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 54 of 163
Found at i:13511437 original size:15 final size:15
Alignment explanation
Indices: 13511417--13511446 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13511407 TAAGATCATC
13511417 CTAATAAAATTTATT
1 CTAATAAAATTTATT
*
13511432 CTAATATAATTTATT
1 CTAATAAAATTTATT
13511447 TCCATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
CTAATAAAATTTATT
Found at i:13514845 original size:2 final size:2
Alignment explanation
Indices: 13514838--13514874 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13514828 TATTACCAAA
13514838 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
13514875 TGAACATTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13519760 original size:2 final size:2
Alignment explanation
Indices: 13519753--13519783 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13519743 TTTTGGATGT
13519753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13519784 TGTGAGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13525081 original size:21 final size:21
Alignment explanation
Indices: 13525043--13525082 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13525033 TTGTATTTAC
*
13525043 TATTTTTAGCATTTATTTTTT
1 TATTTTTAGCATTGATTTTTT
13525064 TATTTTTA-CAATTGATTTT
1 TATTTTTAGC-ATTGATTTT
13525083 ACTTCGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
TATTTTTAGCATTGATTTTTT
Found at i:13530638 original size:58 final size:58
Alignment explanation
Indices: 13530562--13530811 Score: 326
Period size: 58 Copynumber: 4.3 Consensus size: 58
13530552 TAGATACCCA
* * *
13530562 GGGGCAAAATGGCAATTTTGATGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTG
* * *
13530620 GGGGTAAAATGGTAATTTTGGTGAAATCGGGG-CAAAAATGGAATTTTAGAAAGTTTA
1 GGGGTAAAATGGTAATTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTG
* * *
13530677 GGGGTAAAATGGTAATTTTGGTGAAATTCGGGGT-AAAAATGGAATTTTAGCAAGTTCG
1 GGGGTAAAATGGTAATTTTGGTGAAATT-GGGGTCAAAAATGGAATTTTGGAAAGTTTG
* * ** **
13530735 GGTGTAAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATAATGGAAAACTTG
1 GGGGTAAAATGGTAATTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTG
13530793 GGGGTAAAAAT-GTAATTTT
1 GGGGT-AAAATGGTAATTTT
13530812 AGAAAGTTTT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
57 55 0.33
58 108 0.64
59 5 0.03
ACGTcount: A:0.36, C:0.04, G:0.30, T:0.30
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTG
Found at i:13530763 original size:115 final size:116
Alignment explanation
Indices: 13530561--13530779 Score: 352
Period size: 115 Copynumber: 1.9 Consensus size: 116
13530551 TTAGATACCC
* *
13530561 AGGGGCAAAATGGCAATTTTGATGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGTA
1 AGGGGCAAAATGGCAATTTTGATGAAATTGGGGTCAAAAATGGAATTTTAGAAAGTTCGGGGGTA
13530626 AAATGGTAATTTTGGTGAAATCGGGG-CAAAAATGGAATTTTAGAAAGTTT
66 AAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTT
* * * * *
13530676 AGGGGTAAAATGGTAATTTTGGTGAAATTCGGGGT-AAAAATGGAATTTTAGCAAGTTCGGGTGT
1 AGGGGCAAAATGGCAATTTTGATGAAATT-GGGGTCAAAAATGGAATTTTAGAAAGTTCGGGGGT
13530740 AAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAAT
65 AAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAAT
13530780 AATGGAAAAC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
115 78 0.82
116 17 0.18
ACGTcount: A:0.35, C:0.05, G:0.31, T:0.30
Consensus pattern (116 bp):
AGGGGCAAAATGGCAATTTTGATGAAATTGGGGTCAAAAATGGAATTTTAGAAAGTTCGGGGGTA
AAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTT
Found at i:13530816 original size:29 final size:29
Alignment explanation
Indices: 13530590--13530990 Score: 162
Period size: 29 Copynumber: 13.7 Consensus size: 29
13530580 TGATGAAATT
* * * *
13530590 GGGGTCAAAAATGGAATTTTGGAAAGTTTG
1 GGGGT-AAAAATGTAATTTTAGAAAATTTA
* * *
13530620 GGGGT-AAAATGGTAATTTTGGTGAAA--TC
1 GGGGTAAAAAT-GTAATTTTAG-AAAATTTA
* * *
13530648 GGGGCAAAAATGGAATTTTAGAAAGTTTA
1 GGGGTAAAAATGTAATTTTAGAAAATTTA
* * *
13530677 GGGGT-AAAATGGTAATTTTGGTGAAA-TTC
1 GGGGTAAAAAT-GTAATTTTAG-AAAATTTA
* * * *
13530706 GGGGTAAAAATGGAATTTTAG-CAAGTTC
1 GGGGTAAAAATGTAATTTTAGAAAATTTA
* * *
13530734 GGGTGT-AAAATGGTAATTTTGGTGAAA--TC
1 GGG-GTAAAAAT-GTAATTTTAG-AAAATTTA
* ** * * *
13530763 GGGGTCAAAAATGGAATAATGGAAAACTTG
1 GGGGT-AAAAATGTAATTTTAGAAAATTTA
*
13530793 GGGGTAAAAATGTAATTTTAGAAAGTTTTA
1 GGGGTAAAAATGTAATTTTAGAAA-ATTTA
* * * *
13530823 -AGGTCAAAATATAATTTTGGAAAAGTTTA
1 GGGGTAAAAATGTAATTTTAGAAAA-TTTA
*
13530852 GGGGTCAAAATGTAATTTATA-AAAAGTTTTA
1 GGGGTAAAAATGTAATTT-TAGAAAA--TTTA
* *
13530883 -GGGTTAAAATATAATTTTAGAAAAGTTTA
1 GGGGTAAAAATGTAATTTTAGAAAA-TTTA
* * *
13530912 GGGGTTAAAATATAATTTATAGAAAGTTTTA
1 GGGGTAAAAATGTAATTT-TAGAAA-ATTTA
* * *
13530943 -GGGTTAAAATATAATTTTGGAAAAGTTTA
1 GGGGTAAAAATGTAATTTTAGAAAA-TTTA
* * *
13530972 AGGGTGAAAATATAATTTT
1 GGGGTAAAAATGTAATTTT
13530991 TAAATAGTTT
Statistics
Matches: 293, Mismatches: 50, Indels: 56
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.01
28 39 0.13
29 117 0.40
30 116 0.40
31 17 0.06
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTAGAAAATTTA
Found at i:13530850 original size:30 final size:29
Alignment explanation
Indices: 13530794--13530990 Score: 220
Period size: 30 Copynumber: 6.6 Consensus size: 29
13530784 GAAAACTTGG
* *
13530794 GGGTAAAAATGTAATTTTAG-AAAGTTTTA
1 GGGTTAAAATATAATTTTAGAAAAG-TTTA
* * *
13530823 AGGTCAAAATATAATTTTGGAAAAGTTTA
1 GGGTTAAAATATAATTTTAGAAAAGTTTA
* *
13530852 GGGGTCAAAATGTAATTTATA-AAAAGTTTTA
1 -GGGTTAAAATATAATTT-TAGAAAAG-TTTA
13530883 GGGTTAAAATATAATTTTAGAAAAGTTTA
1 GGGTTAAAATATAATTTTAGAAAAGTTTA
13530912 GGGGTTAAAATATAATTTATAG-AAAGTTTTA
1 -GGGTTAAAATATAATTT-TAGAAAAG-TTTA
*
13530943 GGGTTAAAATATAATTTTGGAAAAGTTTAA
1 GGGTTAAAATATAATTTTAGAAAAGTTT-A
*
13530973 GGGTGAAAATATAATTTT
1 GGGTTAAAATATAATTTT
13530991 TAAATAGTTT
Statistics
Matches: 147, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
29 31 0.21
30 104 0.71
31 12 0.08
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (29 bp):
GGGTTAAAATATAATTTTAGAAAAGTTTA
Found at i:13530895 original size:60 final size:60
Alignment explanation
Indices: 13530793--13531006 Score: 295
Period size: 60 Copynumber: 3.6 Consensus size: 60
13530783 GGAAAACTTG
* * * *
13530793 GGGGTAAAAATGTAATTT-TAGAAAGTTTTAAGGTCAAAATATAATTTTGGAAAAGTTTA
1 GGGGTAAAAATATAATTTATAAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTA
* * *
13530852 GGGGTCAAAATGTAATTTATAAAAAGTTTTAGGGTTAAAATATAATTTTAGAAAAGTTTA
1 GGGGTAAAAATATAATTTATAAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTA
* *
13530912 GGGGTTAAAATATAATTTATAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTA
1 GGGGTAAAAATATAATTTATAAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTA
* * * * *
13530972 AGGGTGAAAATATAATTTTTAAATAGTTTTGGGGT
1 GGGGTAAAAATATAATTTATAAAAAGTTTTAGGGT
13531007 CAAATACCAT
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
59 17 0.12
60 122 0.88
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (60 bp):
GGGGTAAAAATATAATTTATAAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTA
Found at i:13531006 original size:90 final size:89
Alignment explanation
Indices: 13530794--13531010 Score: 244
Period size: 90 Copynumber: 2.4 Consensus size: 89
13530784 GAAAACTTGG
* ** *
13530794 GGGTAAAAATGTAATTTTAGAAAGTTTTAAGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCA
1 GGGTAAAAATATAATTTTAGAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTAGGGGTCA
* *
13530859 AAATGTAATTTATAAAAAGTTTTA
66 AAATATAATTTATAAAAAGTTTAA
* * *
13530883 GGGTTAAAATATAATTTTAGAAAAGTTTAGGGGTTAAAATATAATTTATAG-AAAGTTTTA-GGG
1 GGGTAAAAATATAATTTTAG-AAAGTTTTGGGGTCAAAATATAATTT-TAGAAAAG-TTTAGGGG
* *
13530946 TTAAAATATAATTT-TGGAAAAGTTTAA
63 TCAAAATATAATTTAT-AAAAAGTTTAA
*
13530973 GGGTGAAAATATAATTTTTA-AATAGTTTTGGGGTCAAA
1 GGGTAAAAATATAA-TTTTAGAA-AGTTTTGGGGTCAAA
13531011 TACCATTTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
89 21 0.19
90 76 0.70
91 11 0.10
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (89 bp):
GGGTAAAAATATAATTTTAGAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTAGGGGTCA
AAATATAATTTATAAAAAGTTTAA
Found at i:13531357 original size:32 final size:33
Alignment explanation
Indices: 13531296--13531358 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
13531286 AATTATTGGG
* *
13531296 CCAAATTAAAATTAATTAAAAGTATGGAAAGGA
1 CCAAATTAAAATTAATTAAAAATACGGAAAGGA
* *
13531329 CCAAATTGAAA-TAATTAAAAATGCGGAAAG
1 CCAAATTAAAATTAATTAAAAATACGGAAAG
13531359 ACTAAATACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.22
Consensus pattern (33 bp):
CCAAATTAAAATTAATTAAAAATACGGAAAGGA
Found at i:13535140 original size:18 final size:19
Alignment explanation
Indices: 13535084--13535140 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
13535074 AAGCCTTTTT
*
13535084 AAAATT-TAAAATTTATTAA
1 AAAATTATAAAAGTTATT-A
*
13535103 AAAATCATAAAAGTTA-TA
1 AAAATTATAAAAGTTATTA
13535121 AAAATTATAAAA-TTATTA
1 AAAATTATAAAAGTTATTA
13535139 AA
1 AA
13535141 GTTTTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 3 0.09
18 16 0.48
19 6 0.18
20 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAGTTATTA
Found at i:13535271 original size:16 final size:17
Alignment explanation
Indices: 13535250--13535283 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
13535240 AATTTTTTAA
13535250 TAAAAATTTATAA-TTT
1 TAAAAATTTATAACTTT
13535266 TAAAAATTTATAACTTT
1 TAAAAATTTATAACTTT
13535283 T
1 T
13535284 CTTTGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAAATTTATAACTTT
Found at i:13537565 original size:24 final size:23
Alignment explanation
Indices: 13537516--13537565 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
13537506 TAAAGTAGGT
* *
13537516 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
13537539 TATACTATGATTTTTATTAAT-TCA
1 TATA-TATGATTTTTA-TAATATCA
13537563 TAT
1 TAT
13537566 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:13537685 original size:56 final size:56
Alignment explanation
Indices: 13537548--13537702 Score: 179
Period size: 56 Copynumber: 2.7 Consensus size: 56
13537538 ATATACTATG
* *
13537548 ATTT-TTATT-AATTCATATTTTAATAATAATTATATTAAGAATATTATTAAATTATAT
1 ATTTATTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATATGAATAAATTATAT
* * * * * *
13537605 ATTAATTTACTAAATTGTATTTAATAAAAATTATGTTAAAATATGAATAAATTATTT
1 ATTTA-TTATTAAATTATATTTAATAATAATTATATTAAAATATGAATAAATTATAT
*
13537662 ATTTATTATTAAATTATATTTAATAATAATTTTATTAAAAT
1 ATTTATTATTAAATTATATTTAATAATAATTATATTAAAAT
13537703 TTAATAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 31 0.38
57 22 0.27
58 18 0.22
59 6 0.07
60 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (56 bp):
ATTTATTATTAAATTATATTTAATAATAATTATATTAAAATATGAATAAATTATAT
Found at i:13539360 original size:59 final size:59
Alignment explanation
Indices: 13539283--13539656 Score: 441
Period size: 59 Copynumber: 6.4 Consensus size: 59
13539273 TTGGACGCAC
* * * * * *
13539283 GGGGCAAAATGCTAATTTTTGGTTAAACCAGGGCT-AAAATGGAATTTTGGAAAGTTTGG
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAG-TTCG
* * * * *
13539342 GGGGTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAGAT-AAGATCTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGA-ATTTTGGAAAGTTCG
** * *
13539401 GGGGTAAAATGGTAATTTTTTATGAACCCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
**** *
13539460 GGGGTAAAATGGTAA-TTTTGGTGAAATTAAGGTTAAAAATAGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* * * * * * **
13539518 AGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTTAATACGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
*
13539577 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGGAAGTTC-
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
13539635 GGGGTAAAATGGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
13539657 ACAGTCCAGG
Statistics
Matches: 265, Mismatches: 46, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
58 72 0.27
59 178 0.67
60 15 0.06
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
Found at i:13539525 original size:117 final size:116
Alignment explanation
Indices: 13539282--13539655 Score: 448
Period size: 117 Copynumber: 3.2 Consensus size: 116
13539272 TTTGGACGCA
* * * * * *
13539282 CGGGGCAAAATGCTAATTTTTGGTTAAACC-AGGGCT-AAAATGGAATTTTGGAAAGTTTGGGGG
1 CGGGGTAAAATGGTAATTTTTGATGAAACCGA-GGTTAAAAATGGAATTTTGGAAAG-TTCGGGG
* * *
13539345 GTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAGATA-AGATCTTGGAAAGTT
64 GTAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATAGA-ATTTTGGAAAGTT
* *
13539399 CGGGGGTAAAATGGTAATTTTTTATGAACCCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
1 C-GGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
***
13539464 TAAAATGGTAATTTTGGTGAAATTAAGGTTAAAAATAGAATTTTGGAAAGTT
65 TAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTT
* * * * * **
13539516 CGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTTAATACGGAATTTTGGAAAGTTTAGGGG
1 CG-GGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
* * *
13539581 TAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGGAAGTT
65 TAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTT
13539634 CGGGGTAAAATGGTAATTTTTG
1 CGGGGTAAAATGGTAATTTTTG
13539656 GACAGTCCAG
Statistics
Matches: 222, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
116 1 0.00
117 121 0.55
118 80 0.36
119 20 0.09
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (116 bp):
CGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTT
Found at i:13539571 original size:176 final size:176
Alignment explanation
Indices: 13539318--13539653 Score: 489
Period size: 176 Copynumber: 1.9 Consensus size: 176
13539308 AACCAGGGCT
* * * * *
13539318 AAAATGGAATTTTGGAAAGTTTGGGGGGTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAGAT
1 AAAATAGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAGAT
* * *
13539383 AAGATCTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTTATGAACCCGAGGTTAAAAATGGAATT
66 AAGATCTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGGAATT
13539448 TTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTGAAATTAAGGTTA
131 TTGGAAAGTTC-GGGGTAAAATGGTAATTTTGGTGAAATTAAGGTTA
*
13539495 AAAATAGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-TA-AT
1 AAAATAGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAGAT
* * * * *
13539557 ACGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAA
66 A-AG-ATCTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGGAA
*
13539622 TTTTGGGAAGTTCGGGGTAAAATGGTAATTTT
129 TTTTGGAAAGTTCGGGGTAAAATGGTAATTTT
13539654 TGGACAGTCC
Statistics
Matches: 142, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
174 3 0.02
175 21 0.15
176 100 0.70
177 18 0.13
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.33
Consensus pattern (176 bp):
AAAATAGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAGAT
AAGATCTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGGAATT
TTGGAAAGTTCGGGGTAAAATGGTAATTTTGGTGAAATTAAGGTTA
Found at i:13540434 original size:14 final size:14
Alignment explanation
Indices: 13540415--13540441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13540405 TGAGCCAAAA
13540415 CCAGATCTGGAAAC
1 CCAGATCTGGAAAC
13540429 CCAGATCTGGAAA
1 CCAGATCTGGAAA
13540442 TTTCCAACAT
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:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (14 bp):
CCAGATCTGGAAAC
Found at i:13540704 original size:20 final size:20
Alignment explanation
Indices: 13540679--13540762 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
13540669 CTTTTTTATT
13540679 TTATTATAAATTAATATTTA
1 TTATTATAAATTAATATTTA
** *
13540699 TTATTA-AAACCAAAACTTTA
1 TTATTATAAATTAATA-TTTA
**
13540719 TTATTATTTAAAAAATATATTTA
1 TTATTA--TAAATTA-ATATTTA
*
13540742 TTATTAT-TATTAATA-TTA
1 TTATTATAAATTAATATTTA
13540760 TTA
1 TTA
13540763 ATGCTTCTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 18 0.36
21 1 0.02
23 14 0.28
24 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTATAAATTAATATTTA
Found at i:13541539 original size:6 final size:6
Alignment explanation
Indices: 13541528--13541621 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
13541518 TTAAATTTGA
* * *
13541528 TTAAAT TTAAAT CTAAA- ATAAAT TTAAAT AAGTAAAT TTAAAT TTAAGA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAA-AT
* ** *
13541577 -TAAAT TTAAAT TGAAA- ACAAAT TTAAAA TT-AAT TTAAACT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAA
13541622 AGCCCAAGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
4 1 0.01
5 14 0.21
6 40 0.60
7 7 0.10
8 5 0.07
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAT
Found at i:13541549 original size:17 final size:16
Alignment explanation
Indices: 13541529--13541608 Score: 83
Period size: 17 Copynumber: 4.9 Consensus size: 16
13541519 TAAATTTGAT
13541529 TAAATTTAAATCTAAAA
1 TAAATTTAAAT-TAAAA
*
13541546 TAAATTTAAA-T-AAG
1 TAAATTTAAATTAAAA
*
13541560 TAAATTTAAATTTAAGA
1 TAAATTTAAA-TTAAAA
13541577 TAAATTTAAATTGAAAA
1 TAAATTTAAATT-AAAA
*
13541594 CAAATTTAAAATTAA
1 TAAATTT-AAATTAA
13541609 TTTAAACTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.23
15 1 0.02
16 3 0.06
17 32 0.60
18 5 0.09
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (16 bp):
TAAATTTAAATTAAAA
Found at i:13541566 original size:31 final size:31
Alignment explanation
Indices: 13541529--13541587 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
13541519 TAAATTTGAT
13541529 TAAATTTAAATCTAAAATAAATTTAAATAAG
1 TAAATTTAAATCTAAAATAAATTTAAATAAG
* *
13541560 TAAATTTAAATTTAAGATAAATTTAAAT
1 TAAATTTAAATCTAAAATAAATTTAAAT
13541588 TGAAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAATTTAAATCTAAAATAAATTTAAATAAG
Found at i:13541986 original size:76 final size:76
Alignment explanation
Indices: 13541890--13542858 Score: 1523
Period size: 76 Copynumber: 12.8 Consensus size: 76
13541880 TTCTCTTCAG
* * * * *
13541890 AGAGATAAAGACTTGCTATCCAACTTTACTTAAATTTCAAGAGGATGGGAAACGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13541955 ACTTCAATTTC
66 ACTTCAATTTC
* * * * *
13541966 AAAGATAAAAACTTGTTATCCAACTCTACTTTAATTTCAAGAGGATGGGAAACGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542031 ACTTCAATTTC
66 ACTTCAATTTC
* * *
13542042 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542107 ACTTCAATTTC
66 ACTTCAATTTC
* * * * * *
13542118 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGGGAAACGATCCTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542183 ACTTCAATTTC
66 ACTTCAATTTC
13542194 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542259 ACTTCAATTTC
66 ACTTCAATTTC
* *
13542270 AGAGATAAAGACTTGATATCCAACTCTACTTTAATTTCAAGAGGATAGGAAATGA-CGTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
13542334 TACTTCAATTTC
65 TACTTCAATTTC
* * * *
13542346 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGATGATAGGAAAAGATCTTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542410 ACTTCAATTTC
66 ACTTCAATTTC
* *
13542421 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542485 ACTTCAATTTC
66 ACTTCAATTTC
* * * * * *
13542496 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGGGAAACGATCCTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542561 ACTTCAATTTC
66 ACTTCAATTTC
* *
13542572 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542636 ACTTCAATTTC
66 ACTTCAATTTC
* * * * **
13542647 AGAGATAAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAGGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542712 ACTTCAATTTC
66 ACTTCAATTTC
*
13542723 AGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
13542788 ACTTCAATTTC
66 ACTTCAATTTC
13542799 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTG
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTG
13542859 GATTGATGTG
Statistics
Matches: 825, Mismatches: 64, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
75 208 0.25
76 617 0.75
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
ACTTCAATTTC
Found at i:13566179 original size:28 final size:28
Alignment explanation
Indices: 13566148--13566207 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
13566138 AAAATGGGAC
* *
13566148 TTTTGGATACCCGGGGGCAAAATAGTAA
1 TTTTGGACACCCGAGGGCAAAATAGTAA
* * *
13566176 TTTTGGACGCGCGAGGGCAAAATGGTAA
1 TTTTGGACACCCGAGGGCAAAATAGTAA
13566204 TTTT
1 TTTT
13566208 TGGTTAAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (28 bp):
TTTTGGACACCCGAGGGCAAAATAGTAA
Found at i:13566562 original size:59 final size:58
Alignment explanation
Indices: 13566194--13566560 Score: 520
Period size: 59 Copynumber: 6.3 Consensus size: 58
13566184 GCGCGAGGGC
* * * *
13566194 AAAATGGTAATTTTTGGTTAAACCGGGGCT-AAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGT
* * * *
13566252 AAAATGGTAATTTTTGATGAAATTGAGGTTAAAAATGGAATGTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG-GGGT
13566311 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GGGGT
* * * * * **
13566370 AAAATGGTAATTTTTGATGAAACCGAGGTTTAATATGGAATTTTGGAAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGT
* *
13566429 AAAATGGTAATTTTTGGTGAAATTGGTGTTAAAAATGGAATTTTGGAAAGTTCGGGTGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGG-GT
13566488 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGT
*
13566546 AAGATGGTAATTTTT
1 AAAATGGTAATTTTT
13566561 TGACAGTCTA
Statistics
Matches: 273, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
58 47 0.17
59 223 0.82
60 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGT
Found at i:13566563 original size:177 final size:176
Alignment explanation
Indices: 13566194--13566560 Score: 605
Period size: 177 Copynumber: 2.1 Consensus size: 176
13566184 GCGCGAGGGC
* * *
13566194 AAAATGGTAATTTTTGGTTAAACCGGGGCTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGG
1 AAAATGGTAATTTTTGATGAAACCGGGGCTAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGG
13566259 TAATTTTTGATGAAATTGAGGTTAAAAATGGAATGTTGGAAAGTTCGAGGGTAAAATGGTAATTT
66 TAATTTTTGATGAAATTGAGGTTAAAAATGGAATGTTGGAAAGTTCGAGGGTAAAATGGTAATTT
13566324 TTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
131 TTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
** *
13566370 AAAATGGTAATTTTTGATGAAACCGAGGTTTAATATGGAATTTTGGAAAGTTTAAGGGTAAAATG
1 AAAATGGTAATTTTTGATGAAACCG-GGGCTAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATG
* *
13566435 GTAATTTTTGGTGAAATTG-GTGTTAAAAATGGAATTTTGGAAAGTTCG-GGTGTAAAATGGTAA
65 GTAATTTTTGATGAAATTGAG-GTTAAAAATGGAATGTTGGAAAGTTCGAGG-GTAAAATGGTAA
13566498 TTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GGGGT
128 TTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
*
13566546 AAGATGGTAATTTTT
1 AAAATGGTAATTTTT
13566561 TGACAGTCTA
Statistics
Matches: 179, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
176 45 0.25
177 134 0.75
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (176 bp):
AAAATGGTAATTTTTGATGAAACCGGGGCTAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGG
TAATTTTTGATGAAATTGAGGTTAAAAATGGAATGTTGGAAAGTTCGAGGGTAAAATGGTAATTT
TTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
Found at i:13567346 original size:41 final size:41
Alignment explanation
Indices: 13567301--13567477 Score: 155
Period size: 42 Copynumber: 4.3 Consensus size: 41
13567291 CGCTTTCCAC
* *
13567301 AAAGCGCCGTTAAAGGTCGGGTCATTAGCGGCGCTTATAGA
1 AAAGCGCCGCTAAAGGTCGGATCATTAGCGGCGCTTATAGA
** * * *
13567342 AAAGCGCCGCTAAAGGTCTTATCAGTAGCGGCGCTTTTATA
1 AAAGCGCCGCTAAAGGTCGGATCATTAGCGGCGCTTATAGA
** * * *
13567383 ATAAGCGCCGCTAAAGACCTGACCTTTAGCGGCGCTTATTAGA
1 A-AAGCGCCGCTAAAGGTCGGATCATTAGCGGCGCTTA-TAGA
* *
13567426 AAAGCGCCACTAAAGGT-GTGA--ATTAGCGGCGCTT-TCACA
1 AAAGCGCCGCTAAAGGTCG-GATCATTAGCGGCGCTTAT-AGA
*
13567465 TAAGCGCCGCTAA
1 AAAGCGCCGCTAA
13567478 TTTATTTAAC
Statistics
Matches: 109, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 12 0.11
41 35 0.32
42 44 0.40
43 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (41 bp):
AAAGCGCCGCTAAAGGTCGGATCATTAGCGGCGCTTATAGA
Found at i:13568584 original size:16 final size:16
Alignment explanation
Indices: 13568559--13568591 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13568549 ATTTAGTTTG
13568559 ATTAATTTAAAA-AAA
1 ATTAATTTAAAAGAAA
13568574 ATTAGATTTAAAAGAAA
1 ATTA-ATTTAAAAGAAA
13568591 A
1 A
13568592 AAACAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATTAATTTAAAAGAAA
Found at i:13570182 original size:12 final size:12
Alignment explanation
Indices: 13570165--13570195 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
13570155 AATTAGGAAG
13570165 GTATTACAGTCA
1 GTATTACAGTCA
13570177 GTATTACAGTCA
1 GTATTACAGTCA
13570189 GTATTAC
1 GTATTAC
13570196 CCATTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (12 bp):
GTATTACAGTCA
Found at i:13571085 original size:18 final size:18
Alignment explanation
Indices: 13571064--13571325 Score: 108
Period size: 18 Copynumber: 13.9 Consensus size: 18
13571054 TTAAAGTAAA
13571064 TAATTATATTTAATTATT
1 TAATTATATTTAATTATT
* *
13571082 TAATTATGTTTAATTATA
1 TAATTATATTTAATTATT
* **
13571100 TAGTTA-ATTATAAACAGTAT
1 TAATTATATT-TAATTA-T-T
*
13571120 TAGTTA-ATTTAA-TATT
1 TAATTATATTTAATTATT
*
13571136 TAATTTGAAAGATTTAATTATT
1 TAA-TT---ATATTTAATTATT
13571158 TAATTATATTTAATTATT
1 TAATTATATTTAATTATT
*
13571176 TAATTATGTTTAATTAAATATT
1 TAATTATATTTAA-T---TATT
*** * *
13571198 TAATTATAAACAGTATCAGT
1 TAATTATATTTA--ATTATT
13571218 TAATTAAATATTTAA-T-TT
1 TAATT--ATATTTAATTATT
* *
13571236 GAA--AGATTTAATTATT
1 TAATTATATTTAATTATT
* *
13571252 TAATTATATTTAAATGAATA
1 TAATTATATTT-AAT-TATT
* *
13571272 AAATTAAAATATT-ATTATT
1 TAATT-ATAT-TTAATTATT
13571291 TAATTATATTTAATTATT
1 TAATTATATTTAATTATT
* *
13571309 TAACTATGTTTAATTAT
1 TAATTATATTTAATTAT
13571326 ATATTTAATT
Statistics
Matches: 182, Mismatches: 36, Indels: 52
0.67 0.13 0.19
Matches are distributed among these distances:
14 7 0.04
15 1 0.01
16 7 0.04
17 7 0.04
18 82 0.45
19 14 0.08
20 26 0.14
21 11 0.06
22 25 0.14
23 1 0.01
24 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (18 bp):
TAATTATATTTAATTATT
Found at i:13571139 original size:32 final size:32
Alignment explanation
Indices: 13571091--13571367 Score: 123
Period size: 32 Copynumber: 8.6 Consensus size: 32
13571081 TTAATTATGT
* *
13571091 TTAATTATATAGTTAATTATAAACAGTATTAG
1 TTAATTAAATATTTAATTATAAACAGTATTAG
* * *
13571123 TTAATTTAATATTTAATT-TGAA-AG-ATTTAA
1 TTAATTAAATATTTAATTATAAACAGTA-TTAG
* ** *
13571153 TTATTTAATTATATTTAATTATTTA-ATTA-T-G
1 TTAATTAA--ATATTTAATTATAAACAGTATTAG
*
13571184 TTTAATTAAATATTTAATTATAAACAGTATCAG
1 -TTAATTAAATATTTAATTATAAACAGTATTAG
* *
13571217 TTAATTAAATATTTAATT-TGAA-AG-ATTTAA
1 TTAATTAAATATTTAATTATAAACAGTA-TTAG
* * * *
13571247 TTATTTAATTATATTTAAATGAATAAAATTAAAATATTA-
1 TTAATTAA--ATATTT-AAT---TATAA--ACAGTATTAG
* *
13571286 TTATTTAATTATATTTAATTATTTAAC--TA-T-G
1 TTAATTAA--ATATTTAATTA-TAAACAGTATTAG
* *
13571317 TTTAATTATATATTTAATTATAAACAGTATCAG
1 -TTAATTAAATATTTAATTATAAACAGTATTAG
13571350 TTAATTAAATATTTAATT
1 TTAATTAAATATTTAATT
13571368 TGAAAGATTT
Statistics
Matches: 186, Mismatches: 31, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
29 6 0.03
30 46 0.25
31 12 0.06
32 82 0.44
33 8 0.04
34 2 0.01
35 2 0.01
36 2 0.01
37 1 0.01
38 3 0.02
39 17 0.09
40 4 0.02
41 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (32 bp):
TTAATTAAATATTTAATTATAAACAGTATTAG
Found at i:13571160 original size:8 final size:8
Alignment explanation
Indices: 13571147--13571204 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
13571137 AATTTGAAAG
13571147 ATTTAATT
1 ATTTAATT
13571155 ATTTAATTAT
1 ATTTAA-T-T
13571165 ATTTAATT
1 ATTTAATT
13571173 ATTTAATT
1 ATTTAATT
*
13571181 ATGT--TT
1 ATTTAATT
* *
13571187 AATTAAAT
1 ATTTAATT
13571195 ATTTAATT
1 ATTTAATT
13571203 AT
1 AT
13571205 AAACAGTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 4 0.10
8 27 0.68
9 2 0.05
10 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
ATTTAATT
Found at i:13571161 original size:54 final size:54
Alignment explanation
Indices: 13571103--13571259 Score: 162
Period size: 54 Copynumber: 3.2 Consensus size: 54
13571093 AATTATATAG
13571103 TTAATTATAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTAT
1 TTAATTATAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTAT
* * * *
13571157 TTAATTAT----A-T-TTAATT-ATTTAAT-TAT-GTTT---A-A-TTAAATAT
1 TTAATTATAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTAT
* *
13571197 TTAATTATAAACAGTATCAGTTAATTAAATATTTAATTTGAAAGATTTAATTAT
1 TTAATTATAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTAT
13571251 TTAATTATA
1 TTAATTATA
13571260 TTTAAATGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 28
0.68 0.09 0.24
Matches are distributed among these distances:
40 15 0.19
41 1 0.01
42 1 0.01
44 1 0.01
45 4 0.05
46 6 0.08
47 13 0.16
48 7 0.09
49 4 0.05
50 1 0.01
52 1 0.01
53 1 0.01
54 24 0.30
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (54 bp):
TTAATTATAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTAT
Found at i:13571228 original size:94 final size:94
Alignment explanation
Indices: 13571064--13571264 Score: 366
Period size: 94 Copynumber: 2.1 Consensus size: 94
13571054 TTAAAGTAAA
* *
13571064 TAATTATATTTAATTATTTAATTATGTTTAATTATATAGTTAATTATAAACAGTATTAGTTAATT
1 TAATTATATTTAATTATTTAATTATGTTTAATTAAATAGTTAATTATAAACAGTATCAGTTAATT
*
13571129 TAATATTTAATTTGAAAGATTTAATTATT
66 AAATATTTAATTTGAAAGATTTAATTATT
*
13571158 TAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAATT
1 TAATTATATTTAATTATTTAATTATGTTTAATTAAATAGTTAATTATAAACAGTATCAGTTAATT
13571223 AAATATTTAATTTGAAAGATTTAATTATT
66 AAATATTTAATTTGAAAGATTTAATTATT
13571252 TAATTATATTTAA
1 TAATTATATTTAA
13571265 ATGAATAAAA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 103 1.00
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (94 bp):
TAATTATATTTAATTATTTAATTATGTTTAATTAAATAGTTAATTATAAACAGTATCAGTTAATT
AAATATTTAATTTGAAAGATTTAATTATT
Found at i:13571294 original size:133 final size:133
Alignment explanation
Indices: 13571152--13571721 Score: 718
Period size: 133 Copynumber: 4.2 Consensus size: 133
13571142 GAAAGATTTA
*
13571152 ATTATTTAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATCAG
1 ATTATTTAATTATATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATCAG
13571217 TTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAAT
66 TTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAAT
13571282 ATT
131 ATT
*
13571285 ATTATTTAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAG
1 ATTATTTAATTATATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATCAG
13571350 TTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAAT
66 TTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAAT
13571415 ATT
131 ATT
* ** * *
13571418 AAAGTAAATAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATT
1 --ATTATTTAATTATATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATC
* * * * * *
13571483 AGTT-ATTTAATATTTAATTTAAAAGATTTAATTATTTAATTATGTTTAATTAAATATTTAATTA
64 AGTTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATA---AAAT-
13571547 TAAACAGTATT
125 TAAA-A-TATT
* *
13571558 AGTTAATTTAATATTTAATTTAAAAGATGTTATTATTTAATTATGTTTAATTAAATATTTAATTA
1 A-TT-ATTTAAT-TAT-ATTT-----A----ATTATTTAACTATGTTTAATTAAATATTTAATTA
* *
13571623 TAAACAGTATTAGTTAATTTAATATTTAATTTGAAAGATTTAATTATTTAATTATA-TTAAA-GT
53 TAAACAGTATCAGTTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATG-
* * * *
13571686 AA-ATAATTATATTA-A
117 AATAAAATTAAAATATT
13571701 ATTATTTAATTATATTTAATT
1 ATTATTTAATTATATTTAATT
13571722 TATTCTTTAG
Statistics
Matches: 386, Mismatches: 28, Indels: 49
0.83 0.06 0.11
Matches are distributed among these distances:
130 3 0.01
133 131 0.34
134 48 0.12
135 63 0.16
137 3 0.01
138 5 0.01
139 6 0.02
140 11 0.03
141 9 0.02
142 6 0.02
143 1 0.00
144 2 0.01
146 3 0.01
147 3 0.01
150 1 0.00
151 53 0.14
152 38 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (133 bp):
ATTATTTAATTATATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATCAG
TTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAAT
ATT
Found at i:13571302 original size:10 final size:10
Alignment explanation
Indices: 13571282--13571338 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
13571272 AAATTAAAAT
13571282 ATTATTATTTA
1 ATTA-TATTTA
13571293 ATTATATTTA
1 ATTATATTTA
13571303 A-T-TATTTA
1 ATTATATTTA
* *
13571311 ACTATGTTTA
1 ATTATATTTA
13571321 ATTATATATTTA
1 A-T-TATATTTA
13571333 ATTATA
1 ATTATA
13571339 AACAGTATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 7 0.18
9 2 0.05
10 17 0.44
11 5 0.13
12 8 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTATATTTA
Found at i:13571397 original size:76 final size:74
Alignment explanation
Indices: 13571298--13571680 Score: 386
Period size: 76 Copynumber: 5.3 Consensus size: 74
13571288 ATTTAATTAT
* * *
13571298 ATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATTAAATATT
1 ATTTAATTATTTAATTATATTTAA--ATATATTTAATTATAAACAGTATTAGTTAATTAAATATT
13571363 TAATTTGAAAG
64 TAATTTGAAAG
* * * *
13571374 ATTTAATTATTTAATTATATTTAAATGA-A-TAAAAT-TAAA-A-TATTA---AAGTAAATAATT
1 ATTTAATTATTTAATTATATTTAAAT-ATATTTAATTATAAACAGTATTAGTTAATTAAATATTT
**
13571431 ATATTT-AATT
65 A-ATTTGAAAG
* * *
13571441 ATTTAACTATGT--TTA-A-TT--ATATATTTAATTATAAACAGTATTAGTT-ATTTAATATTTA
1 ATTTAATTATTTAATTATATTTAAATATATTTAATTATAAACAGTATTAGTTAATTAAATATTTA
*
13571499 ATTTAAAAG
66 ATTTGAAAG
* * *
13571508 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
1 ATTTAATTATTTAATTATATTTAA--ATATATTTAATTATAAACAGTATTAGTTAATTAAATATT
*
13571573 TAATTTAAAAG
64 TAATTTGAAAG
* * *
13571584 ATGTT-ATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATAT
1 AT-TTAATTATTTAATTATATTTAA--ATATATTTAATTATAAACAGTATTAGTTAATTAAATAT
13571648 TTAATTTGAAAG
63 TTAATTTGAAAG
13571660 ATTTAATTATTTAATTATATT
1 ATTTAATTATTTAATTATATT
13571681 AAAGTAAATA
Statistics
Matches: 261, Mismatches: 24, Indels: 44
0.79 0.07 0.13
Matches are distributed among these distances:
60 1 0.00
61 3 0.01
62 4 0.02
63 6 0.02
64 2 0.01
65 8 0.03
66 4 0.02
67 44 0.17
68 4 0.02
69 3 0.01
70 4 0.02
71 3 0.01
72 4 0.02
73 4 0.02
74 3 0.01
75 30 0.11
76 132 0.51
77 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (74 bp):
ATTTAATTATTTAATTATATTTAAATATATTTAATTATAAACAGTATTAGTTAATTAAATATTTA
ATTTGAAAG
Found at i:13571690 original size:76 final size:76
Alignment explanation
Indices: 13571433--13571677 Score: 440
Period size: 76 Copynumber: 3.2 Consensus size: 76
13571423 AAATAATTAT
* *
13571433 ATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATTAGTT-ATTTAATATT
1 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
13571497 TAATTTAAAAG
66 TAATTTAAAAG
13571508 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
1 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
13571573 TAATTTAAAAG
66 TAATTTAAAAG
13571584 ATGTT-ATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATAT
1 AT-TTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATAT
*
13571648 TTAATTTGAAAG
65 TTAATTTAAAAG
13571660 ATTTAATTATTTAATTAT
1 ATTTAATTATTTAATTAT
13571678 ATTAAAGTAA
Statistics
Matches: 164, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
75 54 0.33
76 108 0.66
77 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (76 bp):
ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
TAATTTAAAAG
Found at i:13571709 original size:210 final size:209
Alignment explanation
Indices: 13571165--13571711 Score: 638
Period size: 210 Copynumber: 2.6 Consensus size: 209
13571155 ATTTAATTAT
* *
13571165 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAATTAAATATT
1 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
*
13571230 TAATTTGAAAGATTTAATTATTTAATTATATTTAAA-TGAATAA--A-ATTAAAATATTATTATT
66 TAATTTGAAAGATTTAATTATTTAATTATA-TTAAAGT-AATAATTATATT-AAATATT-TAATT
* * *
13571291 TAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATT
127 TAATAAGATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAATT
*
13571356 AAATATTTAATTTGAAAG
192 AAATATTTAATTTAAAAG
* * * * * *
13571374 ATTTAATTATTTAATTATATTTAAATGAATAAA-ATTAAAATATTAA-AGTAAATAATTATATTT
1 ATTTAATTATTTAATTATGTTT-AAT---TAAATATTTAATTATAAACAGT-ATTAGTTA-ATTT
* ** * *
13571437 AATTATTTAACTATGTTTA-A-TT-ATATATTTAATTATA--AACAGTATTAGTTAT-TT-AATA
60 AA-TATTTAA-TTTG-AAAGATTTAAT-TATTTAATTATATTAA-AGTAATAATTATATTAAATA
* *
13571495 TTTAATTTAA-AAGATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTA
120 TTTAATTTAATAAGATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATCA
*
13571559 GTTAATTTAATATTTAATTTAAAAG
185 GTTAATTAAATATTTAATTTAAAAG
13571584 ATGTT-ATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATAT
1 AT-TTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATAT
13571648 TTAATTTGAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATT
65 TTAATTTGAAAGATTTAATTATTTAATTATATTAAAGT-AATAATTATATTAAA-TATTTAATT
13571712 ATATTTAATT
Statistics
Matches: 279, Mismatches: 32, Indels: 53
0.77 0.09 0.15
Matches are distributed among these distances:
203 1 0.00
204 4 0.01
205 21 0.08
206 15 0.05
207 25 0.09
208 5 0.02
209 26 0.09
210 102 0.37
211 14 0.05
212 25 0.09
213 12 0.04
214 24 0.09
215 4 0.01
216 1 0.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (209 bp):
ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
TAATTTGAAAGATTTAATTATTTAATTATATTAAAGTAATAATTATATTAAATATTTAATTTAAT
AAGATTTAATTATTTAACTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAATTAAAT
ATTTAATTTAAAAG
Found at i:13571721 original size:18 final size:18
Alignment explanation
Indices: 13571664--13571721 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
13571654 TGAAAGATTT
13571664 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
13571682 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
*
13571700 AATTATTTAATTATATTT
1 AATTATTTAATTATATTA
13571718 AATT
1 AATT
13571722 TATTCTTTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:13572014 original size:8 final size:8
Alignment explanation
Indices: 13572001--13572101 Score: 73
Period size: 8 Copynumber: 12.1 Consensus size: 8
13571991 AATTTGAAAG
13572001 ATTTAATT
1 ATTTAATT
13572009 ATTTAATTAT
1 ATTTAA-T-T
13572019 ATTTAATT
1 ATTTAATT
** *
13572027 AAATATTT
1 ATTTAATT
13572035 ATTTTGAAATAT
1 A-TTT--AAT-T
13572047 ATTTAATT
1 ATTTAATT
13572055 ATTTAATT
1 ATTTAATT
13572063 ATTTAATT
1 ATTTAATT
*
13572071 ATACTAA--
1 AT-TTAATT
*
13572078 A-TTAAAT
1 ATTTAATT
13572085 ATTTAATT
1 ATTTAATT
13572093 ATTTAATT
1 ATTTAATT
13572101 A
1 A
13572102 ATGAAAACAA
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
5 3 0.04
7 2 0.03
8 46 0.62
9 9 0.12
10 7 0.09
11 5 0.07
12 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (8 bp):
ATTTAATT
Found at i:13572053 original size:28 final size:26
Alignment explanation
Indices: 13572007--13572089 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
13571997 AAAGATTTAA
*
13572007 TTATTTAATTATATTTAATTAAATAT
1 TTATTTAAATATATTTAATTAAATAT
** *
13572033 TTATTTTGAAATATATTTAATTATTTAA
1 TTA-TTT-AAATATATTTAATTAAATAT
* * *
13572061 TTATTTAATTATACTAAATTAAATAT
1 TTATTTAAATATATTTAATTAAATAT
13572087 TTA
1 TTA
13572090 ATTATTTAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 20 0.44
27 6 0.13
28 19 0.42
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATTTAAATATATTTAATTAAATAT
Found at i:13577687 original size:65 final size:66
Alignment explanation
Indices: 13577580--13577726 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
13577570 CAAATTGCTC
* *
13577580 AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTC-AAAAAAATATGATGAACTCCATTTA
1 AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCATCTA
13577644 A
66 A
* * * *
13577645 AATTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCATCTA
1 AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCATCTA
*
13577710 C
66 A
*
13577711 AACTTAAAGTGGAGGC
1 AACTTAAAGAGGAGGC
13577727 AGCAACGAGG
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
65 35 0.49
66 37 0.51
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.18
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCATCTA
A
Found at i:13577745 original size:21 final size:21
Alignment explanation
Indices: 13577721--13577763 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13577711 AACTTAAAGT
13577721 GGAGGCAGCAACGAGGCAAGC
1 GGAGGCAGCAACGAGGCAAGC
*
13577742 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAACGAGGCAAGC
13577763 G
1 G
13577764 AAGAAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.47, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAACGAGGCAAGC
Found at i:13577772 original size:21 final size:21
Alignment explanation
Indices: 13577727--13577773 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13577717 AAGTGGAGGC
* * **
13577727 AGCAACGAGGCAAGCGGAGGC
1 AGCAGCGAGGCAAGCGAAGAA
13577748 AGCAGCGAGGCAAGCGAAGAA
1 AGCAGCGAGGCAAGCGAAGAA
13577769 AGCAG
1 AGCAG
13577774 AGGCTACAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.40, T:0.00
Consensus pattern (21 bp):
AGCAGCGAGGCAAGCGAAGAA
Found at i:13578117 original size:43 final size:44
Alignment explanation
Indices: 13578056--13578389 Score: 504
Period size: 43 Copynumber: 7.8 Consensus size: 44
13578046 ATCTGTTATA
* * * *
13578056 TTAGCGACGCTTTTGGAG-AAAGCGCCGCTAAAGAACAAGGGCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
*
13578099 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGGCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
13578143 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATAGG-CT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACAT-GGCCT
* *
13578187 TTAGCGGCACTTGTGGAG-AAAGCGCCGCTAAAAAACAT-GCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
13578229 TTAGCGGCGCTTGTGGAG-AAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
13578272 TTAGCGGCGCTTGTGGAG-AAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
* * * *
13578315 TTAGTGGTGTTTGTGG-GAAAAGCGCCGTTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
13578358 TTAGCGGCGCTTGTGG-GAAAAGCGCCGCTAAA
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAA
13578390 AGCCATGTTC
Statistics
Matches: 271, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.00
42 39 0.14
43 147 0.54
44 82 0.30
45 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.20
Consensus pattern (44 bp):
TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
Found at i:13578679 original size:14 final size:14
Alignment explanation
Indices: 13578660--13578686 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13578650 TGAGCCAAAA
13578660 CCAGATCTGGAAAC
1 CCAGATCTGGAAAC
13578674 CCAGATCTGGAAA
1 CCAGATCTGGAAA
13578687 TTTCCAACAT
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:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (14 bp):
CCAGATCTGGAAAC
Found at i:13579785 original size:17 final size:16
Alignment explanation
Indices: 13579765--13579822 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
13579755 TAAATTTGAT
13579765 TAAATTTAAATCTAAAA
1 TAAATTTAAAT-TAAAA
*
13579782 TAAATTTAAA-T-AAG
1 TAAATTTAAATTAAAA
13579796 TAAATTTAAATTTAAAA
1 TAAATTTAAA-TTAAAA
*
13579813 CAAATTTAAA
1 TAAATTTAAA
13579823 CTTTAAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 21 0.60
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATTTAAATTAAAA
Found at i:13579829 original size:18 final size:17
Alignment explanation
Indices: 13579766--13579830 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
13579756 AAATTTGATT
* *
13579766 AAATTTAAATCTAAAAT
1 AAATTTAAATTTAAAAC
**
13579783 AAATTTAAA--T-AAGT
1 AAATTTAAATTTAAAAC
13579797 AAATTTAAATTTAAAAC
1 AAATTTAAATTTAAAAC
13579814 AAATTTAAACTTTAAAA
1 AAATTTAAA-TTTAAAA
13579831 GCTCAAGCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
16 1 0.02
17 20 0.49
18 7 0.17
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATTTAAATTTAAAAC
Found at i:13581497 original size:12 final size:12
Alignment explanation
Indices: 13581480--13581591 Score: 118
Period size: 12 Copynumber: 9.4 Consensus size: 12
13581470 ATAACATCCA
*
13581480 AACAACCAAAAT
1 AACAACAAAAAT
*
13581492 AACAACTAAAAT
1 AACAACAAAAAT
* *
13581504 AGCAGCAAAAAT
1 AACAACAAAAAT
*
13581516 AACAGC-AAAAT
1 AACAACAAAAAT
13581527 AACAACAAAAAT
1 AACAACAAAAAT
* *
13581539 AGCAACAAAAAC
1 AACAACAAAAAT
*
13581551 AGCAACAAAAAT
1 AACAACAAAAAT
*
13581563 AACAACAAAAAC
1 AACAACAAAAAT
**
13581575 AGTAACAAAAAT
1 AACAACAAAAAT
13581587 AACAA
1 AACAA
13581592 TATCAAAACA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
11 10 0.12
12 73 0.88
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.08
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:13581515 original size:24 final size:24
Alignment explanation
Indices: 13581482--13581591 Score: 134
Period size: 24 Copynumber: 4.6 Consensus size: 24
13581472 AACATCCAAA
* * *
13581482 CAACCAAAATAACAACTAAAATAG
1 CAACAAAAATAACAACAAAAACAG
* *
13581506 CAGCAAAAATAACAGCAAAATA-A-
1 CAACAAAAATAACAACAAAA-ACAG
*
13581529 CAACAAAAATAGCAACAAAAACAG
1 CAACAAAAATAACAACAAAAACAG
13581553 CAACAAAAATAACAACAAAAACAG
1 CAACAAAAATAACAACAAAAACAG
*
13581577 TAACAAAAATAACAA
1 CAACAAAAATAACAA
13581592 TATCAAAACA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.01
23 18 0.24
24 54 0.73
25 1 0.01
ACGTcount: A:0.67, C:0.19, G:0.05, T:0.08
Consensus pattern (24 bp):
CAACAAAAATAACAACAAAAACAG
Found at i:13581526 original size:35 final size:35
Alignment explanation
Indices: 13581480--13581591 Score: 143
Period size: 36 Copynumber: 3.1 Consensus size: 35
13581470 ATAACATCCA
* *
13581480 AACAACCAAAATAACAACTAAAATAGCAGCAAAAAT
1 AACAA-CAAAATAACAACAAAAATAGCAACAAAAAT
* *
13581516 AACAGCAAAATAACAACAAAAATAGCAACAAAAAC
1 AACAACAAAATAACAACAAAAATAGCAACAAAAAT
* * *
13581551 AGCAACAAAAATAACAACAAAAACAGTAACAAAAAT
1 AACAAC-AAAATAACAACAAAAATAGCAACAAAAAT
13581587 AACAA
1 AACAA
13581592 TATCAAAACA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 31 0.48
36 34 0.52
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.08
Consensus pattern (35 bp):
AACAACAAAATAACAACAAAAATAGCAACAAAAAT
Found at i:13581538 original size:47 final size:46
Alignment explanation
Indices: 13581479--13581591 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 46
13581469 AATAACATCC
* * * * *
13581479 AAACAACCAAAATAACAACTAAAATAGCAGCAAAAATAACAGCAAA
1 AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAACAAA
*
13581525 ATAACAACAAAAATAGCAACAAAAACAGCAACAAAAATAACAACAAA
1 A-AACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAACAAA
*
13581572 AACAGTAACAAAAATAACAA
1 AA-A-CAACAAAAATAACAA
13581592 TATCAAAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 2 0.04
47 41 0.73
48 13 0.23
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.08
Consensus pattern (46 bp):
AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAACAAA
Found at i:13581608 original size:24 final size:24
Alignment explanation
Indices: 13581487--13581609 Score: 117
Period size: 24 Copynumber: 5.1 Consensus size: 24
13581477 CCAAACAACC
* * * *
13581487 AAAATAACAACTAAAATAGCAGCA
1 AAAATAACAACAAAAACAGTAACA
* *
13581511 AAAATAACAGCAAAATA-A-CAACA
1 AAAATAACAACAAAA-ACAGTAACA
* *
13581534 AAAATAGCAACAAAAACAGCAACA
1 AAAATAACAACAAAAACAGTAACA
13581558 AAAATAACAACAAAAACAGTAACA
1 AAAATAACAACAAAAACAGTAACA
*
13581582 AAAATAACAATATCAAAACAGTAA-A
1 AAAATAACAACA--AAAACAGTAACA
13581607 AAA
1 AAA
13581610 CAACACCAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
22 1 0.01
23 18 0.21
24 52 0.60
25 5 0.06
26 10 0.12
ACGTcount: A:0.68, C:0.16, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAATAACAACAAAAACAGTAACA
Found at i:13581635 original size:33 final size:33
Alignment explanation
Indices: 13581582--13581653 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
13581572 AACAGTAACA
13581582 AAAATAACAATATCAAAACAGTAAAAAACAACACC
1 AAAATAACAATATCAAAACAGT-AAAAACAA-ACC
*
13581617 AAAATAAC-A-ATCAAAACAGTAAAAAGAAACC
1 AAAATAACAATATCAAAACAGTAAAAACAAACC
13581648 AAAATA
1 AAAATA
13581654 GTAAAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 9 0.25
32 7 0.19
33 11 0.31
34 1 0.03
35 8 0.22
ACGTcount: A:0.68, C:0.17, G:0.04, T:0.11
Consensus pattern (33 bp):
AAAATAACAATATCAAAACAGTAAAAACAAACC
Found at i:13581661 original size:21 final size:21
Alignment explanation
Indices: 13581637--13581746 Score: 100
Period size: 22 Copynumber: 5.2 Consensus size: 21
13581627 TCAAAACAGT
13581637 AAAAAGAAACCAAAATAGTAA
1 AAAAAGAAACCAAAATAGTAA
*
13581658 AAAACA-ACACCAAAATAGTCAA
1 AAAA-AGAAACCAAAATAGT-AA
* * * *
13581680 AAATAGCAACTAAAACAGT-A
1 AAAAAGAAACCAAAATAGTAA
* *
13581700 AAAAA-ACACCAAAATAGCAA
1 AAAAAGAAACCAAAATAGTAA
*
13581720 AAAACAGAAACCAAAACAGTAA
1 AAAA-AGAAACCAAAATAGTAA
13581742 AAAAA
1 AAAAA
13581747 CAACATCAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
19 8 0.12
20 10 0.15
21 19 0.28
22 31 0.46
ACGTcount: A:0.68, C:0.16, G:0.07, T:0.08
Consensus pattern (21 bp):
AAAAAGAAACCAAAATAGTAA
Found at i:13581682 original size:41 final size:43
Alignment explanation
Indices: 13581637--13581757 Score: 151
Period size: 41 Copynumber: 2.9 Consensus size: 43
13581627 TCAAAACAGT
*
13581637 AAAA-AGAAACCAAAATAGTAAAAAACAACACCAAAATAGTCA
1 AAAACAGAAACCAAAACAGTAAAAAACAACACCAAAATAGTCA
* * *
13581679 AAAATAGCAACTAAAACAGT-AAAAA-AACACCAAAATAG-CAA
1 AAAACAGAAACCAAAACAGTAAAAAACAACACCAAAATAGTC-A
*
13581720 AAAACAGAAACCAAAACAGTAAAAAAACAACATCAAAA
1 AAAACAGAAACCAAAACAGT-AAAAAACAACACCAAAA
13581758 CAATAATATA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
40 1 0.01
41 31 0.46
42 9 0.13
43 17 0.25
44 9 0.13
ACGTcount: A:0.68, C:0.17, G:0.07, T:0.08
Consensus pattern (43 bp):
AAAACAGAAACCAAAACAGTAAAAAACAACACCAAAATAGTCA
Found at i:13581756 original size:22 final size:22
Alignment explanation
Indices: 13581617--13581759 Score: 90
Period size: 22 Copynumber: 6.8 Consensus size: 22
13581607 AAACAACACC
*
13581617 AAAATAACAATCAAAACAGTAAA
1 AAAACAAC-ATCAAAACAGTAAA
* *
13581640 AAGA-AAC--CAAAATAGT-AA
1 AAAACAACATCAAAACAGTAAA
* *
13581658 AAAACAACACCAAAATAGTCAAA
1 AAAACAACATCAAAACAGT-AAA
*
13581681 AATAGCAAC-T-AAAACAGTAAA
1 AA-AACAACATCAAAACAGTAAA
* *
13581702 AAAAC-AC--CAAAATAG-CAA
1 AAAACAACATCAAAACAGTAAA
* *
13581720 AAAACAGAAACCAAAACAGTAAA
1 AAAACA-ACATCAAAACAGTAAA
13581743 AAAACAACATCAAAACA
1 AAAACAACATCAAAACA
13581760 ATAATATAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 25
0.71 0.11 0.19
Matches are distributed among these distances:
18 12 0.13
19 19 0.20
20 3 0.03
21 14 0.15
22 26 0.28
23 15 0.16
24 5 0.05
ACGTcount: A:0.67, C:0.17, G:0.06, T:0.09
Consensus pattern (22 bp):
AAAACAACATCAAAACAGTAAA
Found at i:13588343 original size:27 final size:27
Alignment explanation
Indices: 13588313--13588366 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
13588303 ATTTTGAATA
13588313 TATATTATAAATTTAATATACACAATC
1 TATATTATAAATTTAATATACACAATC
*
13588340 TATATTCTAAATTTAATATACACAATC
1 TATATTATAAATTTAATATACACAATC
13588367 GACTTGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (27 bp):
TATATTATAAATTTAATATACACAATC
Found at i:13595663 original size:6 final size:6
Alignment explanation
Indices: 13595652--13595678 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13595642 GTTCGGGGTC
13595652 GAGCTT GAGCTT GAGCTT GAGCTT GAG
1 GAGCTT GAGCTT GAGCTT GAGCTT GAG
13595679 GACGAGAAAA
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:0.15, G:0.37, T:0.30
Consensus pattern (6 bp):
GAGCTT
Found at i:13596153 original size:30 final size:30
Alignment explanation
Indices: 13596094--13596154 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
13596084 AAATATTTTT
* *
13596094 ACTTTTCTCTCAAAACTTTTACTCTCTCTC
1 ACTTTCCTCTCAAAACTTTTACTCCCTCTC
13596124 ACTTTCCTC-CAAAACTTTTACTCCCCTCTC
1 ACTTTCCTCTCAAAACTTTTACT-CCCTCTC
13596154 A
1 A
13596155 TCCCACCCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (30 bp):
ACTTTCCTCTCAAAACTTTTACTCCCTCTC
Found at i:13604781 original size:24 final size:26
Alignment explanation
Indices: 13604754--13604811 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
13604744 TATTTAAACA
13604754 TTATTA-GAGAA-AATTAAGATTTTT
1 TTATTACGAGAAGAATTAAGATTTTT
* *
13604778 TTATTAATCTATAAGAATTAAGATTTTT
1 TTATT-A-CGAGAAGAATTAAGATTTTT
13604806 TTATTA
1 TTATTA
13604812 ATCTATAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 5 0.18
25 1 0.04
27 4 0.14
28 18 0.64
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (26 bp):
TTATTACGAGAAGAATTAAGATTTTT
Found at i:13604800 original size:28 final size:28
Alignment explanation
Indices: 13604765--13604820 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13604755 TATTAGAGAA
13604765 AATTAAGATTTTTTTATTAATCTATAAG
1 AATTAAGATTTTTTTATTAATCTATAAG
13604793 AATTAAGATTTTTTTATTAATCTATAAG
1 AATTAAGATTTTTTTATTAATCTATAAG
13604821 CTCATTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (28 bp):
AATTAAGATTTTTTTATTAATCTATAAG
Found at i:13609688 original size:37 final size:36
Alignment explanation
Indices: 13609639--13609713 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
13609629 TCTTCCTTAC
*
13609639 TTATCATTGAATCTGTGATACTGAAGAACCATAAAA
1 TTATCATTGAATCTGTGATACTGAAGAACAATAAAA
* * *
13609675 TTATCAGTTGAATCTGTGATATTTAAGAACAATAGAA
1 TTATCA-TTGAATCTGTGATACTGAAGAACAATAAAA
13609712 TT
1 TT
13609714 GTGAAATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (36 bp):
TTATCATTGAATCTGTGATACTGAAGAACAATAAAA
Found at i:13619209 original size:13 final size:12
Alignment explanation
Indices: 13619188--13619224 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
13619178 TGAGTATTTA
13619188 TAAACTTTATAAT
1 TAAA-TTTATAAT
13619201 TAAATTT-TAAT
1 TAAATTTATAAT
13619212 TAAATTT-TAAT
1 TAAATTTATAAT
13619223 TA
1 TA
13619225 GGTTAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.71
12 3 0.12
13 4 0.17
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TAAATTTATAAT
Found at i:13619213 original size:11 final size:11
Alignment explanation
Indices: 13619197--13619224 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13619187 ATAAACTTTA
13619197 TAATTAAATTT
1 TAATTAAATTT
13619208 TAATTAAATTT
1 TAATTAAATTT
13619219 TAATTA
1 TAATTA
13619225 GGTTAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATTAAATTT
Found at i:13622939 original size:19 final size:18
Alignment explanation
Indices: 13622875--13622939 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
13622865 CGGAAGGATT
13622875 AGCATACTGGCTCGTTTG
1 AGCATACTGGCTCGTTTG
* *
13622893 AGCATACTGGCCCATTTG
1 AGCATACTGGCTCGTTTG
13622911 AGCATACTGGCTCGTTTG
1 AGCATACTGGCTCGTTTG
13622929 AGCATTACTGG
1 AGCA-TACTGG
13622940 GTCGCAAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
18 36 0.86
19 6 0.14
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (18 bp):
AGCATACTGGCTCGTTTG
Found at i:13623647 original size:21 final size:21
Alignment explanation
Indices: 13623616--13623671 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
13623606 AAAGTTTTTA
*
13623616 GTATCGATAGAAGTAAG-ACTT
1 GTATCGGTAGAAGT-AGCACTT
*
13623637 GTTTCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGTAG-CACTT
13623658 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
13623672 CTACACTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAAGTAGCACTT
Found at i:13624516 original size:23 final size:23
Alignment explanation
Indices: 13624472--13624517 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13624462 GGTAATAAAA
*
13624472 TATACATGTGTAAAAATTATATT
1 TATACATGTGTAAAAATAATATT
*
13624495 TATACATTTGT-AAAATAAATATT
1 TATACATGTGTAAAAAT-AATATT
13624518 AATTTACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (23 bp):
TATACATGTGTAAAAATAATATT
Found at i:13630689 original size:67 final size:67
Alignment explanation
Indices: 13630612--13630747 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
13630602 TCAACATAAT
13630612 ATAGATTAAAGCACATATATCACCAACAAGTTAATTCAACAACATACAGCAAGCATCTTCAATAA
1 ATAGATTAAAGCACATATATCACCAACAAGTTAATTCAACAACATACAGCAAGCATCTTCAATAA
13630677 CC
66 CC
13630679 ATAGATTAAAGCACATATATCACCAACAAGTTAATTCAACAACATACAGCAAGCATCTTCAATAA
1 ATAGATTAAAGCACATATATCACCAACAAGTTAATTCAACAACATACAGCAAGCATCTTCAATAA
13630744 CC
66 CC
13630746 AT
1 AT
13630748 TCCAATTCAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (67 bp):
ATAGATTAAAGCACATATATCACCAACAAGTTAATTCAACAACATACAGCAAGCATCTTCAATAA
CC
Found at i:13633620 original size:36 final size:36
Alignment explanation
Indices: 13633573--13633659 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
13633563 GGTAACAAGG
*
13633573 ATGACCTTTGGGTCAACATGGAGTAAAATGAGCATC
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
13633609 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
13633645 ATGACCTTTGGGTCA
1 ATGACCTTTGGGTCA
13633660 CATCATTACC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (36 bp):
ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
Found at i:13633689 original size:55 final size:55
Alignment explanation
Indices: 13633605--13633714 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
13633595 GTAAAATGAG
* *
13633605 CATCATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATGACCTTTGGGTCA
1 CATCATGACCTTTGGGTCAACAGGAAGTAAAATGAGCATCATGACATTTGGGTCA
* *
13633660 CATCATTACCTTTGGGTTAACAGGAAGTAAAATGAGCATCATGACATTTGGGTCA
1 CATCATGACCTTTGGGTCAACAGGAAGTAAAATGAGCATCATGACATTTGGGTCA
13633715 ACAGAGAGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (55 bp):
CATCATGACCTTTGGGTCAACAGGAAGTAAAATGAGCATCATGACATTTGGGTCA
Found at i:13633710 original size:36 final size:36
Alignment explanation
Indices: 13633660--13633731 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
13633650 CTTTGGGTCA
* * *
13633660 CATCATTACCTTTGGGTTAACAG-GAAGTAAAATGAG
1 CATCATGACATTTGGGTCAACAGAG-AGTAAAATGAG
*
13633696 CATCATGACATTTGGGTCAACAGAGAGTAAACTGAG
1 CATCATGACATTTGGGTCAACAGAGAGTAAAATGAG
13633732 TATCGATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (36 bp):
CATCATGACATTTGGGTCAACAGAGAGTAAAATGAG
Found at i:13635082 original size:2 final size:2
Alignment explanation
Indices: 13635075--13635100 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13635065 ATTAAATAGA
13635075 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
13635101 TTTGGTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13643529 original size:24 final size:23
Alignment explanation
Indices: 13643479--13643533 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
13643469 CCACACGGTT
***
13643479 GTGTGTGACACATGGCCATGTGG
1 GTGTGTGACACATGGCCATGCCC
13643502 GTGTGTGACACATGGCCCATGCCC
1 GTGTGTGACACATGG-CCATGCCC
13643526 GTGTGTGA
1 GTGTGTGA
13643534 GGTCGTGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.16, C:0.22, G:0.36, T:0.25
Consensus pattern (23 bp):
GTGTGTGACACATGGCCATGCCC
Found at i:13643789 original size:9 final size:9
Alignment explanation
Indices: 13643772--13643810 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
13643762 ATAAAAAAAA
13643772 TCAATTTTTT
1 TCAA-TTTTT
13643782 TCAATTTTT
1 TCAATTTTT
13643791 TCATATTTTT
1 TCA-ATTTTT
*
13643801 TGAATTTTT
1 TCAATTTTT
13643810 T
1 T
13643811 TAAAATAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (9 bp):
TCAATTTTT
Found at i:13655812 original size:196 final size:196
Alignment explanation
Indices: 13655478--13655922 Score: 741
Period size: 196 Copynumber: 2.3 Consensus size: 196
13655468 AGTATCGACG
* *
13655478 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTCGACAGCTTGTGTGAGCAGCATCGTGATTCA
1 CGATGGCTGGGGTACCGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGATTCA
* *
13655543 GAAAAGATATATGAATCTTAAACGGATTATAGACCCTTCGATGGCTGGGACTTATGCTTTGAGCA
66 GAAAAGAGATATGAATCCTAAACGGATTATAGACCCTTCGATGGCTGGGACTTATGCTTTGAGCA
* * *
13655608 TACTCTTGACAGCTCGTGTGAGCAGCATCGTTAGGGAATAGTTTACAGTACAGACAGATACCGTA
131 TACTCTTGACAGCTCGTATGAACAGCATCGTTAGGGAATAGTTTACAGTACAGACAGATAACGTA
13655673 C
196 C
* *
13655674 CGATGGCTGGGGTATCGCATATGTTGTGAGTCCTCGACAACTCGTGTGAGCAGCATCGTGATTC-
1 CGATGGCTGGGGTACCGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGATTCA
* *
13655738 GAAAAAGAGATATGAATCCTAAATGGATTATAGACCCTTCGATGGTTGGGACTTATGCTTTGAGC
66 G-AAAAGAGATATGAATCCTAAACGGATTATAGACCCTTCGATGGCTGGGACTTATGCTTTGAGC
*
13655803 ATACTCTTGACAGCTCGTATGAACAGCATCGTTAGGGAATAGTTTATAGTACAGACAGATAACGT
130 ATACTCTTGACAGCTCGTATGAACAGCATCGTTAGGGAATAGTTTACAGTACAGACAGATAACGT
13655868 AC
195 AC
*
13655870 CGATGGCTTGGGTACCGCATATGATT-TGAGTCCTCGACAGCTCGTGTGAGCAG
1 CGATGGCTGGGGTACCGCATATG-TTGTGAGTCCTCGACAGCTCGTGTGAGCAG
13655923 TAACGAGTAC
Statistics
Matches: 232, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
195 1 0.00
196 229 0.99
197 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (196 bp):
CGATGGCTGGGGTACCGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGATTCA
GAAAAGAGATATGAATCCTAAACGGATTATAGACCCTTCGATGGCTGGGACTTATGCTTTGAGCA
TACTCTTGACAGCTCGTATGAACAGCATCGTTAGGGAATAGTTTACAGTACAGACAGATAACGTA
C
Found at i:13658203 original size:232 final size:232
Alignment explanation
Indices: 13657791--13658251 Score: 805
Period size: 232 Copynumber: 2.0 Consensus size: 232
13657781 ATTATGTTGA
* *
13657791 ATGTGGTTGTGCATGAAGTGAAATTTGGAGTATAAACTTAAGATGCTATGTAAAGACTTGGAAAT
1 ATGTGGTTGTGCATGAAGTGAAAGTTGGAGTATAAAATTAAGATGCTATGTAAAGACTTGGAAAT
* *
13657856 TACGTATGTTGTGTGATGGCCTAATGTATAATTAGAGTTCTATATGCTTGAGTTGTTAAACTTGT
66 TACGTATGTTGTGTGATGGCCTAATGCATAATTAGAGTTATATATGCTTGAGTTGTTAAACTTGT
*
13657921 GTTTTGGGCATAATTCTTCAAATTTTGCGTACTTGTTCCGATAAAACTTATGCATGTATCGGTAG
131 GTTTTGGGCATAATTCTTCAAATTTTGCATACTTGTTCCGATAAAACTTATGCATGTATCGGTAG
13657986 AAGTACAGGGTAGGAAAGAGGTTGTTCACTGACTCGG
196 AAGTACAGGGTAGGAAAGAGGTTGTTCACTGACTCGG
*
13658023 ATGTGGTTGTGCATGAAGTGAAAGTTGGAGTATAAAATTAAGATGCTATGTGAAGACTTGGAAAT
1 ATGTGGTTGTGCATGAAGTGAAAGTTGGAGTATAAAATTAAGATGCTATGTAAAGACTTGGAAAT
* *
13658088 TATGTATGTTGTGTGATGGCCTAATGCATAATTAGAGTTATGTATGCTTGAGTTGTTAAACTTGT
66 TACGTATGTTGTGTGATGGCCTAATGCATAATTAGAGTTATATATGCTTGAGTTGTTAAACTTGT
* * * *
13658153 GTTTTGGGCATAATTCTTTAGATTTTGCATACTTGTTCCGGTAGAACTTATGCATGTATCGGTAG
131 GTTTTGGGCATAATTCTTCAAATTTTGCATACTTGTTCCGATAAAACTTATGCATGTATCGGTAG
*
13658218 AAGTACAGGGTAGGAGAGAGGTTGTTCACTGACT
196 AAGTACAGGGTAGGAAAGAGGTTGTTCACTGACT
13658252 TGAGATGTAT
Statistics
Matches: 216, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
232 216 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (232 bp):
ATGTGGTTGTGCATGAAGTGAAAGTTGGAGTATAAAATTAAGATGCTATGTAAAGACTTGGAAAT
TACGTATGTTGTGTGATGGCCTAATGCATAATTAGAGTTATATATGCTTGAGTTGTTAAACTTGT
GTTTTGGGCATAATTCTTCAAATTTTGCATACTTGTTCCGATAAAACTTATGCATGTATCGGTAG
AAGTACAGGGTAGGAAAGAGGTTGTTCACTGACTCGG
Found at i:13667442 original size:24 final size:25
Alignment explanation
Indices: 13667415--13667474 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 25
13667405 TATTATTAAA
13667415 TATTTATAAAATGTATT-ATAT-ATT
1 TATTTATAAAAT-TATTCATATAATT
13667439 TA-TTATTAAAA-TATTCATATAAATT
1 TATTTA-TAAAATTATTCATAT-AATT
13667464 T-TTTATAAAAT
1 TATTTATAAAAT
13667475 ATTAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
22 4 0.13
23 7 0.23
24 12 0.40
25 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTTATAAAATTATTCATATAATT
Found at i:13667477 original size:24 final size:25
Alignment explanation
Indices: 13667431--13667477 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13667421 TAAAATGTAT
*
13667431 TATATATTTATTATTAAAATATTCA
1 TATAAATTTATTATTAAAATATTCA
*
13667456 TATAAATTTTTTA-TAAAATATT
1 TATAAATTTATTATTAAAATATT
13667478 AAAAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATAAATTTATTATTAAAATATTCA
Found at i:13668746 original size:26 final size:26
Alignment explanation
Indices: 13668710--13668761 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13668700 GATGAATTAG
13668710 GCATTGGATAACATATTCAATACCTT
1 GCATTGGATAACATATTCAATACCTT
13668736 GCATTGGATAACATATTCAATACCTT
1 GCATTGGATAACATATTCAATACCTT
13668762 TTGAGTATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
GCATTGGATAACATATTCAATACCTT
Found at i:13682523 original size:16 final size:15
Alignment explanation
Indices: 13682504--13682533 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
13682494 AAACGATCAC
13682504 AAAACAATAAAAAAAG
1 AAAACAA-AAAAAAAG
13682520 AAAACAAAAAAAAA
1 AAAACAAAAAAAAA
13682534 ACACATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAACAAAAAAAAAG
Found at i:13682534 original size:16 final size:16
Alignment explanation
Indices: 13682504--13682534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13682494 AAACGATCAC
*
13682504 AAAACAATAAAAAAAG
1 AAAACAAAAAAAAAAG
13682520 AAAACAAAAAAAAAA
1 AAAACAAAAAAAAAA
13682535 CACATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.06, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAACAAAAAAAAAAG
Found at i:13683528 original size:6 final size:6
Alignment explanation
Indices: 13683519--13683544 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13683509 TTAATATTAT
13683519 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
13683545 ATTTAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:13685743 original size:5 final size:5
Alignment explanation
Indices: 13685733--13685807 Score: 105
Period size: 5 Copynumber: 15.0 Consensus size: 5
13685723 ATCATACTTA
* * * *
13685733 GACCT GACCT GACCT GACCT GACCC GACCC GACCC GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
*
13685783 GACCC GACCC GACCC AACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC
13685808 ATAAACACCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.21, C:0.55, G:0.19, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:13691667 original size:18 final size:16
Alignment explanation
Indices: 13691644--13691679 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
13691634 CTTCGTAAAT
13691644 ATTAAATTGAGGAATGAA
1 ATTAAATTGA--AATGAA
13691662 ATTAAATTGAAATGAA
1 ATTAAATTGAAATGAA
13691678 AT
1 AT
13691680 GGTATTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (16 bp):
ATTAAATTGAAATGAA
Found at i:13692297 original size:52 final size:52
Alignment explanation
Indices: 13692217--13692456 Score: 383
Period size: 52 Copynumber: 4.6 Consensus size: 52
13692207 GTAAATGCAA
*
13692217 AAGGTCCGATGCCTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAT
* * *
13692269 AAGGTCCGATGAATATGTGTCATTGTGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAT
**
13692321 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTAAAGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAT
* *
13692373 GAGGTCCGATGACTATGTGTCATCGTGAGCATATGAATCCTTTT-CGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAAT-CTTTTACGGATTAT
*
13692425 GAGGTCCGATGACTATGTGTCATCGTGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
13692457 CAAATGAGAA
Statistics
Matches: 173, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
52 168 0.97
53 5 0.03
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAT
Found at i:13702150 original size:35 final size:32
Alignment explanation
Indices: 13702087--13702153 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
13702077 TCGATCTGAT
* *
13702087 TTATTTTTAGGTTTATAATACTTTATATTATA
1 TTATTTTTAAGTTTATAATACTTAATATTATA
* * *
13702119 TTATTTTTAAGTTTATTATACTAAATAATAT-
1 TTATTTTTAAGTTTATAATACTTAATATTATA
13702150 TTAT
1 TTAT
13702154 CTAATATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (32 bp):
TTATTTTTAAGTTTATAATACTTAATATTATA
Found at i:13703140 original size:31 final size:31
Alignment explanation
Indices: 13703102--13703167 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
13703092 TTCGATATTT
13703102 AAAAGAATATATTCATTTTACTTTTATTAAA
1 AAAAGAATATATTCATTTTACTTTTATTAAA
13703133 AAAAGAATATATTCATTTTACTTTTATTAAA
1 AAAAGAATATATTCATTTTACTTTTATTAAA
13703164 AAAA
1 AAAA
13703168 TTGACCAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (31 bp):
AAAAGAATATATTCATTTTACTTTTATTAAA
Found at i:13707351 original size:11 final size:11
Alignment explanation
Indices: 13707334--13707397 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
13707324 AATCATTTGA
*
13707334 AAATTAAATTT
1 AAATTTAATTT
*
13707345 -ATTTTAATTTT
1 AAATTTAA-TTT
*
13707356 AAATTTATTTT
1 AAATTTAATTT
*
13707367 AAATTCAATTT
1 AAATTTAATTT
*
13707378 GAATTTAATTT
1 AAATTTAATTT
13707389 AAATTTAAT
1 AAATTTAAT
13707398 ATTATTATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
10 5 0.12
11 32 0.76
12 5 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:13707357 original size:17 final size:16
Alignment explanation
Indices: 13707337--13707395 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
13707327 CATTTGAAAA
13707337 TTAAATTTATTTTAATT
1 TTAAATTTATTTTAA-T
*
13707354 TTAAATTTATTTTAAA
1 TTAAATTTATTTTAAT
* *
13707370 TTCAATTTGAATTTAAT
1 TTAAATTT-ATTTTAAT
13707387 TTAAATTTA
1 TTAAATTTA
13707396 ATATTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:13709365 original size:30 final size:30
Alignment explanation
Indices: 13709329--13709601 Score: 154
Period size: 30 Copynumber: 9.2 Consensus size: 30
13709319 CCTTGGACTG
*
13709329 TCCAAAAATTACCATTTTAGCCCTGAACTT
1 TCCAAAAATTACCATTTTAACCCTGAACTT
13709359 TCC-AAAATT-CCATTTTTAACCCTG-A-TT
1 TCCAAAAATTACCA-TTTTAACCCTGAACTT
13709386 TCACCAAAAATTACCATTTT-ACCCTCGAACTT
1 T--CCAAAAATTACCATTTTAACCCT-GAACTT
*
13709418 TCC-AAAATT-CCATTTTTAACCC-CAA-TT
1 TCCAAAAATTACCA-TTTTAACCCTGAACTT
* * *
13709445 TCACCGAAAATTACCATTTTATCCTTGAACTT
1 T--CCAAAAATTACCATTTTAACCCTGAACTT
*
13709477 TCC-AAAA-TCCCATTTTTAA-CCTCG-A-TT
1 TCCAAAAATTACCA-TTTTAACCCT-GAACTT
*
13709504 TCACCAAAAATTACTATTTT-ACCCTTGAACTT
1 T--CCAAAAATTACCATTTTAACCC-TGAACTT
* *
13709536 T-CTAAAATTA-CATGTTTAACCCCG-A-TT
1 TCCAAAAATTACCAT-TTTAACCCTGAACTT
* * *
13709563 TCACCGAAAATTACCGTTTT-ACCCTCGAACCT
1 T--CCAAAAATTACCATTTTAACCCT-GAACTT
13709595 TCCAAAA
1 TCCAAAA
13709602 TCTCATTTTT
Statistics
Matches: 190, Mismatches: 18, Indels: 70
0.68 0.06 0.25
Matches are distributed among these distances:
27 12 0.06
28 19 0.10
29 64 0.34
30 67 0.35
31 17 0.09
32 11 0.06
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTAACCCTGAACTT
Found at i:13709375 original size:29 final size:29
Alignment explanation
Indices: 13709333--13709602 Score: 158
Period size: 29 Copynumber: 9.2 Consensus size: 29
13709323 GGACTGTCCA
*
13709333 AAAATTACCATTTTAGCCCTGAACTTTCC
1 AAAATTACCATTTTAACCCTGAACTTTCC
13709362 AAAATT-CCATTTTTAACCCTG-A-TTTCACC
1 AAAATTACCA-TTTTAACCCTGAACTTT--CC
13709391 AAAAATTACCATTTT-ACCCTCGAACTTTCC
1 -AAAATTACCATTTTAACCCT-GAACTTTCC
*
13709421 AAAATT-CCATTTTTAACCC-CAA-TTTCACC
1 AAAATTACCA-TTTTAACCCTGAACTTT--CC
* *
13709450 GAAAATTACCATTTTATCCTTGAACTTTCC
1 -AAAATTACCATTTTAACCCTGAACTTTCC
*
13709480 AAAA-TCCCATTTTTAA-CCTCG-A-TTTCACC
1 AAAATTACCA-TTTTAACCCT-GAACTTT--CC
* *
13709509 AAAAATTACTATTTT-ACCCTTGAACTTTCT
1 -AAAATTACCATTTTAACCC-TGAACTTTCC
*
13709539 AAAATTA-CATGTTTAACCCCG-A-TTTCACC
1 AAAATTACCAT-TTTAACCCTGAACTTT--CC
* *
13709568 GAAAATTACCGTTTT-ACCCTCGAACCTTCC
1 -AAAATTACCATTTTAACCCT-GAACTTTCC
13709598 AAAAT
1 AAAAT
13709603 CTCATTTTTG
Statistics
Matches: 189, Mismatches: 17, Indels: 70
0.68 0.06 0.25
Matches are distributed among these distances:
27 12 0.06
28 19 0.10
29 69 0.37
30 61 0.32
31 17 0.09
32 11 0.06
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTAACCCTGAACTTTCC
Found at i:13709635 original size:59 final size:59
Alignment explanation
Indices: 13709330--13709611 Score: 397
Period size: 59 Copynumber: 4.8 Consensus size: 59
13709320 CTTGGACTGT
*
13709330 CCAAAAATTACCATTTTAGCCCT-GAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
13709389 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
13709448 CCGAAAATTACCATTTTATCCTTGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
13709507 CCAAAAATTACTATTTTACCCTTGAACTTTCTAAAATTACATGTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
13709566 CCGAAAATTACCGTTTTACCCTCGAACCTTCCAAAA-TCTCATTTTT
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTC-CATTTTT
13709612 GACCTCAAAT
Statistics
Matches: 197, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
58 5 0.03
59 192 0.97
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:13709686 original size:28 final size:29
Alignment explanation
Indices: 13709626--13709687 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
13709616 TCAAATTTTC
*
13709626 CCAAAATTACATTTTTGCCCCTCGAGAGT
1 CCAAAATTACATTTTTGCCCCTCGAGAAT
13709655 -CAAAATTACCA-TTTTGCCCC-CG-GATAT
1 CCAAAATTA-CATTTTTGCCCCTCGAGA-AT
13709682 CCAAAA
1 CCAAAA
13709688 GTCTCGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 2 0.07
27 3 0.10
28 22 0.76
29 2 0.07
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.27
Consensus pattern (29 bp):
CCAAAATTACATTTTTGCCCCTCGAGAAT
Found at i:13720783 original size:76 final size:76
Alignment explanation
Indices: 13720486--13721024 Score: 733
Period size: 76 Copynumber: 7.1 Consensus size: 76
13720476 CAGACCGCAC
* * *
13720486 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGACAACACGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
13720551 TGAAGTAGGAG
66 TGAAGTAAGAG
* * * * * *
13720562 CAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAAAG-TGTATAACACGTCTTTATCTTTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
13720626 TGAAGTAGGAG
66 TGAAGTAAGAG
* * *
13720637 CAAGATCTTTTCCTGTCCGCTTGAAATTTAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* *
13720701 TAAAGTAAGAA
66 TGAAGTAAGAG
* *
13720712 CAAGATCATTTCCTTTCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
13720777 TGAAGTAAGAG
66 TGAAGTAAGAG
*
13720788 CAACAT-TGTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAA
1 CAAGATCT-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAA
*
13720852 TTGAAGTAAGGG
65 TTGAAGTAAGAG
* * * *
13720864 CAAGATCTTTTCCTATCCTCTTGAAATTGAACTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
13720929 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * * * *
13720940 CAAGATCATTTCATATCCTCTTGAAATTGAAGTAAAAGCTGGATATCAAGCCTTCATCCCTCTGA
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGT-AGAGTTGGATAACAAGTCTTTAT--CTCTGA
13721005 AATTGAAGTAAGAG
63 AATTGAAGTAAGAG
*
13721019 TAAGAT
1 CAAGAT
13721025 GAAGCACCAA
Statistics
Matches: 422, Mismatches: 35, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
75 135 0.32
76 240 0.57
77 22 0.05
79 25 0.06
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:13720889 original size:152 final size:150
Alignment explanation
Indices: 13720486--13721116 Score: 708
Period size: 152 Copynumber: 4.0 Consensus size: 150
13720476 CAGACCGCAC
* *
13720486 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGACAACACGTCTTTATCTCTGAAAT
1 CAAGAT-TTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* * * *
13720551 TGAAGT-AGGAGCAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAAAGTGTATAACACGTCTTT
65 TGAAGTAAGG-GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTT
* *
13720615 ATCTTTGAAATTGAAGTAGGAG
129 ATCTCTGAAATTGAAGTAAGAG
* *
13720637 CAAGATCTTTTCCTGTCCGCTTGAAATTTAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGAT-TTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* ** * * *
13720701 TAAAGTAAGAACAAGATCATTTCCTTTCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
65 TGAAGTAAGGGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTT
13720766 ATCTCTGAAATTGAAGTAAGAG
129 ATCTCTGAAATTGAAGTAAGAG
* *
13720788 CAACATTGTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATT-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* *
13720853 TGAAGTAAGGGCAAGATCTTTTCCTATCCTCTTGAAATTGAACTAAAGCTGGATATCAAGTCTTT
65 TGAAGTAAGGGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTT
13720918 ATCTCTGAAATTGAAGTAAGAG
129 ATCTCTGAAATTGAAGTAAGAG
* * * * * * * *
13720940 CAAGATCATTTCATATCCTCTTGAAATTGAAGTAAAAGCTGGATATCAAGCCTTCATCCCTCTGA
1 CAAGAT-TTTTCCTATCCGCTTGAAATTGAAGT-AGAGTTGGATAACAAGTCTTTAT--CTCTGA
*
13721005 AATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAG
62 AATT---G--A-AGTAAG--G--G---CAAGATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAG
* **
13721070 CTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAG
113 -TGGATAACAAGTCTT--TATCTCTGAAATTGAAGTAAGAG
*
13721111 TAAGAT
1 CAAGAT
13721117 GAGGCACAAA
Statistics
Matches: 413, Mismatches: 43, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
150 64 0.15
151 102 0.25
152 134 0.32
153 18 0.04
155 10 0.02
158 1 0.00
160 1 0.00
161 6 0.01
163 1 0.00
165 1 0.00
168 6 0.01
169 43 0.10
171 26 0.06
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (150 bp):
CAAGATTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
GAAGTAAGGGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTAT
CTCTGAAATTGAAGTAAGAG
Found at i:13720965 original size:38 final size:38
Alignment explanation
Indices: 13720545--13720974 Score: 192
Period size: 38 Copynumber: 11.4 Consensus size: 38
13720535 TCTTTATCTC
* * * *
13720545 TGAAATTGAAGTAGGAGCAAGATCTTTTCCTGTCCGCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
* * ** *
13720583 TGAAATTGAAGTAAAGTGTATA-A-CACGTCTTTAT-CT-T
1 TGAAATTGAAGT-AAGAGCA-AGATCATTTC-CTATCCTCT
* * * *
13720620 TGAAATTGAAGTAGGAGCAAGATCTTTTCCTGTCCGCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
* ** ** *
13720658 TGAAATTTAAGT-AGAG-TGGATAACAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGCAAGAT--CATTTC-CTATCCTCT
* * *
13720695 TGAAATTAAAGTAAGAACAAGATCATTTCCTTTCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
*** ** *
13720733 TGAAATTGAAGT-AGAGTTGGATAACAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGCAAGAT--CATTTC-CTATCCTCT
* **
13720771 TGAAATTGAAGTAAGAGCAACATTGTTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
*** ** *
13720809 TGAAATTGAAGT-AGAGTTGGATAACAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGCAAGAT--CATTTC-CTATCCTCT
* *
13720847 TGAAATTGAAGTAAGGGCAAGATCTTTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
* * * ** *
13720885 TGAAATTGAACTAA-AGCTGGATATCAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGC--AAGATCATTTC-CTATCCTCT
*
13720923 TGAAATTGAAGTAAGAGCAAGATCATTTCATATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
13720961 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
13720975 AAGCTGGATA
Statistics
Matches: 275, Mismatches: 85, Indels: 64
0.65 0.20 0.15
Matches are distributed among these distances:
35 1 0.00
36 21 0.08
37 73 0.27
38 123 0.45
39 48 0.17
40 9 0.03
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (38 bp):
TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
Found at i:13721101 original size:92 final size:92
Alignment explanation
Indices: 13720944--13721157 Score: 344
Period size: 92 Copynumber: 2.3 Consensus size: 92
13720934 TAAGAGCAAG
*
13720944 ATCA-TTTCATATCCTCTTGAAATTGAAGTAAAAGCTGGATATCAAGCCTTCATCCCTCTGAAAT
1 ATCATTTTCATATCCTCTTGAAATTGAAGT-AAAGCTGGATAACAAGCCTTCATCCCTCTGAAAT
*
13721008 TGAAGTAAGAGTAAGATGAAGCACCAAC
65 TGAAGTAAGAGTAAGATGAAGCACAAAC
* *
13721036 ATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATT
1 ATCATTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCATCCCTCTGAAATT
*
13721101 GAAGTAAGAGTAAGATGAGGCACAAAC
66 GAAGTAAGAGTAAGATGAAGCACAAAC
*
13721128 ATCATTTTCGT-TCCTC-TGAAATTGAAGTAA
1 ATCATTTTCATATCCTCTTGAAATTGAAGTAA
13721158 GAGCAAGACA
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
90 14 0.12
91 5 0.04
92 72 0.63
93 24 0.21
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (92 bp):
ATCATTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCATCCCTCTGAAATT
GAAGTAAGAGTAAGATGAAGCACAAAC
Found at i:13721178 original size:50 final size:50
Alignment explanation
Indices: 13721084--13721181 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
13721074 ATAACAAGCC
* ** *
13721084 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAGGCACAAACATCATT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGACAAAGCACAAACATCATT
*
13721134 TTCGTTCCTCTGAAATTGAAGTAAGAGCAAGACAAAGC-CTAAACATCA
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGACAAAGCAC-AAACATCA
13721182 AACCCTACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (50 bp):
TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGACAAAGCACAAACATCATT
Found at i:13721450 original size:17 final size:16
Alignment explanation
Indices: 13721430--13721488 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
13721420 CATTTGGAAA
13721430 TTAAATTTATTTTAATT
1 TTAAATTTATTTTAA-T
*
13721447 TTAAATTTATTTTAAA
1 TTAAATTTATTTTAAT
* *
13721463 TTCAATTTGAATTTAAT
1 TTAAATTT-ATTTTAAT
13721480 TTAAATTTA
1 TTAAATTTA
13721489 ATATTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:13721458 original size:11 final size:11
Alignment explanation
Indices: 13721427--13721490 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
13721417 AACCATTTGG
*
13721427 AAATTAAATTT
1 AAATTTAATTT
*
13721438 -ATTTTAATTTT
1 AAATTTAA-TTT
*
13721449 AAATTTATTTT
1 AAATTTAATTT
*
13721460 AAATTCAATTT
1 AAATTTAATTT
*
13721471 GAATTTAATTT
1 AAATTTAATTT
13721482 AAATTTAAT
1 AAATTTAAT
13721491 ATTATTATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
10 5 0.12
11 32 0.76
12 5 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:13723484 original size:29 final size:28
Alignment explanation
Indices: 13723442--13723604 Score: 79
Period size: 29 Copynumber: 5.6 Consensus size: 28
13723432 GGACTGTCCA
13723442 AAAATTACCATTTTAGACTCGAACTTTCT
1 AAAATTACCATTTTA-ACTCGAACTTTCT
*
13723471 AAAATT-CCATTTTTAACCCCG-A-TTTCAT
1 AAAATTACCA-TTTTAA-CTCGAACTTTC-T
* *
13723499 CAAAAATTACCATTTTACCCTCGAACTTTCC
1 --AAAATTACCATTTTA-ACTCGAACTTTCT
* * *
13723530 AAAATT-TCATTTTTAACCCCG-A-TTTCACCA
1 AAAATTACCA-TTTTAA-CTCGAACTTT---CT
* *
13723560 AAAATTACCATTTTACCATCGAACTTTCC
1 AAAATTACCATTTTAAC-TCGAACTTTCT
*
13723589 AAAA-TCCCATTTTAAC
1 AAAATTACCATTTTAAC
13723605 CCCGATTTCA
Statistics
Matches: 102, Mismatches: 14, Indels: 37
0.67 0.09 0.24
Matches are distributed among these distances:
27 7 0.07
28 19 0.19
29 34 0.33
30 28 0.27
31 7 0.07
32 7 0.07
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTTAACTCGAACTTTCT
Found at i:13723506 original size:59 final size:59
Alignment explanation
Indices: 13723439--13723725 Score: 409
Period size: 59 Copynumber: 4.9 Consensus size: 59
13723429 CCTGGACTGT
** *
13723439 CCAAAAATTACCATTTTAGACTCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
13723498 TCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
13723557 CCAAAAATTACCATTTTACCATCGAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
13723615 CAAAAAATTACCATTTTATCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
13723674 CCGAAAATTACCATTTTACCCTCAAACCTTCCAAAA-TCTCATTTTTGACCCC
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTC-CATTTTTAACCCC
13723726 AAATTTCTCA
Statistics
Matches: 206, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
58 56 0.27
59 150 0.73
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:13723646 original size:117 final size:117
Alignment explanation
Indices: 13723439--13723747 Score: 405
Period size: 117 Copynumber: 2.6 Consensus size: 117
13723429 CCTGGACTGT
* * *
13723439 CCAAAAATTACCATTTTA-GACTCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCATCAAA
1 CCAAAAATTACCATTTTACCA-TCGAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCATCAAA
* * *
13723503 AATTACCATTTTACCCTCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
64 AATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
13723557 CCAAAAATTACCATTTTACCATCGAACTTTCCAAAATCCCATTTTAACCCCGATTTCA-CAAAAA
1 CCAAAAATTACCATTTTACCATCGAACTTTCCAAAATCCCATTTTAACCCCGATTTCATC-AAAA
13723621 ATTACCATTTTATCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
65 ATTACCATTTTA-CCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * * * * *
13723674 CCGAAAATTACCATTTTACCCTCAAACCTTCCAAAATCTCATTTTTGACCCCAAATTTC-TC-AA
1 CCAAAAATTACCATTTTACCATCGAACTTTCCAAAATCCCA-TTTTAACCCC-GATTTCATCAAA
13723737 AATTA-CATTTT
64 AATTACCATTTT
13723748 TGCCCCCCGA
Statistics
Matches: 172, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
116 7 0.04
117 110 0.64
118 48 0.28
119 7 0.04
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCATCGAACTTTCCAAAATCCCATTTTAACCCCGATTTCATCAAAAA
TTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:13723754 original size:29 final size:29
Alignment explanation
Indices: 13723463--13723748 Score: 122
Period size: 29 Copynumber: 9.8 Consensus size: 29
13723453 TTTAGACTCG
* *
13723463 AACTTTCTAAAATTCCATTTTTAACCCC-
1 AACTTTCCAAAATTACATTTTTAACCCCA
* *
13723491 GA-TTTCATCAAAAATTACCA-TTTT-ACCCTCG
1 AACTTTC--C-AAAATTA-CATTTTTAACCC-CA
*
13723522 AACTTTCCAAAATTTCATTTTTAACCCC-
1 AACTTTCCAAAATTACATTTTTAACCCCA
* * *
13723550 GA-TTTCACCAAAAATTACCA-TTTT-ACCATCG
1 AACTTT--CC-AAAATTA-CATTTTTAACC-CCA
**
13723581 AACTTTCCAAAATCCCA-TTTTAACCCC-
1 AACTTTCCAAAATTACATTTTTAACCCCA
* *
13723608 GA-TTTCACAAAAAATTACCA-TTTTATCCCCA
1 AACTTTC-C--AAAATTA-CATTTTTAACCCCA
*
13723639 AACTTTCCAAAATTCCATTTTTAACCCC-
1 AACTTTCCAAAATTACATTTTTAACCCCA
13723667 AA-TTTCACCGAAAATTACCA-TTTT-ACCCTCA
1 AACTTT--CC-AAAATTA-CATTTTTAACCC-CA
* *
13723698 AACCTTCCAAAATCT-CATTTTTGACCCCA
1 AACTTTCCAAAAT-TACATTTTTAACCCCA
13723727 AA-TTTCTCAAAATTACATTTTT
1 AACTTTC-CAAAATTACATTTTT
13723749 GCCCCCCGAT
Statistics
Matches: 200, Mismatches: 22, Indels: 71
0.68 0.08 0.24
Matches are distributed among these distances:
26 4 0.02
27 12 0.06
28 21 0.10
29 80 0.40
30 58 0.29
31 12 0.06
32 13 0.06
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (29 bp):
AACTTTCCAAAATTACATTTTTAACCCCA
Found at i:13723765 original size:117 final size:116
Alignment explanation
Indices: 13723439--13723782 Score: 392
Period size: 117 Copynumber: 2.9 Consensus size: 116
13723429 CCTGGACTGT
** *
13723439 CCAAAAATTACCATTTTAGACTCGAACTTTCTAAAAT-TCCATTTTTAACCCCGATTTCATCAAA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCT-CATTTTTAACCCCGATTTC-TCAAA
* * * *
13723503 AATTACCATTTTACCCTCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
64 AATTACCATTTTTCCCCCG-ACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * *
13723557 CCAAAAATTACCATTTTACCATCGAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCTC-AAAA
**
13723621 ATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
65 ATTACCATTTT-TCCCCCGACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * * *
13723674 CCGAAAATTACCATTTTACCCTCAAACCTTCCAAAATCTCATTTTTGACCCCAAATTTCTC-AAA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCTCATTTTTAACCCC-GATTTCTCAAAA
* *
13723738 ATTA-CATTTTTGCCCCCCGA-TTATCCAAAAGTCTCATTTTCAACC
65 ATTACCATTTTT--CCCCCGACTT-TCCAAAATTC-CATTTTTAACC
13723783 TTTATCGTGT
Statistics
Matches: 193, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
115 1 0.01
116 9 0.05
117 120 0.62
118 57 0.30
119 6 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.34
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCTCAAAAA
TTACCATTTTTCCCCCGACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:13723766 original size:29 final size:28
Alignment explanation
Indices: 13723634--13723777 Score: 84
Period size: 29 Copynumber: 4.9 Consensus size: 28
13723624 ACCATTTTAT
*
13723634 CCCCAAACTTTCCAAAAT-TCCATTTTTAA
1 CCCCAAA-TTTCCAAAATCT-CATTTTTGA
13723663 CCCC-AATTTCACCGAAAAT-TACCA-TTTT-A
1 CCCCAAATTT--CC-AAAATCT--CATTTTTGA
*
13723692 CCCTCAAACCTTCCAAAATCTCATTTTTGA
1 CCC-CAAA-TTTCCAAAATCTCATTTTTGA
*
13723722 CCCCAAATTTCTCAAAAT-TACATTTTTGC
1 CCCCAAATTTC-CAAAATCT-CATTTTTGA
**
13723751 CCCCCGATTATCCAAAAGTCTCATTTT
1 CCCCAAATT-TCCAAAA-TCTCATTTT
13723778 CAACCTTTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 29
0.74 0.04 0.22
Matches are distributed among these distances:
27 3 0.03
28 8 0.08
29 49 0.52
30 27 0.28
31 6 0.06
32 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.34
Consensus pattern (28 bp):
CCCCAAATTTCCAAAATCTCATTTTTGA
Found at i:13729087 original size:19 final size:19
Alignment explanation
Indices: 13729046--13729087 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13729036 TTGAAATCTG
*
13729046 TTATTTGATTATTCTATTT
1 TTATTTGATTATTCAATTT
*
13729065 TTATTTTATTATT-AATTT
1 TTATTTGATTATTCAATTT
13729083 CTTAT
1 -TTAT
13729088 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (19 bp):
TTATTTGATTATTCAATTT
Found at i:13729940 original size:22 final size:22
Alignment explanation
Indices: 13729897--13729945 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
13729887 GACACAAGGC
*
13729897 AATTTTAATTAAATAAAAAAAT
1 AATTTTAATTAAATAAAAAATT
13729919 AATTTTAATATTAAAT-AAAAATT
1 AATTTT-A-ATTAAATAAAAAATT
13729942 AATT
1 AATT
13729946 ATATTCGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 11 0.46
24 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTTAATTAAATAAAAAATT
Found at i:13731130 original size:34 final size:34
Alignment explanation
Indices: 13731091--13731180 Score: 135
Period size: 34 Copynumber: 2.6 Consensus size: 34
13731081 CCTTTCATCT
* * *
13731091 TTTAACCTTCCATATTTCTTAACCTCTCTTGATC
1 TTTAACCTTCCATCTTCCTTAACCTCCCTTGATC
* *
13731125 TTTAACTTTCCATCTTCCTTAATCTCCCTTGATC
1 TTTAACCTTCCATCTTCCTTAACCTCCCTTGATC
13731159 TTTAACCTTCCATCTTCCTTAA
1 TTTAACCTTCCATCTTCCTTAA
13731181 ATTTTCATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTAACCTTCCATCTTCCTTAACCTCCCTTGATC
Found at i:13732423 original size:30 final size:30
Alignment explanation
Indices: 13732387--13732456 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
13732377 CACACTAGTA
*
13732387 GTCGTGGTCGAGGACATGATCGTGGTCATG
1 GTCGTGGTCGAGGACATGACCGTGGTCATG
13732417 GTCGTGGTCGAGGACATGACCGTGGTCATG
1 GTCGTGGTCGAGGACATGACCGTGGTCATG
13732447 GTCGTGGTCG
1 GTCGTGGTCG
13732457 CAATCGAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.19, G:0.41, T:0.26
Consensus pattern (30 bp):
GTCGTGGTCGAGGACATGACCGTGGTCATG
Found at i:13736655 original size:34 final size:34
Alignment explanation
Indices: 13736612--13736702 Score: 137
Period size: 34 Copynumber: 2.7 Consensus size: 34
13736602 ACCTTTCATC
13736612 TTTTAACCTTCCATCTTCCTTAATCTCCCTTGAT
1 TTTTAACCTTCCATCTTCCTTAATCTCCCTTGAT
* *
13736646 TTTTAACCTTCCATCTTTCTTAATCTCTCTTGAT
1 TTTTAACCTTCCATCTTCCTTAATCTCCCTTGAT
* * *
13736680 CTTTAACCTTTCATCTTCATTAA
1 TTTTAACCTTCCATCTTCCTTAA
13736703 CTTTTCATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (34 bp):
TTTTAACCTTCCATCTTCCTTAATCTCCCTTGAT
Found at i:13739831 original size:29 final size:29
Alignment explanation
Indices: 13739793--13739859 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
13739783 AGTCTATATC
* *
13739793 TTTATAATTTTTAAAAGAT-TAAATAAAAT
1 TTTATCATTTTT-AAAGATCAAAATAAAAT
*
13739822 TTTATCATTTTTAAAGGTCAAAATAAAAT
1 TTTATCATTTTTAAAGATCAAAATAAAAT
*
13739851 TTTACCATT
1 TTTATCATT
13739860 ACTAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (29 bp):
TTTATCATTTTTAAAGATCAAAATAAAAT
Found at i:13741033 original size:20 final size:20
Alignment explanation
Indices: 13741008--13741046 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13740998 TTTGAAAATC
13741008 ATGTTACTGGATGTTCAAGT
1 ATGTTACTGGATGTTCAAGT
*
13741028 ATGTTATTGGATGTTCAAG
1 ATGTTACTGGATGTTCAAG
13741047 CTACCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (20 bp):
ATGTTACTGGATGTTCAAGT
Found at i:13758018 original size:78 final size:79
Alignment explanation
Indices: 13757931--13758584 Score: 505
Period size: 78 Copynumber: 8.2 Consensus size: 79
13757921 CTCTAATTAG
* * *
13757931 GGTAAGAGATTGGATTGTCTTTAATCTTCCCTC-TGATTAGGGTAAAAGATTGGATG-CTTCAAT
1 GGTAAGAGATTGGATTGTCTTCAATCTGCCC-CATGATTAGGGTAAGAGATTGGATGTCTTCAAT
13757994 CTGCCCCATGATCGA
65 CTGCCCCATGATCGA
* * * * * *
13758009 GGTAAGAGATT-GATTTGTCTTCAATTTGCCTTC-TGATTAAGGTAAAAGATTGAAT-ACTTCAA
1 GGTAAGAGATTGGA-TTGTCTTCAATCTGCC-CCATGATTAGGGTAAGAGATTGGATGTCTTCAA
* *
13758071 TCTACCCCATGATCGG
64 TCTGCCCCATGATCGA
* * * *
13758087 GGTAAGAGATTGGATTGTCTTTAATCTGCCTTC-TGATTAAGGTAAGAGATTGGATTGTCTTTAA
1 GGTAAGAGATTGGATTGTCTTCAATCTGCC-CCATGATTAGGGTAAGAGATTGGA-TGTCTTCAA
** * *
13758151 TCTGCCCTTTTAT-TA
64 TCTGCCCCATGATCGA
* * ** *
13758166 GGGTAAAAGATTGGA-TG-CTTCAATAC-GCCCCATGATCAGGG-AAGAGATTAGTTTGTTTTCA
1 -GGTAAGAGATTGGATTGTCTTCAAT-CTGCCCCATGATTAGGGTAAGAGATT-GGATGTCTTCA
* * **
13758227 ATCTACCTTC-TGATTAA
63 ATCTGCC-CCATGATCGA
* * * *
13758244 GGTAAAAGATTGGA-TG-CTTTAATCTGCCCCATGA-TCGAGGTAAGAGATTGGTACGTCTTCAA
1 GGTAAGAGATTGGATTGTCTTCAATCTGCCCCATGATTAG-GGTAAGAGATTGG-ATGTCTTCAA
** *
13758306 TCTGCTTCATGATCAA
64 TCTGCCCCATGATCGA
*
13758322 GGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGATT-GAGGTAAGAGATTGGATGTGTCTT
1 GGTAAGAGATTGGAT--TGTCTTCAATCTGCCCCATGATTAG-GGTAAGAGATTGGA--TGTCTT
*
13758386 CAATCTGCCCTATGATC-A
61 CAATCTGCCCCATGATCGA
* * ** *
13758404 GGGTAAGATATTGGATGATGTCTTCAATCTGCCCCATGATCAAAGTAAGAGATTGAATTATGTCT
1 -GGTAAGAGATTGGAT--TGTCTTCAATCTGCCCCATGATTAGGGTAAGAGATTG---GATGTCT
* *
13758469 TCAGTCTGCCCCATGATCGG
60 TCAATCTGCCCCATGATCGA
* * * **
13758489 GGTAAGAGATTGAATATGTCTTCAATTTGGCCCATGATCGGGGTAAGAGATTGGATAATGTCTTC
1 GGTAAGAGATTGGAT-TGTCTTCAATCTGCCCCATGATTAGGGTAAGAGATTGG---ATGTCTTC
*
13758554 AATCTGCCCCATGATCGG
62 AATCTGCCCCATGATCGA
13758572 GGTAAGAGATTGG
1 GGTAAGAGATTGG
13758585 TGCGGCTTCA
Statistics
Matches: 473, Mismatches: 70, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
76 2 0.00
77 62 0.13
78 168 0.36
79 6 0.01
80 27 0.06
81 3 0.01
82 32 0.07
83 138 0.29
84 34 0.07
86 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (79 bp):
GGTAAGAGATTGGATTGTCTTCAATCTGCCCCATGATTAGGGTAAGAGATTGGATGTCTTCAATC
TGCCCCATGATCGA
Found at i:13758248 original size:77 final size:78
Alignment explanation
Indices: 13758162--13758444 Score: 241
Period size: 83 Copynumber: 3.5 Consensus size: 78
13758152 CTGCCCTTTT
* ** *
13758162 ATTAGGGTAAAAGATTGGATGCTTCAATAC-GCCCCATGATC-AGGGAAGAGATTAGTTTGTTTT
1 ATTAAGGTAAAAGATTGGATGCTTCAAT-CTGCCCCATGATCGAGGGAAGAGATTAGTACGTCTT
13758225 CAATCTACCTTC-TG
65 CAATCT-CCTTCATG
* * *
13758239 ATTAAGGTAAAAGATTGGATGCTTTAATCTGCCCCATGATCGAGGTAAGAGATTGGTACGTCTTC
1 ATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGGAAGAGATTAGTACGTCTTC
*
13758304 AATCTGCTTCATG
66 AATCTCCTTCATG
* * * * * * **
13758317 ATCAAGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGATTGAGGTAAGAGATTGGATGTG
1 ATTAAGGTAAAAGATT-G--GATG-CTTCAATCTGCCCCATGATCGAGGGAAGAGATTAG-TACG
*
13758382 TCTTCAATCTGCCCT-ATG
61 TCTTCAATCT-CCTTCATG
* * * *
13758400 ATCAGGGTAAGATATTGGATGATGTCTTCAATCTGCCCCATGATC
1 ATTAAGGTAAAAGATT-G--GATG-CTTCAATCTGCCCCATGATC
13758445 AAAGTAAGAG
Statistics
Matches: 176, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
76 1 0.01
77 41 0.23
78 39 0.22
79 1 0.01
81 4 0.02
82 32 0.18
83 56 0.32
84 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (78 bp):
ATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGGAAGAGATTAGTACGTCTTC
AATCTCCTTCATG
Found at i:13758358 original size:42 final size:41
Alignment explanation
Indices: 13757871--13758584 Score: 553
Period size: 40 Copynumber: 17.8 Consensus size: 41
13757861 GATGATAGCA
** * *
13757871 TCAATCTGCCCCATGATCGGGGTAAGAGAATGG-TGTGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * * * * *
13757911 TCAATTTGTTCTC-TAATTAGGGTAAGAGATTGGAT-TGTCT
1 TCAATCTG-CCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * * * *
13757951 TTAATCTTCCCTC-TGATTAGGGTAAAAGATTGG--ATG-CT
1 TCAATCTGCCC-CATGATCAAGGTAAGAGATTGGATATGTCT
* *
13757989 TCAATCTGCCCCATGATCGAGGTAAGAGATT-GATTTGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * * * *
13758029 TCAATTTGCCTTC-TGATTAAGGTAAAAGATT-GA-AT-ACT
1 TCAATCTGCC-CCATGATCAAGGTAAGAGATTGGATATGTCT
* **
13758067 TCAATCTACCCCATGATCGGGGTAAGAGATTGGAT-TGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * *
13758107 TTAATCTGCCTTC-TGATTAAGGTAAGAGATTGGAT-TGTCT
1 TCAATCTGCC-CCATGATCAAGGTAAGAGATTGGATATGTCT
* ** * * * *
13758147 TTAATCTGCCCTTTTATTAGGGTAAAAGATTGG--ATG-CT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * * *
13758185 TCAATAC-GCCCCATGATC-AGGGAAGAGATTAG-TTTGTTT
1 TCAAT-CTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * * *
13758224 TCAATCTACCTTC-TGATTAAGGTAAAAGATTGG--ATG-CT
1 TCAATCTGCC-CCATGATCAAGGTAAGAGATTGGATATGTCT
* * *
13758262 TTAATCTGCCCCATGATCGAGGTAAGAGATTGG-TACGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
**
13758302 TCAATCTGCTTCATGATCAAGGTAAGAGATTGGATGATGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGAT-ATGTCT
* ** *
13758344 TCAATCTGCCTCATGATTGAGGTAAGAGATTGGATGTGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * *
13758385 TCAATCTGCCCTATGATCAGGGTAAGATATTGGATGATGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGAT-ATGTCT
* *
13758427 TCAATCTGCCCCATGATCAAAGTAAGAGATTGAATTATGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGA-TATGTCT
* ** *
13758469 TCAGTCTGCCCCATGATCGGGGTAAGAGATTGAATATGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
* * **
13758510 TCAATTTGGCCCATGATCGGGGTAAGAGATTGGATAATGTCT
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGGAT-ATGTCT
**
13758552 TCAATCTGCCCCATGATCGGGGTAAGAGATTGG
1 TCAATCTGCCCCATGATCAAGGTAAGAGATTGG
13758585 TGCGGCTTCA
Statistics
Matches: 540, Mismatches: 104, Indels: 58
0.77 0.15 0.08
Matches are distributed among these distances:
37 14 0.03
38 91 0.17
39 28 0.05
40 184 0.34
41 78 0.14
42 144 0.27
43 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TCAATCTGCCCCATGATCAAGGTAAGAGATTGGATATGTCT
Found at i:13758727 original size:49 final size:49
Alignment explanation
Indices: 13758674--13759100 Score: 258
Period size: 49 Copynumber: 8.7 Consensus size: 49
13758664 ATGAGATTCA
* * *
13758674 CCGTTGCGGCCTTAATCTTTCCCTTCATATCTCTATGGTATAAGGTTTG
1 CCGTTGCGGCCTCAATCTTTCCCTTCATATCTCTATGGTACAAGGTTCG
** * * *
13758723 CCGTTATGGCTTCAA-CATTT-CCTTCCATATCTCCATGGTACAAGATTCG
1 CCGTTGCGGCCTCAATC-TTTCCCTT-CATATCTCTATGGTACAAGGTTCG
* * * * * ** *
13758772 TCGTTGTGGCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCA
1 CCGTTGCGGCCTCAATCTTTCCCTTCATATC-TCTATGGTACAAGGTTCG
* * * * *
13758822 CCGTTACGGGCTCAA-CTTTTCCCTTCATATCT-TCATGATACCAGATTCG
1 CCGTTGCGGCCTCAATC-TTTCCCTTCATATCTCT-ATGGTACAAGGTTCG
*
13758871 CCGTTGCGGCCTCAATCTTTCCCTTCATATCT-TCATGGTAC-CGGATTCG
1 CCGTTGCGGCCTCAATCTTTCCCTTCATATCTCT-ATGGTACAAGG-TTCG
* * * * * * **
13758920 TCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTTA
1 CCGTTGCGGCCTCAATCTTTCCCTTCATATC-TCTATGGTACAAGGTTCG
* * * * * * * *
13758970 TCATTGCGGCCTTAACCTTTCCCTTCATATCTTTTTGGTAC-CGGATTCA
1 CCGTTGCGGCCTCAATCTTTCCCTTCATATCTCTATGGTACAAGG-TTCG
* * * * * ** *
13759019 CCGTTACGGCCTCAATCCTT-CTTATCATATCTTTTAAGGTACTGGGTTCA
1 CCGTTGCGGCCTCAATCTTTCCCT-TCATATC-TCTATGGTACAAGGTTCG
* * *
13759069 CCATTGCGACCTCAATATTTCCCTTCATATCT
1 CCGTTGCGGCCTCAATCTTTCCCTTCATATCT
13759101 TCATGGTTCC
Statistics
Matches: 290, Mismatches: 71, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
48 11 0.04
49 164 0.57
50 108 0.37
51 7 0.02
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (49 bp):
CCGTTGCGGCCTCAATCTTTCCCTTCATATCTCTATGGTACAAGGTTCG
Done.