
1 TCTT
31633394 TTCAACGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (15 bp):
TCTTCTAATTTTATT
Found at i:31633979 original size:22 final size:23
Alignment explanation
Indices: 31633920--31633981 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
31633910 TTTTGGTTGA
*
31633920 AATTAAATTATAATTTTTATCAT
1 AATTAAATTATAATTTTTATAAT
* * *
31633943 AGTAAAAATATAATTTTTA-AAT
1 AATTAAATTATAATTTTTATAAT
*
31633965 AATTAAATTAAAATTTT
1 AATTAAATTATAATTTT
31633982 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AATTAAATTATAATTTTTATAAT
Found at i:31637729 original size:13 final size:13
Alignment explanation
Indices: 31637711--31637735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31637701 TTTCCAAGAG
31637711 CTTTAATGGATTC
1 CTTTAATGGATTC
31637724 CTTTAATGGATT
1 CTTTAATGGATT
31637736 TTGCATTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
CTTTAATGGATTC
Found at i:31641452 original size:16 final size:17
Alignment explanation
Indices: 31641424--31641457 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31641414 TAGACCGAGG
31641424 TATTAGAGTTTAAAGTT
1 TATTAGAGTTTAAAGTT
*
31641441 TATTAG-GTTTAAGGTT
1 TATTAGAGTTTAAAGTT
31641457 T
1 T
31641458 CAATTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (17 bp):
TATTAGAGTTTAAAGTT
Found at i:31644163 original size:29 final size:29
Alignment explanation
Indices: 31644097--31644335 Score: 180
Period size: 29 Copynumber: 8.3 Consensus size: 29
31644087 CTTTTTGAAG
* * * *
31644097 AATAGTGGCAAAATTATCAAAT-TTAAAA
1 AATAGTGGCAAAACTGTAAAATCTGAAAA
* * *
31644125 AGTAGTGGCAAAACTATAAAATCTAAAAA
1 AATAGTGGCAAAACTGTAAAATCTGAAAA
* ** * *
31644154 AATAGTGGCAGAACTAAAAAATTTGGAAA
1 AATAGTGGCAAAACTGTAAAATCTGAAAA
** * * * * *
31644183 ACCAATGACAAAATTGTAAAACCTGGAAA
1 AATAGTGGCAAAACTGTAAAATCTGAAAA
* * *
31644212 AATAGTGGCAAAATTGTAAAATATGGAAA
1 AATAGTGGCAAAACTGTAAAATCTGAAAA
* * * * *
31644241 AACAATGGTAAAGCTGTAAAATCT-AGCAA
1 AATAGTGGCAAAACTGTAAAATCTGA-AAA
31644270 AATAGTGGCAAAACTGTAAAATTCT-AAAA
1 AATAGTGGCAAAACTGTAAAA-TCTGAAAA
*
31644299 AACAGTGGCAAAACTGTAAAATCT-AAAA
1 AATAGTGGCAAAACTGTAAAATCTGAAAA
31644327 AATAGTGGC
1 AATAGTGGC
31644336 GGTACACGAT
Statistics
Matches: 167, Mismatches: 41, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
28 34 0.20
29 129 0.77
30 4 0.02
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.22
Consensus pattern (29 bp):
AATAGTGGCAAAACTGTAAAATCTGAAAA
Found at i:31646120 original size:26 final size:26
Alignment explanation
Indices: 31646087--31646274 Score: 148
Period size: 26 Copynumber: 7.2 Consensus size: 26
31646077 CGCTAACTGT
*
31646087 TCATCGGCTCGAAGTCTGCTATATAA
1 TCATCGGCTCGAAGCCTGCTATATAA
* * * *
31646113 TCACCGGCTCAAAGCCTACTATTTAA
1 TCATCGGCTCGAAGCCTGCTATATAA
* * *
31646139 TCATCAGTTC-AAGGCTTGCTATATAA
1 TCATCGGCTCGAA-GCCTGCTATATAA
* * ** *
31646165 TCATTGGTTCGAAGTATGCTATTTAA
1 TCATCGGCTCGAAGCCTGCTATATAA
* *
31646191 TCATCGGCT-TAAGGCCTG-TCATACAA
1 TCATCGGCTCGAA-GCCTGCT-ATATAA
* * *
31646217 TAACCGGCTCAAAGCCTGCTATATAA
1 TCATCGGCTCGAAGCCTGCTATATAA
*
31646243 TCATCGGCTCGAAGCTTGCTATATAA
1 TCATCGGCTCGAAGCCTGCTATATAA
*
31646269 TTATCG
1 TCATCG
31646275 CTTTTCTAAT
Statistics
Matches: 124, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
25 5 0.04
26 114 0.92
27 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (26 bp):
TCATCGGCTCGAAGCCTGCTATATAA
Found at i:31646165 original size:52 final size:52
Alignment explanation
Indices: 31646103--31646269 Score: 169
Period size: 52 Copynumber: 3.2 Consensus size: 52
31646093 GCTCGAAGTC
* *
31646103 TGCTATATAATCACCGGCTCAAAGCCTACTATTTAATCATCAGTTCAAGGCT
1 TGCTATATAATCACCGGCTCAAAGCCTGCTATTTAATCATCGGTTCAAGGCT
** * * ** *
31646155 TGCTATATAATCATTGGTTCGAAGTATGCTATTTAATCATCGGCTT-AAGGCC
1 TGCTATATAATCACCGGCTCAAAGCCTGCTATTTAATCATCGG-TTCAAGGCT
* * * *
31646207 TG-TCATACAATAACCGGCTCAAAGCCTGCTATATAATCATCGGCTCGAA-GCT
1 TGCT-ATATAATCACCGGCTCAAAGCCTGCTATTTAATCATCGGTTC-AAGGCT
31646259 TGCTATATAAT
1 TGCTATATAAT
31646270 TATCGCTTTT
Statistics
Matches: 89, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
51 2 0.02
52 82 0.92
53 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (52 bp):
TGCTATATAATCACCGGCTCAAAGCCTGCTATTTAATCATCGGTTCAAGGCT
Done.