Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 154 of 163
Found at i:51217613 original size:28 final size:28
Alignment explanation
Indices: 51217582--51217661 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
51217572 TGGCCAAACT
**
51217582 AAAAAATTGATAGTTGGGTGACCAATAA
1 AAAAAATCAATAGTTGGGTGACCAATAA
* * * *
51217610 AAAAGACCAATAGTTGGGTGATCAAATTA
1 AAAAAATCAATAGTTGGGTGA-CCAATAA
*
51217639 AAAAAATCAATAGTTGAGTGACC
1 AAAAAATCAATAGTTGGGTGACC
51217662 TATGGTGTAG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (28 bp):
AAAAAATCAATAGTTGGGTGACCAATAA
Found at i:51230021 original size:7 final size:7
Alignment explanation
Indices: 51230009--51230042 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
51229999 TGATGTTGGG
51230009 GTTTGAA
1 GTTTGAA
51230016 GTTTGAA
1 GTTTGAA
51230023 GTTTGAA
1 GTTTGAA
51230030 GTTTGAA
1 GTTTGAA
51230037 GTTTGA
1 GTTTGA
51230043 TTTTTTTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (7 bp):
GTTTGAA
Found at i:51243281 original size:6 final size:6
Alignment explanation
Indices: 51243260--51243299 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
51243250 CATCAATTTT
** *
51243260 TTTTAC TTTTGT TTTTAC TTTTAC TTTTAC TTTCAC TTTT
1 TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTT
51243300 TTTTTCTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.70
Consensus pattern (6 bp):
TTTTAC
Found at i:51247095 original size:24 final size:24
Alignment explanation
Indices: 51247068--51247124 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
51247058 AATTTTTTTT
*
51247068 TAAAATATCATTTTT-TAATTAATA
1 TAAAATAT-ATTTTTAAAATTAATA
51247092 TAAAA-ATATTTTTAAAAATTAATA
1 TAAAATATATTTTT-AAAATTAATA
51247116 TAAAATATA
1 TAAAATATA
51247125 AAAAGAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.21
23 2 0.07
24 18 0.62
25 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAAATATATTTTTAAAATTAATA
Found at i:51264311 original size:21 final size:21
Alignment explanation
Indices: 51264282--51264329 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
51264272 AACATAAAGA
51264282 TTATATTTTT-AAATAAAAAT
1 TTATATTTTTAAAATAAAAAT
*
51264302 CTTATTTTTTTAAAAATAAAAAT
1 -TTATATTTTT-AAAATAAAAAT
51264325 TTATA
1 TTATA
51264330 AGAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 4 0.17
23 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATATTTTTAAAATAAAAAT
Found at i:51266867 original size:3 final size:3
Alignment explanation
Indices: 51266854--51266894 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
51266844 TAGATTAAAA
51266854 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51266895 AATAAAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:51270906 original size:25 final size:25
Alignment explanation
Indices: 51270878--51270968 Score: 119
Period size: 25 Copynumber: 3.6 Consensus size: 25
51270868 TAGCGCGCTT
* *
51270878 TCTGATTATTAGCATGTCATTGCTC
1 TCTGATTATTAGCACGTCAATGCTC
* *
51270903 TCTGATTATTAGTACGCCAATGCTC
1 TCTGATTATTAGCACGTCAATGCTC
***
51270928 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTCAATGCTC
51270953 TCTGATTATTAGCACG
1 TCTGATTATTAGCACG
51270969 ATGGTGCTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (25 bp):
TCTGATTATTAGCACGTCAATGCTC
Found at i:51270973 original size:25 final size:25
Alignment explanation
Indices: 51270898--51270979 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
51270888 AGCATGTCAT
* ****
51270898 TGCTCTCTGATTATTAGTACGCCAA
1 TGCTCTCTGATTATTAGCACGATGG
*
51270923 TGCTCTCTGATTATTAGCACGTTGG
1 TGCTCTCTGATTATTAGCACGATGG
51270948 TGCTCTCTGATTATTAGCACGATGG
1 TGCTCTCTGATTATTAGCACGATGG
51270973 TGCTCTC
1 TGCTCTC
51270980 CGTTTAGTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACGATGG
Found at i:51271274 original size:14 final size:14
Alignment explanation
Indices: 51271255--51271285 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
51271245 ATATAAAGCA
51271255 AGTGATGAAAATTG
1 AGTGATGAAAATTG
51271269 AGTGATGAAAATTG
1 AGTGATGAAAATTG
51271283 AGT
1 AGT
51271286 ATTGTGTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
AGTGATGAAAATTG
Found at i:51278435 original size:15 final size:17
Alignment explanation
Indices: 51278414--51278454 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
51278404 TAATCTTTTA
51278414 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
51278430 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
51278446 AAAATTATA
1 AAAATTATA
51278455 TTTTTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:51280575 original size:45 final size:45
Alignment explanation
Indices: 51280524--51280614 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
51280514 AACATGCATG
* * *
51280524 ACAAAGACAATAATAAGAGTACAAATAATAATATGGGGAACAATA
1 ACAAAGACAATAATAACAATACAAATAATAATATGGAGAACAATA
* * * *
51280569 ACAAAGAGAATAATAACAATATAAATGATAATATGGAGAATAATA
1 ACAAAGACAATAATAACAATACAAATAATAATATGGAGAACAATA
51280614 A
1 A
51280615 GAGCGATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (45 bp):
ACAAAGACAATAATAACAATACAAATAATAATATGGAGAACAATA
Found at i:51283598 original size:44 final size:45
Alignment explanation
Indices: 51283550--51283734 Score: 114
Period size: 44 Copynumber: 4.2 Consensus size: 45
51283540 ACTACTGCTT
51283550 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAAC-C
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAACAC
* * * * *
51283594 AGGGAAAT-AGAAT-TACT-AGCTTCAATGTACTCCACTG-TAACCAC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCCAA-CAC
* * * *** * * * ** **
51283638 AGAGAGGTAAAATCTGCCATCTTCGATCTGTTCCACT-ACTGCTT
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAACAC
* *
51283682 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCAATGCCAAC-C
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAACAC
51283726 AGGGAGATA
1 AGGGAGATA
51283735 GAATTACCAA
Statistics
Matches: 99, Mismatches: 33, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
42 2 0.02
43 22 0.22
44 57 0.58
45 18 0.18
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAACAC
Found at i:51283620 original size:132 final size:132
Alignment explanation
Indices: 51283330--51283935 Score: 788
Period size: 132 Copynumber: 4.6 Consensus size: 132
51283320 ACTGCAATTT
* * *
51283330 CAGGGAGATATG-ATTAGT-GCTTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
1 CAGGGAGATA-GAATTACTAGC-TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCC
* * * *
51283393 ATCTCCGATCTGCTCCACTACCGCTTAGGGAG-TAAGATCTGTAATCTTCAATCTATTTCACTGT
64 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
***
51283457 TGCC
129 CAAC
* * *
51283461 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTGTCAT
1 CAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
* ** *
51283526 CTTCGTTCTGCTTTACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCA
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCA
51283591 AC
131 AC
* * *
51283593 CAGGGAAATAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCTGCCAT
1 CAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
* *
51283658 CTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAATGCCA
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCA
51283723 AC
131 AC
* * * *
51283725 CAGGGAGATAGAATTACCAACTTCAATGTACTCCACTGTAACCTCAGGGAGGTAGAATCCGCCAT
1 CAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
* ** *
51283790 CTTCGATCTGCTCCACTACTGGTTAGGGAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC-
*
51283855 AATA
130 AA-C
* * * ** *
51283859 CAAGGAGATAGAGTTA-TTGACTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCA
1 CAGGGAGATAGAATTACTAG-CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCA
* *
51283923 TTTTCAATCTGCT
65 TCTTCGATCTGCT
51283936 TCGCTGCCAA
Statistics
Matches: 415, Mismatches: 54, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.00
131 80 0.19
132 268 0.65
133 2 0.00
134 64 0.15
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCA
AC
Found at i:51284097 original size:86 final size:86
Alignment explanation
Indices: 51283929--51284402 Score: 761
Period size: 86 Copynumber: 5.5 Consensus size: 86
51283919 GCCATTTTCA
* * *
51283929 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTAC-AATC
1 ATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAAT-
*
51283993 GAGAGAGACAAGGTTTGTCTTCG
64 GAGAGAGGCAAGGTTTGTCTTCG
* * * *
51284016 ATCTGCTTCGTTGTCAATGCAAGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACGAATAA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAATGA
*
51284081 GAGAGACAAGGTTTGTCTTCG
66 GAGAGGCAAGGTTTGTCTTCG
* * * *
51284102 ATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTATCTTCAACCAGCTTTGCTACGAATGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAATGA
51284167 GAGAGGCAAGGTTTGTCTTCG
66 GAGAGGCAAGGTTTGTCTTCG
*
51284188 ATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAATGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAATGA
51284253 GAGAGGCAAGGTTTGTCTTCG
66 GAGAGGCAAGGTTTGTCTTCG
*
51284274 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAACGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAATGA
* *
51284339 AAGAGGCAAGGTTTGTCTTCA
66 GAGAGGCAAGGTTTGTCTTCG
*
51284360 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCCATCTT
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
51284403 TACTAATCTG
Statistics
Matches: 363, Mismatches: 23, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
86 347 0.96
87 16 0.04
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (86 bp):
ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAATGA
GAGAGGCAAGGTTTGTCTTCG
Found at i:51291090 original size:11 final size:9
Alignment explanation
Indices: 51291063--51291123 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
51291053 ATGGGTTTGC
51291063 AAAAATAAA
1 AAAAATAAA
51291072 AAAAATAAA
1 AAAAATAAA
51291081 AAAAGGATAAA
1 AAAA--ATAAA
* *
51291092 ACAAATGAA
1 AAAAATAAA
*
51291101 CAAAATAAA
1 AAAAATAAA
51291110 AAAAA-AGAA
1 AAAAATA-AA
51291119 AAAAA
1 AAAAA
51291124 CAAAGGAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 34 0.79
11 8 0.19
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.08
Consensus pattern (9 bp):
AAAAATAAA
Found at i:51301031 original size:22 final size:23
Alignment explanation
Indices: 51300983--51301031 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
51300973 TAATCGTAGA
51300983 TTTA-TTATTCTATTTTAATTAT
1 TTTATTTATTCTATTTTAATTAT
* *
51301005 CTTATTTATT-TATTTTAATTGT
1 TTTATTTATTCTATTTTAATTAT
51301027 TTTAT
1 TTTAT
51301032 CTAACTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTATTTATTCTATTTTAATTAT
Found at i:51301509 original size:18 final size:18
Alignment explanation
Indices: 51301486--51301520 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51301476 CCATCTGGCC
*
51301486 CAAGACCCAATAATAAAA
1 CAAGACCAAATAATAAAA
51301504 CAAGACCAAATAATAAA
1 CAAGACCAAATAATAAA
51301521 GTCTAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.20, G:0.06, T:0.11
Consensus pattern (18 bp):
CAAGACCAAATAATAAAA
Found at i:51306216 original size:103 final size:103
Alignment explanation
Indices: 51306027--51306239 Score: 309
Period size: 103 Copynumber: 2.1 Consensus size: 103
51306017 TGATTAGTAA
* *
51306027 AAAATAAGTAAAATAAAAATAAAAGGGATTTTAAAATTGAAAAGTTAAATTAAAACTAAAACTAT
1 AAAATAAGTAAAATAAAAATAAAAGGGATTTGAAAATTAAAAAGTTAAATTAAAACTAAAACTAT
* * * *
51306092 TGAAATAAAGACCATATATAAAATTTTAAAAAATCAAT
66 TGAAAGAAAGACCATAAATAAAAATCTAAAAAATCAAT
* *
51306130 AAAATAAGTAAAATAAAAATAAAAGGGATTTGAAAATTAAAAATTTAAATTAGAACTAAAACTAT
1 AAAATAAGTAAAATAAAAATAAAAGGGATTTGAAAATTAAAAAGTTAAATTAAAACTAAAACTAT
* * * *
51306195 TGAAAGAAATATCGTAAATAAAAATCTAACAAATCAAT
66 TGAAAGAAAGACCATAAATAAAAATCTAAAAAATCAAT
*
51306233 AAGATAA
1 AAAATAA
51306240 AAAGTTAGTG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (103 bp):
AAAATAAGTAAAATAAAAATAAAAGGGATTTGAAAATTAAAAAGTTAAATTAAAACTAAAACTAT
TGAAAGAAAGACCATAAATAAAAATCTAAAAAATCAAT
Found at i:51306415 original size:30 final size:29
Alignment explanation
Indices: 51306374--51306432 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
51306364 CAAAAGAGAA
51306374 TACGCATTTTTATTAATCAATAGGAGTGTT
1 TACGCATTTTTATTAATCAATAGG-GTGTT
*
51306404 TACGTATTTTTATTAATCAATAGGGTGTT
1 TACGCATTTTTATTAATCAATAGGGTGTT
51306433 CACAATGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (29 bp):
TACGCATTTTTATTAATCAATAGGGTGTT
Found at i:51308553 original size:9 final size:9
Alignment explanation
Indices: 51308536--51308566 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51308526 TCGAGTTGAT
51308536 TCGAATAAC
1 TCGAATAAC
*
51308545 TCGATTAAC
1 TCGAATAAC
51308554 TCGAATAAC
1 TCGAATAAC
51308563 TCGA
1 TCGA
51308567 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:51310940 original size:16 final size:16
Alignment explanation
Indices: 51310919--51310954 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51310909 ATGATAATAT
*
51310919 TTAAATTACTATCCAA
1 TTAAATTAATATCCAA
*
51310935 TTAAATTAATATCTAA
1 TTAAATTAATATCCAA
51310951 TTAA
1 TTAA
51310955 CTCATGATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATTAATATCCAA
Found at i:51333601 original size:29 final size:30
Alignment explanation
Indices: 51333541--51333601 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
51333531 GGAGGGGAGG
* * **
51333541 AGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 AGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
*
51333571 AGAGTGAAAGTTTTGAGGGAAAAGT-AAAA
1 AGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
51333600 AG
1 AG
51333602 GTTTGGGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
AGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
Found at i:51334823 original size:40 final size:39
Alignment explanation
Indices: 51334752--51334968 Score: 134
Period size: 41 Copynumber: 5.4 Consensus size: 39
51334742 AAAATCAAGC
*
51334752 ATTAGCGGCGCTTTTAAAATACCGCCACTAAAGATCGGGT
1 ATTAGCGGCGTTTTTAAAA-ACCGCCACTAAAGATCGGGT
* * *
51334792 ATTAGCGGCGCTTTTTAGAAAA-CG-CAGCTAAAAAT-GAGA
1 ATTAGCGGCG-TTTTTA-AAAACCGCCA-CTAAAGATCGGGT
* * *
51334831 ATTAGCGGCGTTTTCCAAAAAGCGCCACTAAAGATCTGGT
1 ATTAGCGGCGTTTT-TAAAAACCGCCACTAAAGATCGGGT
* * * * * *
51334871 CTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGCTCTGGT
1 -ATTAGCGGCGTTTTT-AAAAACCGCCACTAAAGATCGGGT
* * * * * * *
51334912 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 -ATTAGCGGCGTTTTT-AAAAACCGCCACTAAAGATCGGGT
*
51334953 CTTTAGCGGCGTTTTT
1 -ATTAGCGGCGTTTTT
51334969 GAGAAAGCGT
Statistics
Matches: 153, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 8 0.05
39 24 0.16
40 22 0.14
41 96 0.63
42 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (39 bp):
ATTAGCGGCGTTTTTAAAAACCGCCACTAAAGATCGGGT
Found at i:51334862 original size:39 final size:38
Alignment explanation
Indices: 51334729--51334862 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 38
51334719 CGTTTGTATA
* * *
51334729 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
1 AAAAACGCCACTAAAAATCGAGAATTAGCGGCGCTTTT
* * *
51334767 AAAATACCGCCACTAAAGATCGGGTATTAGCGGCGCTTTTT
1 AAAA-A-CGCCACTAAAAATCGAGAATTAGCGGCGC-TTTT
51334808 AGAAAACG-CAGCTAAAAAT-GAGAATTAGCGGCG-TTTT
1 A-AAAACGCCA-CTAAAAATCGAGAATTAGCGGCGCTTTT
51334845 CCAAAAAGCGCCACTAAA
1 --AAAAA-CGCCACTAAA
51334863 GATCTGGTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
37 4 0.05
38 8 0.10
39 23 0.29
40 35 0.44
41 6 0.08
42 3 0.04
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (38 bp):
AAAAACGCCACTAAAAATCGAGAATTAGCGGCGCTTTT
Found at i:51334862 original size:79 final size:80
Alignment explanation
Indices: 51334712--51334892 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 80
51334702 AGCGGCGTTT
* * * *
51334712 TTAGTGGCGTTTGTATAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAAAATACCGC
1 TTAGCGGCGTTT-T-TAGAAAACGCAGCTAAAAATCAAGAATTAGCGGCGCTTTTAAAATACCGC
51334777 CACTAAAGATCGGGT-A
64 CACTAAAGATCGGGTCA
* *
51334793 TTAGCGGCGCTTTTTAGAAAACGCAGCTAAAAAT-GAGAATTAGCGGCG-TTTTCCAAAA-AGCG
1 TTAGCGGCG-TTTTTAGAAAACGCAGCTAAAAATCAAGAATTAGCGGCGCTTTT--AAAATACCG
* *
51334855 CCACTAAAGATCTGGTCT
63 CCACTAAAGATCGGGTCA
*
51334873 TTAGCGGCGTTTTTGGAAAA
1 TTAGCGGCGTTTTTAGAAAA
51334893 GCGCCACTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 4 0.05
79 40 0.46
80 31 0.36
81 9 0.10
82 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAGCGGCGTTTTTAGAAAACGCAGCTAAAAATCAAGAATTAGCGGCGCTTTTAAAATACCGCCA
CTAAAGATCGGGTCA
Found at i:51335134 original size:41 final size:41
Alignment explanation
Indices: 51334832--51335133 Score: 428
Period size: 41 Copynumber: 7.4 Consensus size: 41
51334822 AAAATGAGAA
*** * * *
51334832 TTAGCGGCGTTTTCCAAAAAGCGCCACTAAAGATCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
51334873 TTAGCGGCGTTTTTGGAAAAGCGCCACTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
51334914 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
* *
51334955 TTAGCGGCGTTTTT-GAGAAAGCGTCGTTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGA-AAAGCGCCGCTAATGCTCTGGTCT
* *
51334996 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTCTGGTAT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
* **
51335037 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTATTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
* *
51335078 TTAGCGGCGCTTTTGTGAAAA-CACCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTG-GAAAAGCGCCGCTAATGCTCTGGTCT
51335119 TTAGCGGCGTTTTTG
1 TTAGCGGCGTTTTTG
51335134 TAGAAGTGCC
Statistics
Matches: 235, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.01
41 227 0.97
42 6 0.03
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:51335317 original size:21 final size:21
Alignment explanation
Indices: 51335263--51335359 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
51335253 AGTGCTAAAT
*
51335263 AGAAACCCATAAGGGTTGAAC
1 AGAAACCCATAAGAGTTGAAC
* *** *
51335284 GGAAGTTCGTAAGAGTTGAAC
1 AGAAACCCATAAGAGTTGAAC
* *
51335305 AGAAACCCATAAGGGTTAAAC
1 AGAAACCCATAAGAGTTGAAC
* * * * *
51335326 TGAAGCTCAAAAGAGCTGAAC
1 AGAAACCCATAAGAGTTGAAC
*
51335347 GGAAACCCATAAG
1 AGAAACCCATAAG
51335360 GGTTAAACTA
Statistics
Matches: 52, Mismatches: 24, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
AGAAACCCATAAGAGTTGAAC
Found at i:51335368 original size:42 final size:42
Alignment explanation
Indices: 51335263--51335368 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
51335253 AGTGCTAAAT
* * * ** *
51335263 AGAAACCCATAAGGGTTGAACGGAAGTTCGTAAGAGTTGAAC
1 AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
51335305 AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
1 AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
*
51335347 GGAAACCCATAAGGGTTAAACT
1 AGAAACCCATAAGGGTTAAACT
51335369 AAAACTCATG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (42 bp):
AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
Found at i:51336849 original size:18 final size:18
Alignment explanation
Indices: 51336811--51336851 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
51336801 TAATATGAAA
* **
51336811 TTCTTTTGCTTACACTTT
1 TTCTTTCGCTTACACGGT
51336829 TTCTTTCGCTTACACGGT
1 TTCTTTCGCTTACACGGT
51336847 TTCTT
1 TTCTT
51336852 CTATGTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.24, G:0.10, T:0.56
Consensus pattern (18 bp):
TTCTTTCGCTTACACGGT
Found at i:51341462 original size:14 final size:14
Alignment explanation
Indices: 51341443--51341472 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51341433 AGTTGCACTA
51341443 TTTGAACTTGAAAT
1 TTTGAACTTGAAAT
*
51341457 TTTGAACTTGTAAT
1 TTTGAACTTGAAAT
51341471 TT
1 TT
51341473 AACATGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
TTTGAACTTGAAAT
Found at i:51341699 original size:43 final size:43
Alignment explanation
Indices: 51341635--51341941 Score: 390
Period size: 43 Copynumber: 7.2 Consensus size: 43
51341625 ATGGTACTTT
* * * *
51341635 TAGCGGCG-TT-TGTAATCAAAGCGTCGCTAAATGTCTTGAGCTA
1 TAGCGGCGTTTGTGTAA--AAAGCGCCGCTAAAGGTCCTGATCTA
* * * * *
51341678 TAGCGACATTTGTGCAAAAAGCGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
51341721 TAGCGGCGTTTGTG-AAAGATGCGTCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGTAAA-AAGCGCCGCTAAAGGTCCTGATCTA
*
51341764 TAGCGGCGTTTCTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
51341807 TAGCGGCGTTTTTGTAAAAAGCGCCGCTAAAGGTCCTGACCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
*
51341850 TAGCGGCGTCTT-TATAAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGT-TTGTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
51341893 TAGCGGCGTTTTTG-GAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
51341935 TAGCGGC
1 TAGCGGC
51341942 ATTGACAATA
Statistics
Matches: 238, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
42 39 0.16
43 188 0.79
44 7 0.03
45 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:51343611 original size:5 final size:5
Alignment explanation
Indices: 51343549--51343605 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
51343539 TTTTTTGAAG
* *
51343549 TATAT TATTAT TTTAT TATATT GTAAAT TATAT TATAT TATAT TATTAT
1 TATAT TA-TAT TATAT TATA-T -TATAT TATAT TATAT TATAT TA-TAT
51343598 TATAT TAT
1 TATAT TAT
51343606 TATATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 30 0.68
6 11 0.25
7 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:51346205 original size:21 final size:21
Alignment explanation
Indices: 51346151--51346247 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
51346141 AGTGCTAAAT
*
51346151 AGAAACCCATAAGGGTTGAAC
1 AGAAACCCATAAGAGTTGAAC
* *** *
51346172 GGAAGTTCGTAAGAGTTGAAC
1 AGAAACCCATAAGAGTTGAAC
* *
51346193 AGAAACCCATAAGGGTTAAAC
1 AGAAACCCATAAGAGTTGAAC
* * * * *
51346214 TGAAGCTCAAAAGAGCTGAAC
1 AGAAACCCATAAGAGTTGAAC
*
51346235 GGAAACCCATAAG
1 AGAAACCCATAAG
51346248 GGTTAAACTA
Statistics
Matches: 52, Mismatches: 24, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
AGAAACCCATAAGAGTTGAAC
Found at i:51346256 original size:42 final size:42
Alignment explanation
Indices: 51346151--51346256 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
51346141 AGTGCTAAAT
* * * ** *
51346151 AGAAACCCATAAGGGTTGAACGGAAGTTCGTAAGAGTTGAAC
1 AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
51346193 AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
1 AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
*
51346235 GGAAACCCATAAGGGTTAAACT
1 AGAAACCCATAAGGGTTAAACT
51346257 AAAACTCATG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (42 bp):
AGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
Found at i:51346902 original size:18 final size:18
Alignment explanation
Indices: 51346864--51346904 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
51346854 TAATATGAAA
* **
51346864 TTCTTTTGCTTACACTTT
1 TTCTTTCGCTTACACGGT
51346882 TTCTTTCGCTTACACGGT
1 TTCTTTCGCTTACACGGT
51346900 TTCTT
1 TTCTT
51346905 CTATGTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.24, G:0.10, T:0.56
Consensus pattern (18 bp):
TTCTTTCGCTTACACGGT
Found at i:51350410 original size:23 final size:22
Alignment explanation
Indices: 51350365--51350411 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
51350355 GTAAATACCC
*
51350365 AAAAAAAAATAGTTGTTTCTTT
1 AAAAAAAAATAATTGTTTCTTT
* *
51350387 AAAAAAGAAATAATTTTTTTTTT
1 AAAAAA-AAATAATTGTTTCTTT
51350410 AA
1 AA
51350412 TTTTACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
AAAAAAAAATAATTGTTTCTTT
Found at i:51356136 original size:13 final size:15
Alignment explanation
Indices: 51356118--51356149 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51356108 TATATGAAAT
51356118 AATGATT-TT-ATGA
1 AATGATTATTGATGA
51356131 AATGATTATTGATGA
1 AATGATTATTGATGA
51356146 AATG
1 AATG
51356150 CATGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:51362542 original size:102 final size:103
Alignment explanation
Indices: 51362412--51362618 Score: 407
Period size: 102 Copynumber: 2.0 Consensus size: 103
51362402 AATTACATTA
51362412 AATTTTAATATAATTACAAGCATAATGTAGTTCTCAATTAATGATAAAATGTTTATATTTTCTTT
1 AATTTTAATATAATTACAAGCATAATGTAGTTCTCAATTAATGATAAAATGTTTATATTTTCTTT
51362477 TTTTAAGTTAGAAGCACAGTCACATTATAACCACAAAG
66 TTTTAAGTTAGAAGCACAGTCACATTATAACCACAAAG
51362515 AATTTTAATA-AATTACAAGCATAATGTAGTTCTCAATTAATGATAAAATGTTTATATTTTCTTT
1 AATTTTAATATAATTACAAGCATAATGTAGTTCTCAATTAATGATAAAATGTTTATATTTTCTTT
51362579 TTTTAAGTTAGAAGCACAGTCACATTATAACCACAAAG
66 TTTTAAGTTAGAAGCACAGTCACATTATAACCACAAAG
51362617 AA
1 AA
51362619 CAAATACGAA
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 94 0.90
103 10 0.10
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (103 bp):
AATTTTAATATAATTACAAGCATAATGTAGTTCTCAATTAATGATAAAATGTTTATATTTTCTTT
TTTTAAGTTAGAAGCACAGTCACATTATAACCACAAAG
Found at i:51367233 original size:28 final size:29
Alignment explanation
Indices: 51367173--51367248 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
51367163 ACATTATATT
* * **
51367173 TTAAAAGTTTAATTTATTTCTAATTTTTTA
1 TTAAAA-TTTAATTAATTGCTAATTTTGAA
51367203 TTAAAATTTAATTAATTGC-AATTTTGAA
1 TTAAAATTTAATTAATTGCTAATTTTGAA
51367231 TTAAAAATTTAATTAATT
1 TT-AAAATTTAATTAATT
51367249 TTTTATCACT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 9 0.22
29 26 0.63
30 6 0.15
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (29 bp):
TTAAAATTTAATTAATTGCTAATTTTGAA
Found at i:51367516 original size:28 final size:28
Alignment explanation
Indices: 51367461--51367515 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
51367451 TATAACTTTT
51367461 TTTTATTTACCAAAATATTATAAAAAAA
1 TTTTATTTACCAAAATATTATAAAAAAA
51367489 TTTTATTTACCAAAATA-TATAAAAAAA
1 TTTTATTTACCAAAATATTATAAAAAAA
51367516 ACAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (28 bp):
TTTTATTTACCAAAATATTATAAAAAAA
Found at i:51368771 original size:27 final size:28
Alignment explanation
Indices: 51368720--51368790 Score: 119
Period size: 27 Copynumber: 2.6 Consensus size: 28
51368710 TTTTCTATTT
51368720 TTTTAT-ATATTTTGGTAAATAAAAAAA
1 TTTTATAATATTTTGGTAAATAAAAAAA
51368747 TTTTATAATATTTTGGTAAATAAAAAAA
1 TTTTATAATATTTTGGTAAATAAAAAAA
*
51368775 -GTTATAATATTTTGGT
1 TTTTATAATATTTTGGT
51368791 TATTTTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 21 0.50
28 21 0.50
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (28 bp):
TTTTATAATATTTTGGTAAATAAAAAAA
Found at i:51370552 original size:17 final size:18
Alignment explanation
Indices: 51370530--51370570 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
51370520 ATGTATAAGT
51370530 ATGTATAT-TAATTA-AAA
1 ATGTATATGT-ATTATAAA
*
51370547 ATGTATGTGTATTATAAA
1 ATGTATATGTATTATAAA
51370565 ATGTAT
1 ATGTAT
51370571 GCATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATGTATATGTATTATAAA
Found at i:51370552 original size:21 final size:18
Alignment explanation
Indices: 51370528--51370571 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
51370518 ACATGTATAA
51370528 GTATGTATATTAATTAAAAAT
1 GTATGTATATT-A-T-AAAAT
*
51370549 GTATGTGTATTATAAAAT
1 GTATGTATATTATAAAAT
51370567 GTATG
1 GTATG
51370572 CATGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 1 0.05
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
GTATGTATATTATAAAAT
Found at i:51372239 original size:2 final size:2
Alignment explanation
Indices: 51372232--51372276 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
51372222 AACACTATTA
* * *
51372232 AT AT AT AT AT TT AT AT AT AT AT AT TT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51372274 AT A
1 AT A
51372277 AGAGATACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:51372276 original size:14 final size:14
Alignment explanation
Indices: 51372232--51372269 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
51372222 AACACTATTA
51372232 ATATATATATTTAT
1 ATATATATATTTAT
51372246 ATATATATATTTAT
1 ATATATATATTTAT
51372260 ATATATATAT
1 ATATATATAT
51372270 AAATATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATATATTTAT
Found at i:51372948 original size:6 final size:6
Alignment explanation
Indices: 51372932--51372972 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
51372922 ATTTTTAATA
* * *
51372932 ATATAT TTATAT ATATAT ATTTAT ATATAT ATATAA ATATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATA
51372973 AGAGATCCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATAT
Found at i:51372949 original size:14 final size:14
Alignment explanation
Indices: 51372932--51372965 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
51372922 ATTTTTAATA
51372932 ATATATTTATATAT
1 ATATATTTATATAT
51372946 ATATATTTATATAT
1 ATATATTTATATAT
51372960 ATATAT
1 ATATAT
51372966 AAATATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTATATAT
Found at i:51393296 original size:87 final size:90
Alignment explanation
Indices: 51393178--51393339 Score: 231
Period size: 88 Copynumber: 1.8 Consensus size: 90
51393168 AAAATTTTGA
* *
51393178 AAAAATAAATTTATAAGCATAATACAGAACTTCAAA-CAATGCATTTGACCATAGAGACATAGGG
1 AAAAATAAATTTATAAGCATAATACACAACTTCAAACCAATGCATTTGACCATAGAGACAAAGGG
51393242 GTTAGAATTTTTGAAAATTAAAAAT
66 GTTAGAATTTTTGAAAATTAAAAAT
* * * * *
51393267 AAAAA-AAA-TTATTAGCATGATAGACAACTTCAAACCAATGCCTTTGACCATGGAGACAAAGGG
1 AAAAATAAATTTATAAGCATAATACACAACTTCAAACCAATGCATTTGACCATAGAGACAAAGGG
*
51393330 GTTTGAATTT
66 GTTAGAATTT
51393340 AGGGTTGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
87 22 0.34
88 37 0.58
89 5 0.08
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (90 bp):
AAAAATAAATTTATAAGCATAATACACAACTTCAAACCAATGCATTTGACCATAGAGACAAAGGG
GTTAGAATTTTTGAAAATTAAAAAT
Found at i:51396156 original size:11 final size:11
Alignment explanation
Indices: 51396140--51396173 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
51396130 ATTAATCCTT
51396140 TCTCAATTTCC
1 TCTCAATTTCC
* *
51396151 TCTCAAATTGC
1 TCTCAATTTCC
51396162 TCTCAATTTCC
1 TCTCAATTTCC
51396173 T
1 T
51396174 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:51396165 original size:22 final size:22
Alignment explanation
Indices: 51396140--51396189 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
51396130 ATTAATCCTT
51396140 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
51396162 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
51396184 TCTCAA
1 TCTCAA
51396190 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:51396213 original size:51 final size:51
Alignment explanation
Indices: 51396151--51396250 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
51396141 CTCAATTTCC
*
51396151 TCTCAAATTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAACTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
51396202 TCTCAATTTGCTCTCAACTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAACTTCCTCTCAAATTTCTCTCAAATCCATATTT
51396251 TTAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAACTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:51398613 original size:12 final size:12
Alignment explanation
Indices: 51398579--51398613 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
51398569 TTTAATTGAC
*
51398579 AAACCCTAACAA
1 AAACCCTAACCA
51398591 AAACCCTAACCA
1 AAACCCTAACCA
*
51398603 TAACCCTAACC
1 AAACCCTAACC
51398614 CTTACTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.11
Consensus pattern (12 bp):
AAACCCTAACCA
Found at i:51398646 original size:21 final size:20
Alignment explanation
Indices: 51398607--51398646 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
51398597 TAACCATAAC
*
51398607 CCTAACCCTTACTTTAAAAT
1 CCTAACCCTTACTTAAAAAT
51398627 CCTAACCCTTAACTTAAAAA
1 CCTAACCCTT-ACTTAAAAA
51398647 CACGAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (20 bp):
CCTAACCCTTACTTAAAAAT
Found at i:51398693 original size:27 final size:30
Alignment explanation
Indices: 51398662--51398729 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
51398652 AAACCCTAAC
51398662 AAAACCCTAA-C-C-CTAACCCTTAACTTA
1 AAAACCCTAATCACTCTAACCCTTAACTTA
51398689 AAAACCCTAATCATAACTCTAACCCTTAACTTA
1 AAAACCCTAATC---ACTCTAACCCTTAACTTA
51398722 AAAACCCT
1 AAAACCCT
51398730 TAACTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 10 0.29
28 1 0.03
32 1 0.03
33 23 0.66
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.24
Consensus pattern (30 bp):
AAAACCCTAATCACTCTAACCCTTAACTTA
Found at i:51398696 original size:15 final size:15
Alignment explanation
Indices: 51398676--51398741 Score: 71
Period size: 15 Copynumber: 4.2 Consensus size: 15
51398666 CCCTAACCCT
51398676 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
* *
51398691 AACCC-TAATCATAACTCT
1 AACCCTTAA-CTTAA---A
51398709 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51398724 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51398739 AAC
1 AAC
51398742 ACCAAAACCC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.07
15 27 0.64
18 9 0.21
19 3 0.07
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:51398806 original size:32 final size:32
Alignment explanation
Indices: 51398664--51398868 Score: 156
Period size: 32 Copynumber: 6.4 Consensus size: 32
51398654 ACCCTAACAA
*
51398664 AACCCTAACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTAACCATTAACTT-AAAACCCT
* * * *
51398697 AATCATAACTCTAACCCTTAACTTAAAAACCCTT
1 AACCCTAACCCTAACCATTAACTT-AAAACCC-T
* * * *
51398731 AA-CTTAAAAACACCAAAACC-CTAAC-AAAAACCCT
1 AACCCT---AAC-CC-TAACCATTAACTTAAAACCCT
* *
51398765 AGCCCTAACCCTAACCATTAACTTGAAACCCT
1 AACCCTAACCCTAACCATTAACTTAAAACCCT
* *
51398797 AACCATAACCCTAACCCTTAACTTAAAACCCT
1 AACCCTAACCCTAACCATTAACTTAAAACCCT
51398829 AACCCTAACCCTTAA-C-TTAA---AAAACCCT
1 AACCCTAACCC-TAACCATTAACTTAAAACCCT
51398857 AACCCTAACCCT
1 AACCCTAACCCT
51398869 TAACTTAAAA
Statistics
Matches: 143, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 19 0.13
30 4 0.03
31 10 0.07
32 49 0.34
33 34 0.24
34 5 0.03
35 9 0.06
36 3 0.02
37 5 0.03
38 4 0.03
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (32 bp):
AACCCTAACCCTAACCATTAACTTAAAACCCT
Found at i:51398864 original size:6 final size:6
Alignment explanation
Indices: 51398759--51398840 Score: 51
Period size: 6 Copynumber: 13.0 Consensus size: 6
51398749 CCCTAACAAA
* * * *
51398759 AACCCT AGCCCT AACCCT AACCATT AA-CTT GAAACCCT AACCAT AACCCT
1 AACCCT AACCCT AACCCT AACC-CT AACCCT --AACCCT AACCCT AACCCT
*
51398809 AACCCTT AA-CTT AAAACCCT AACCCT AACCCT
1 AACCC-T AACCCT --AACCCT AACCCT AACCCT
51398841 TAACTTAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 3 0.05
6 43 0.72
7 10 0.17
8 4 0.07
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.21
Consensus pattern (6 bp):
AACCCT
Found at i:51398883 original size:15 final size:15
Alignment explanation
Indices: 51398835--51398893 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
51398825 CCCTAACCCT
51398835 AACCCTTAACTTAAAA
1 AACCCTTAACTT-AAA
*
51398851 AACCC-TAACCCT---
1 AACCCTTAA-CTTAAA
51398863 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51398878 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51398893 A
1 A
51398894 CACCAAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
15 19 0.53
16 7 0.19
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:51398929 original size:6 final size:6
Alignment explanation
Indices: 51398920--51398950 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
51398910 AAAACACTAG
51398920 CCCTAA CCCTAA CCCTAA CCCTAA CCCTAA C
1 CCCTAA CCCTAA CCCTAA CCCTAA CCCTAA C
51398951 TGTTAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCTAA
Found at i:51398969 original size:27 final size:27
Alignment explanation
Indices: 51398936--51399238 Score: 152
Period size: 27 Copynumber: 11.2 Consensus size: 27
51398926 CCCTAACCCT
**
51398936 AACCCTAACCCTAACTGTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
**
51398963 AACCCTAACCAAAACCCTTACCTCTAACTTAAA
1 AACCCTAACCCTAA--C---CCT-TAACTTAAA
51398996 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
** *
51399023 AA---T-ACCAAAACCC-TAAC-AAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
51399044 ACCCTAGCCCTAACCCTAACCCTTAACTTAAA
1 A----A-CCCTAACCCTAACCCTTAACTTAAA
*
51399076 AACTCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
* ***
51399103 AACCCTTAA-CTTAA-AAAT-AC-T-AA
1 AACCC-TAACCCTAACCCTTAACTTAAA
* ** * ** ***
51399126 AACCTTAATGCTAA---TAAAAATCCT
1 AACCCTAACCCTAACCCTTAACTTAAA
51399150 AACCCTAACCCT-A-CCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
*
51399175 CCCTAACCATAACCCTAACCCTTAACTTAAA
1 ----AACCCTAACCCTAACCCTTAACTTAAA
51399206 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
51399233 AACCCT
1 AACCCT
51399239 TAACTTAAAA
Statistics
Matches: 209, Mismatches: 37, Indels: 60
0.68 0.12 0.20
Matches are distributed among these distances:
21 4 0.02
22 8 0.04
23 19 0.09
24 11 0.05
25 7 0.03
26 1 0.00
27 87 0.42
28 7 0.03
29 13 0.06
30 9 0.04
31 17 0.08
32 5 0.02
33 21 0.10
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (27 bp):
AACCCTAACCCTAACCCTTAACTTAAA
Found at i:51398971 original size:33 final size:33
Alignment explanation
Indices: 51398930--51399018 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
51398920 CCCTAACCCT
*
51398930 AACCCTAACCCTAACCC-TAACTGTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACT-CTAACTTAAA
** *
51398963 AACCCTAACCAAAACCCTTACCTCTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTCTAACTTAAA
51398996 AACCCTAACCCTAACCCTTAACT
1 AACCCTAACCCTAACCCTTAACT
51399019 TAAAAATACC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 44 0.92
34 4 0.08
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.22
Consensus pattern (33 bp):
AACCCTAACCCTAACCCTTAACTCTAACTTAAA
Found at i:51399108 original size:15 final size:15
Alignment explanation
Indices: 51399088--51399119 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51399078 CTCTAACCCT
51399088 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51399103 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51399118 AA
1 AA
51399120 TACTAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:51399120 original size:95 final size:95
Alignment explanation
Indices: 51399008--51399211 Score: 252
Period size: 103 Copynumber: 2.1 Consensus size: 95
51398998 CCCTAACCCT
*
51399008 AACCCTTAACTTAAAAATACCAAAACC-CTAACAAAAACCCTAGCCCTAACCCTAACCCTTAACT
1 AACCCTTAACTTAAAAATACCAAAACCTCTAACAAAAACCCTAACCCTAACCCT-A-CCTTAACT
51399072 TAAA-AACTC-TAACCCTAACCCTTAACTTAAA
64 TAAACAAC-CATAACCCTAACCCTTAACTTAAA
* * *
51399103 AACCCTTAACTTAAAAATACTAAAACCTTAATGCTAATAAAAATCCTAACCCTAACCCTACCTTA
1 AACCCTTAACTTAAAAATACCAAAACC----T-CTAACAAAAACCCTAACCCTAACCCTACCTTA
51399168 ACTTAAACCCTAACCATAACCCTAACCCTTAACTTAAA
61 ACTTAAA--C-AACCATAACCCTAACCCTTAACTTAAA
51399206 AACCCT
1 AACCCT
51399212 AACCCTAACC
Statistics
Matches: 94, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
95 26 0.28
99 12 0.13
100 1 0.01
101 23 0.24
102 1 0.01
103 31 0.33
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (95 bp):
AACCCTTAACTTAAAAATACCAAAACCTCTAACAAAAACCCTAACCCTAACCCTACCTTAACTTA
AACAACCATAACCCTAACCCTTAACTTAAA
Found at i:51399156 original size:6 final size:6
Alignment explanation
Indices: 51399147--51399223 Score: 52
Period size: 6 Copynumber: 12.5 Consensus size: 6
51399137 TAATAAAAAT
* * *
51399147 CCTAAC CCTAAC CCT-AC CTTAA- CTTAAAC CCTAAC CATAAC CCTAAC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCT-AAC CCTAAC CCTAAC CCTAAC
*
51399194 CCTTAA- CTTAAAAAC CCTAAC CCTAAC CCT
1 CC-TAAC CCT---AAC CCTAAC CCTAAC CCT
51399224 TAACTTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
5 8 0.14
6 40 0.70
7 5 0.09
8 2 0.04
9 2 0.04
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (6 bp):
CCTAAC
Found at i:51399156 original size:68 final size:68
Alignment explanation
Indices: 51399072--51399291 Score: 271
Period size: 68 Copynumber: 3.3 Consensus size: 68
51399062 ACCCTTAACT
51399072 TAAAAA-CTCTAACCCTAACCCTTAACTTAAAAACCCTTAACTTAAAAATACTAAAACCTTAATG
1 TAAAAATC-CTAACCCTAACCCTTAACTTAAAAACCCTTAACTTAAAAATACTAAAACCTTAATG
51399136 CTAA
65 CTAA
* * * ** *
51399140 TAAAAATCCTAACCCTAACCC-TACCTTAACTTAAACCC-TAAC--CATAACCCT-AACCCTTAA
1 TAAAAATCCTAACCCTAACCCTTAACTTAA---AAACCCTTAACTTAAAAATACTAAAACCTTAA
51399200 --CT--
63 TGCTAA
*
51399202 TAAAAACCCTAACCCTAACCCTTAACTTAAAAACCCTTAACTTAAAAATACTAAAACCTTAATGC
1 TAAAAATCCTAACCCTAACCCTTAACTTAAAAACCCTTAACTTAAAAATACTAAAACCTTAATGC
51399267 TAA
66 TAA
51399270 TAAAAATCCTAACCCTAACCCT
1 TAAAAATCCTAACCCTAACCCT
51399292 AATCTGATAT
Statistics
Matches: 125, Mismatches: 14, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
60 6 0.05
61 4 0.03
62 20 0.16
63 12 0.10
64 10 0.08
66 10 0.08
67 12 0.10
68 40 0.32
69 5 0.04
70 6 0.05
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (68 bp):
TAAAAATCCTAACCCTAACCCTTAACTTAAAAACCCTTAACTTAAAAATACTAAAACCTTAATGC
TAA
Found at i:51399194 original size:130 final size:130
Alignment explanation
Indices: 51399042--51399292 Score: 475
Period size: 130 Copynumber: 1.9 Consensus size: 130
51399032 ACCCTAACAA
* * *
51399042 AAACCCTAGCCCTAACCCTAACCCTTAACTTAAAAACTCTAACCCTAACCCTTAACTTAAAAACC
1 AAACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAACC
51399107 CTTAACTTAAAAATACTAAAACCTTAATGCTAATAAAAATCCTAACCCTAACCCTACCTTAACTT
66 CTTAACTTAAAAATACTAAAACCTTAATGCTAATAAAAATCCTAACCCTAACCCTACCTTAACTT
51399172 AAACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAACC
1 AAACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAACC
51399237 CTTAACTTAAAAATACTAAAACCTTAATGCTAATAAAAATCCTAACCCTAACCCTA
66 CTTAACTTAAAAATACTAAAACCTTAATGCTAATAAAAATCCTAACCCTAACCCTA
51399293 ATCTGATATA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 118 1.00
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.24
Consensus pattern (130 bp):
AAACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAACC
CTTAACTTAAAAATACTAAAACCTTAATGCTAATAAAAATCCTAACCCTAACCCTACCTTAACTT
Found at i:51399211 original size:15 final size:15
Alignment explanation
Indices: 51399191--51399249 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
51399181 CCATAACCCT
51399191 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
51399206 AACCC-TAACCCT---
1 AACCCTTAA-CTTAAA
51399218 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51399233 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
51399248 AA
1 AA
51399250 TACTAAAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
14 3 0.08
15 24 0.65
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:51401664 original size:22 final size:23
Alignment explanation
Indices: 51401634--51401693 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
51401624 AATTAAATTA
51401634 TATATTTTTATAATATTAAAAG-
1 TATATTTTTATAATATTAAAAGT
* * * *
51401656 TATAATTTTATTATTTTAATAGTT
1 TATATTTTTATAATATTAAAAG-T
51401680 TATATTTTTATAAT
1 TATATTTTTATAAT
51401694 TTTTAAATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 18 0.60
24 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (23 bp):
TATATTTTTATAATATTAAAAGT
Found at i:51404609 original size:15 final size:14
Alignment explanation
Indices: 51404564--51404613 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
51404554 GCAGGTAATG
51404564 TTTTTATCTTTAAAT
1 TTTTTAT-TTTAAAT
* *
51404579 ATTTTTAATTTGAAT
1 -TTTTTATTTTAAAT
51404594 TTTTTATTTTAAAAT
1 TTTTTATTTT-AAAT
51404609 TTTTT
1 TTTTT
51404614 TATTAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.31
15 14 0.48
16 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTTTATTTTAAAT
Found at i:51412232 original size:2 final size:2
Alignment explanation
Indices: 51412225--51412264 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
51412215 AAAAATCTCT
51412225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51412265 CTGAAACCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51424120 original size:30 final size:29
Alignment explanation
Indices: 51424055--51424133 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
51424045 CCTCGATACG
* * *
51424055 ATGTCAACTTGTGTGAGTAATTCCGTTAAA
1 ATGTCAACTTGTGTGAGCAA-TCCCTGAAA
51424085 ATGTCAACTTGTGTGAGCAA-CCCTGAAA
1 ATGTCAACTTGTGTGAGCAATCCCTGAAA
*
51424113 TATTGTCAGCTTGTGTGAGCA
1 -A-TGTCAACTTGTGTGAGCA
51424134 TTACATTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.14
29 1 0.02
30 36 0.84
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (29 bp):
ATGTCAACTTGTGTGAGCAATCCCTGAAA
Found at i:51431516 original size:7 final size:7
Alignment explanation
Indices: 51431504--51431534 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
51431494 ATAATATATA
51431504 GATTTGG
1 GATTTGG
51431511 GATTTGG
1 GATTTGG
*
51431518 GATTTGA
1 GATTTGG
51431525 GATTTGG
1 GATTTGG
51431532 GAT
1 GAT
51431535 GTACTTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
GATTTGG
Found at i:51433900 original size:127 final size:126
Alignment explanation
Indices: 51433693--51433950 Score: 498
Period size: 127 Copynumber: 2.0 Consensus size: 126
51433683 AAGAAAATGT
51433693 CTAGTCAAGGATCAAGACTGCAGGCCTGCATGCAGTTATTCCCCTAAGCTCAAGAAGTTCAAAAC
1 CTAGTCAAGGATCAAGACTGCAGGCCTGCATGCAGTTATTCCCCTAAGCTCAAGAAGTTCAAAAC
51433758 AGATGATACTAGTTTGTTTAATCAGTTTCCAGAAATTCCGAGTTGATTTCAGTTATTCCGC
66 AGATGATACTAGTTTGTTTAATCAGTTTCCAGAAATTCCGAGTTGATTTCAGTTATTCCGC
*
51433819 CTAGTCAAGGATCAAGACTGCAGGGCCTGCATGCAGTTATTGCCCTAAGCTCAAGAAGTTCAAAA
1 CTAGTCAAGGATCAAGACTGCA-GGCCTGCATGCAGTTATTCCCCTAAGCTCAAGAAGTTCAAAA
51433884 CAGATGATACTAGTTTGTTTAATCAGTTTCCAGAAATTCCGAGTTGATTTCAGTTATTCCGC
65 CAGATGATACTAGTTTGTTTAATCAGTTTCCAGAAATTCCGAGTTGATTTCAGTTATTCCGC
51433946 CTAGT
1 CTAGT
51433951 TGAAAGAGTT
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
126 22 0.17
127 108 0.83
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (126 bp):
CTAGTCAAGGATCAAGACTGCAGGCCTGCATGCAGTTATTCCCCTAAGCTCAAGAAGTTCAAAAC
AGATGATACTAGTTTGTTTAATCAGTTTCCAGAAATTCCGAGTTGATTTCAGTTATTCCGC
Found at i:51446674 original size:15 final size:16
Alignment explanation
Indices: 51446650--51446679 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51446640 AATAGAAAAT
51446650 TATAAAATAT-TAAAG
1 TATAAAATATATAAAG
51446665 TATAAAATATATAAA
1 TATAAAATATATAAA
51446680 ANNNNNNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TATAAAATATATAAAG
Found at i:51475608 original size:20 final size:21
Alignment explanation
Indices: 51475583--51475628 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
51475573 ATGTATAATT
51475583 AGGGGCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
51475603 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
51475624 AGGGG
1 AGGGG
51475629 TATTTATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.13, G:0.26, T:0.09
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:51479101 original size:29 final size:28
Alignment explanation
Indices: 51479043--51479128 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 28
51479033 TAATTTAATA
51479043 TGTAATTTGATACAT-AAATTTTAATTTGG
1 TGTAA-TT-ATACATGAAATTTTAATTTGG
*
51479072 TGTAATTATACATGAAATTTTGATTGTGG
1 TGTAATTATACATGAAATTTTAATT-TGG
*
51479101 T-TCAAATGTATACATGAAACTTTAATTT
1 TGT--AAT-TATACATGAAATTTTAATTT
51479129 TGATTTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.12
28 13 0.27
29 9 0.18
30 4 0.08
31 17 0.35
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (28 bp):
TGTAATTATACATGAAATTTTAATTTGG
Found at i:51479400 original size:17 final size:16
Alignment explanation
Indices: 51479378--51479416 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
51479368 TTAAATTAAT
*
51479378 AATTAAGATATACTTA
1 AATTAAAATATACTTA
*
51479394 CAATTAAAATATATTTA
1 -AATTAAAATATACTTA
51479411 AATTAA
1 AATTAA
51479417 CATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTAAAATATACTTA
Found at i:51479647 original size:30 final size:31
Alignment explanation
Indices: 51479613--51479674 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
51479603 AGTCTATATA
51479613 TTTATAACTTTTAAAGGATTAAA-ATAATTT
1 TTTATAACTTTTAAAGGATTAAAGATAATTT
* * * *
51479643 TTTATCATTTTTAAGGGGTTAAAGTATAATTT
1 TTTATAACTTTTAAAGGATTAAAG-ATAATTT
51479675 AATTTTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 19 0.73
32 7 0.27
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTATAACTTTTAAAGGATTAAAGATAATTT
Found at i:51490797 original size:2 final size:2
Alignment explanation
Indices: 51490781--51490821 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
51490771 ACAAAAAAAA
* *
51490781 AG AG TG AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
51490822 TGGTAAATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.49, T:0.05
Consensus pattern (2 bp):
AG
Found at i:51491397 original size:18 final size:18
Alignment explanation
Indices: 51491374--51491418 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
51491364 TCAACCACTC
51491374 TATCTTTATTTTTATCTT
1 TATCTTTATTTTTATCTT
* *
51491392 TATCTTTGTTTTTGTCTT
1 TATCTTTATTTTTATCTT
*
51491410 TGTCTTTAT
1 TATCTTTAT
51491419 CCTTTTGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (18 bp):
TATCTTTATTTTTATCTT
Found at i:51494137 original size:86 final size:85
Alignment explanation
Indices: 51493980--51494139 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
51493970 TCATGCTTCT
* * * * * *
51493980 TTTTTTTTGCACTATTTAGGTATTTAAATTTTCAAAATGTATCAAAAAAATTCTCTAATCTTTTT
1 TTTTTTTTGCACTAATTAGGTACTTAAATTTTCAAAATGCATCAAAAAAATCCTCAAATCTTTTC
*
51494045 AGAAAAAGCTAAGTCCTTAC
66 ACAAAAAGCTAAGTCCTTAC
51494065 TTTTTTTTGCACTCAATT-GGATACTTAAATTTTCAAAATGCAT-AAAAAAGATCCTCAAAAT-T
1 TTTTTTTTGCACT-AATTAGG-TACTTAAATTTTCAAAATGCATCAAAAAA-ATCCTC-AAATCT
51494127 TTTCACAAAAAGC
62 TTTCACAAAAAGC
51494140 AATTAATCCC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 21 0.33
86 40 0.62
87 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (85 bp):
TTTTTTTTGCACTAATTAGGTACTTAAATTTTCAAAATGCATCAAAAAAATCCTCAAATCTTTTC
ACAAAAAGCTAAGTCCTTAC
Found at i:51494260 original size:18 final size:18
Alignment explanation
Indices: 51494210--51494274 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
51494200 AGCTATAAAT
*
51494210 ATTATTAAAATTTAATAAA
1 ATTATTAAAAATTAA-AAA
* *
51494229 A-AATTCAAATATTAAAAA
1 ATTATT-AAAAATTAAAAA
51494247 ATTATTAAAAATTAAAAA
1 ATTATTAAAAATTAAAAA
51494265 TATATATTAA
1 -AT-TATTAA
51494275 CTTGTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 18 0.49
19 13 0.35
20 6 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATTAAAAATTAAAAA
Found at i:51503042 original size:16 final size:16
Alignment explanation
Indices: 51503021--51503052 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51503011 TTAAGAGGTG
*
51503021 ATTAATTAACTAATCA
1 ATTAATTAAATAATCA
51503037 ATTAATTAAATAATCA
1 ATTAATTAAATAATCA
51503053 TGACTAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATTAAATAATCA
Found at i:51505374 original size:22 final size:20
Alignment explanation
Indices: 51505331--51505396 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 20
51505321 TAAAAGAAAT
51505331 AGAAAAAGA-AACAGAGATAGAA
1 AGAAAAAGAGAA-AGA-A-AGAA
51505353 ACGAAAACAGA-AAAGTAAAGAA
1 A-GAAAA-AGAGAAAG-AAAGAA
51505375 AGAAAAAGAGAAAGAAAGAA
1 AGAAAAAGAGAAAGAAAGAA
51505395 AG
1 AG
51505397 GAGAAATTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 11 0.28
21 9 0.22
22 6 0.15
23 8 0.20
24 6 0.15
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.03
Consensus pattern (20 bp):
AGAAAAAGAGAAAGAAAGAA
Found at i:51506314 original size:37 final size:38
Alignment explanation
Indices: 51506241--51506316 Score: 93
Period size: 37 Copynumber: 2.0 Consensus size: 38
51506231 GGGGTCAATT
* *
51506241 ATTTACTTCGGATTAATTCAATGAGGCACTAGGTGTCA
1 ATTTACTTCGGATTAAGTCAATGAGACACTAGGTGTCA
* *
51506279 ATTTACTTCGG-TTTAGTCGATGAGACACT-GAGTGTCA
1 ATTTACTTCGGATTAAGTCAATGAGACACTAG-GTGTCA
51506316 A
1 A
51506317 ATTATTACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 1 0.03
37 21 0.64
38 11 0.33
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (38 bp):
ATTTACTTCGGATTAAGTCAATGAGACACTAGGTGTCA
Found at i:51508560 original size:33 final size:31
Alignment explanation
Indices: 51508523--51508585 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
51508513 ACCAAAATTT
51508523 TATTTTAAAAATTAAAATTAAAATTAAAAAAAG
1 TATTTTAAAAA-T-AAATTAAAATTAAAAAAAG
**
51508556 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATAAATTAAAATTAAAAAAA
51508586 TTAAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 16 0.57
32 1 0.04
33 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (31 bp):
TATTTTAAAAATAAATTAAAATTAAAAAAAG
Found at i:51509516 original size:16 final size:17
Alignment explanation
Indices: 51509492--51509526 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
51509482 GTAAGCATGA
51509492 GAAATTGTGAATTGAAT
1 GAAATTGTGAATTGAAT
*
51509509 GAAA-TGTGAATTGCAT
1 GAAATTGTGAATTGAAT
51509525 GA
1 GA
51509527 GTATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (17 bp):
GAAATTGTGAATTGAAT
Found at i:51528629 original size:21 final size:21
Alignment explanation
Indices: 51528587--51528629 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
51528577 TTCAGTATAC
*
51528587 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
51528608 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
51528629 A
1 A
51528630 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:51530114 original size:3 final size:3
Alignment explanation
Indices: 51530106--51530143 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
51530096 TAATTCCCAC
51530106 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51530144 CTTACCTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51530874 original size:16 final size:18
Alignment explanation
Indices: 51530853--51530889 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
51530843 TTTTTCTTTC
51530853 TTTTAC-TTTATTT-TTA
1 TTTTACGTTTATTTATTA
*
51530869 TTTTACGTTTGTTTATTA
1 TTTTACGTTTATTTATTA
51530887 TTT
1 TTT
51530890 AATTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTACGTTTATTTATTA
Found at i:51530912 original size:16 final size:16
Alignment explanation
Indices: 51530893--51530928 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51530883 ATTATTTAAT
*
51530893 TAATATAATATTATAA
1 TAATATAATATAATAA
*
51530909 TAATGTAATATAATAA
1 TAATATAATATAATAA
51530925 TAAT
1 TAAT
51530929 TTCTTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAATATAATATAATAA
Found at i:51531117 original size:5 final size:5
Alignment explanation
Indices: 51531104--51531144 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
51531094 TTATTTTATC
51531104 TAATAA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA
51531145 AATTTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:51533077 original size:5 final size:5
Alignment explanation
Indices: 51533069--51533099 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
51533059 TACTCTTAAT
51533069 TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
51533100 TTGTCCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:51536200 original size:26 final size:27
Alignment explanation
Indices: 51536171--51536229 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
51536161 GATTAATGTT
*
51536171 AAAATATGTATATTCT-TTTAATAA-TA
1 AAAATATATATATTCTATTT-ATAACTA
* *
51536197 AAAATATATATTTTCTATTTTTAACTA
1 AAAATATATATATTCTATTTATAACTA
51536224 AAAATA
1 AAAATA
51536230 AATTATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (27 bp):
AAAATATATATATTCTATTTATAACTA
Found at i:51536685 original size:3 final size:3
Alignment explanation
Indices: 51536679--51536710 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51536669 TCACTATTAT
51536679 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
51536711 ATCTATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:51537873 original size:129 final size:130
Alignment explanation
Indices: 51537648--51537881 Score: 443
Period size: 129 Copynumber: 1.8 Consensus size: 130
51537638 GTCCTTATAA
51537648 ATTTTAAAATTGTTTAAACAAAGTCTTTTCAAGTTTATCACTATTTTTATCAATTAAATACACTA
1 ATTTTAAAATTGTTTAAACAAAGTCTTTTCAAGTTTATCACTATTTTTATCAATTAAATACACTA
*
51537713 TTAAAATCGAAATAGATAATTTAAAATATAAATAATGTTATAGTAAATTATTTAGTGGTTACAAT
66 TTAAAATCGAAATAGATAATTTAAAAAATAAATAATGTTATAGTAAATTATTTAGTGGTTACAAT
*
51537778 ATTTTTAAA-TGTTTAAACAAAGTCTTTTCAAGTTTATCACTATTTTTATCAATTAAATACACTA
1 ATTTTAAAATTGTTTAAACAAAGTCTTTTCAAGTTTATCACTATTTTTATCAATTAAATACACTA
51537842 TTAAAATCGAAATAGATAATTTAAAAAATAAATAATGTTA
66 TTAAAATCGAAATAGATAATTTAAAAAATAAATAATGTTA
51537882 CAAAACTTAT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
129 94 0.92
130 8 0.08
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (130 bp):
ATTTTAAAATTGTTTAAACAAAGTCTTTTCAAGTTTATCACTATTTTTATCAATTAAATACACTA
TTAAAATCGAAATAGATAATTTAAAAAATAAATAATGTTATAGTAAATTATTTAGTGGTTACAAT
Found at i:51545866 original size:22 final size:23
Alignment explanation
Indices: 51545825--51545867 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51545815 AATTGTACAC
*
51545825 AAAATTTTTAAATTACTTTTTCG
1 AAAAATTTTAAATTACTTTTTCG
*
51545848 AAAAATTTTAATTTA-TTTTT
1 AAAAATTTTAAATTACTTTTT
51545868 ACTATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (23 bp):
AAAAATTTTAAATTACTTTTTCG
Found at i:51553596 original size:20 final size:21
Alignment explanation
Indices: 51553548--51553599 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
51553538 GCCCGGCCCC
*
51553548 ATTTTTAATAAACACAAAAATA
1 ATTTTTAA-AAACAAAAAAATA
*
51553570 ATATTTTAAAAATAAAAAAAT-
1 AT-TTTTAAAAACAAAAAAATA
51553591 ATTTTTAAA
1 ATTTTTAAA
51553600 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 12 0.44
23 6 0.22
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTTTTAAAAACAAAAAAATA
Found at i:51553607 original size:30 final size:31
Alignment explanation
Indices: 51553571--51553628 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
51553561 ACAAAAATAA
*
51553571 TATTTTAAAAATAAAAAA-ATATTTTTAAAG
1 TATTTTAAAAATAAAAAATATATATTTAAAG
51553601 TATTTTAAAAATAAAAAATATATATTTA
1 TATTTTAAAAATAAAAAATATATATTTA
51553629 TTATATTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATAAAAAATATATATTTAAAG
Found at i:51554147 original size:11 final size:11
Alignment explanation
Indices: 51554133--51554162 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
51554123 AAATGATAGC
51554133 AAAACAACAAT
1 AAAACAACAAT
*
51554144 AAAATAACAAT
1 AAAACAACAAT
51554155 AAAACAAC
1 AAAACAAC
51554163 TTATTTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAACAACAAT
Found at i:51555543 original size:2 final size:2
Alignment explanation
Indices: 51555536--51555567 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
51555526 CGAAACTGGT
51555536 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
51555568 ATCGGTACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:51569913 original size:17 final size:18
Alignment explanation
Indices: 51569880--51569913 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51569870 TAAGAAATGG
51569880 GCTTTTACTTGGAAAAGT
1 GCTTTTACTTGGAAAAGT
*
51569898 GCTTTT-CTTTGAAAAG
1 GCTTTTACTTGGAAAAG
51569914 CAATGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
GCTTTTACTTGGAAAAGT
Found at i:51574142 original size:14 final size:15
Alignment explanation
Indices: 51574120--51574196 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 15
51574110 TAATCAAACA
51574120 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
51574134 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
51574149 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
51574169 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
51574183 --ATGAAAATCATTTT
1 CCA-GAAAATCATTTT
51574197 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
12 1 0.02
13 1 0.02
14 24 0.47
15 11 0.22
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:51574161 original size:20 final size:20
Alignment explanation
Indices: 51574136--51574175 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51574126 AATATTTTCC
*
51574136 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
51574156 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
51574176 TCATTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:51575091 original size:16 final size:16
Alignment explanation
Indices: 51575056--51575096 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
51575046 GTTATCAAAC
51575056 TTAAAATTT-TCAGTA
1 TTAAAATTTATCAGTA
* *
51575071 CTAAAATTTATTAGTA
1 TTAAAATTTATCAGTA
51575087 TT-AAATTTAT
1 TTAAAATTTAT
51575097 GTCAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (16 bp):
TTAAAATTTATCAGTA
Found at i:51575413 original size:16 final size:18
Alignment explanation
Indices: 51575388--51575420 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51575378 ACTTATCAAA
51575388 AAAAATTTAAAT-TTTTT
1 AAAAATTTAAATATTTTT
51575405 AAAAA-TTAAATATTTT
1 AAAAATTTAAATATTTT
51575421 CTAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAATTTAAATATTTTT
Found at i:51575970 original size:21 final size:22
Alignment explanation
Indices: 51575944--51575997 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
51575934 AAAATATGAC
*
51575944 AATGTTTAAAAATTTTAT-TAA
1 AATGTTTAAAAATTTTATACAA
*
51575965 AATGTTCT-AAATTTTTATACAA
1 AATGTT-TAAAAATTTTATACAA
51575987 AAT-TTTAAAAA
1 AATGTTTAAAAA
51575998 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
AATGTTTAAAAATTTTATACAA
Found at i:51576117 original size:22 final size:21
Alignment explanation
Indices: 51576079--51576131 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
51576069 TATTTTAATT
* * *
51576079 TTTTATAAATAATATTAATGA
1 TTTTAAAAATAAAATTAATAA
51576100 TTTTAAAAATAAAAATTAATAA
1 TTTTAAAAAT-AAAATTAATAA
51576122 TATTTAAAAA
1 T-TTTAAAAA
51576132 CATTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
23 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAAAATAAAATTAATAA
Found at i:51591349 original size:88 final size:89
Alignment explanation
Indices: 51591176--51591349 Score: 217
Period size: 90 Copynumber: 2.0 Consensus size: 89
51591166 CCAGCTCTTT
* * * * * *
51591176 TTTTTTTTGCACTTATTTGGGTACTTGAACTTTCAAAATGCATAAAAAAAATACCCTCAAACCCT
1 TTTTTTTTGCACTCAATTGGATAATTGAACTTTCAAAATGCAT-AAAAAAAGACACTCAAACCCT
* *
51591241 TTTGAAAAAAGCAATTAAGCCTCTC
65 TTTAAAAAAAGCAACTAAGCCTCTC
* * *
51591266 TTTTTTTTGCACTCAATTGGATAATTGAACTTTCAAAATGCAT-CAAAAAGACATTCAAA-CTTT
1 TTTTTTTTGCACTCAATTGGATAATTGAACTTTCAAAATGCATAAAAAAAGACACTCAAACCCTT
51591329 TTCAAAAAAAGCAACTAAGCC
66 TT-AAAAAAAGCAACTAAGCC
51591350 CATGCTTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
87 5 0.07
88 28 0.39
90 39 0.54
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (89 bp):
TTTTTTTTGCACTCAATTGGATAATTGAACTTTCAAAATGCATAAAAAAAGACACTCAAACCCTT
TTAAAAAAAGCAACTAAGCCTCTC
Found at i:51591494 original size:20 final size:20
Alignment explanation
Indices: 51591471--51591536 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 20
51591461 TTAGGAAAAA
51591471 ATATAAAAATCGTAAAATAT
1 ATATAAAAATCGTAAAATAT
* *
51591491 ATAT-GAAATTGTAAAAT-T
1 ATATAAAAATCGTAAAATAT
* *
51591509 TTATAAAAATCGTAAAAAAT
1 ATATAAAAATCGTAAAATAT
51591529 ATATAAAA
1 ATATAAAA
51591537 TATATGGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 4 0.11
19 21 0.57
20 12 0.32
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
ATATAAAAATCGTAAAATAT
Found at i:51591500 original size:38 final size:39
Alignment explanation
Indices: 51591457--51591546 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 39
51591447 AAATTTATTA
*
51591457 AAAATTAGGAAAA-AATATAAAAATCGTAAAATATATAT
1 AAAATTAGGAAAATAATATAAAAATCGTAAAAAATATAT
* * **
51591495 GAAATT-GTAAAATTTTATAAAAATCGTAAAAAATATAT
1 AAAATTAGGAAAATAATATAAAAATCGTAAAAAATATAT
51591533 AAAATATATGGAAA
1 AAAAT-TA-GGAAA
51591547 TGTAAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
37 5 0.12
38 31 0.76
39 1 0.02
41 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (39 bp):
AAAATTAGGAAAATAATATAAAAATCGTAAAAAATATAT
Found at i:51591587 original size:29 final size:28
Alignment explanation
Indices: 51591496--51591589 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 28
51591486 AATATATATG
* *
51591496 AAATTGTAAAATTTTATAAAAATCGTAAA
1 AAATTATAAAATTTTAT-GAAATCGTAAA
*
51591525 AAATATATAAAA-TATATGGAAAT-GTAAA
1 AAAT-TATAAAATTTTAT-GAAATCGTAAA
51591553 AAATTATAAAATTTTAT-AAAGTCGTAAGA
1 AAATTATAAAATTTTATGAAA-TCGTAA-A
51591582 AAATTATA
1 AAATTATA
51591590 CAAAATCTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.05
27 8 0.15
28 17 0.31
29 21 0.38
30 6 0.11
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (28 bp):
AAATTATAAAATTTTATGAAATCGTAAA
Found at i:51591630 original size:20 final size:20
Alignment explanation
Indices: 51591560--51591633 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
51591550 AAAAAATTAT
* * *
51591560 AAAATTTTATAAAGTCGTAAG
1 AAAATTATA-AAAATCGTAAA
51591581 AAAATTATACAAAATC-TAAA
1 AAAATTATA-AAAATCGTAAA
* **
51591601 GAAA-TATAAATTTCGTAAA
1 AAAATTATAAAAATCGTAAA
51591620 AAAATTATAAAAAT
1 AAAATTATAAAAAT
51591634 TATTGTACCA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 4 0.10
19 11 0.27
20 13 0.32
21 13 0.32
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAAATCGTAAA
Found at i:51595069 original size:3 final size:3
Alignment explanation
Indices: 51595061--51595097 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
51595051 NNNNNNNNNN
*
51595061 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51595098 AAAGGTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:51596777 original size:10 final size:9
Alignment explanation
Indices: 51596756--51596793 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
51596746 TTTGAATAAA
51596756 TTTAATTTT
1 TTTAATTTT
51596765 TTTAATTTCT
1 TTTAATTT-T
51596775 TTTAAATTTT
1 TTT-AATTTT
51596785 TTT-ATTTT
1 TTTAATTTT
51596793 T
1 T
51596794 GCCGATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.22
9 8 0.30
10 8 0.30
11 5 0.19
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTAATTTT
Found at i:51598343 original size:2 final size:2
Alignment explanation
Indices: 51598336--51598363 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51598326 ACATGAAAAC
51598336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51598364 TATGTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51599664 original size:635 final size:635
Alignment explanation
Indices: 51598675--51599944 Score: 2425
Period size: 635 Copynumber: 2.0 Consensus size: 635
51598665 AATTGAAATG
51598675 CGCTGCAAACAGGAGGGGCCAATTGCGCAAATAGCCCATATGACGTCAGGGCGCGCGGATCCTCC
1 CGCTGCAAACAGGAGGGGCCAATTGCGCAAATAGCCCATATGACGTCAGGGCGCGCGGATCCTCC
*
51598740 CCTCCGGGTCGGGTCACCGCGCGGGTCAGGGCCTGGAAAACGACACCGTTTTGTCTCATTACTTA
66 CCTCCGGGTCGGGTCACCGCGCAGGTCAGGGCCTGGAAAACGACACCGTTTTGTCTCATTACTTA
*
51598805 AAACATATTTTTTTCTCTAAAAATCATTTTCATCAGATTGAAAAGAAAAAAAAATAAAAAAGGCT
131 AAACATATTTTTTTCTCTAAAAATCATTTTCATCAGATTGAAAAGAAAAAAAAAAAAAAAAGGCT
51598870 CCTTTTGCTCTGCTAGGGTTTTGTCCCTAGCATCATCGCACCACCGTTCAGGCGGTTTGGTTAGC
196 CCTTTTGCTCTGCTAGGGTTTTGTCCCTAGCATCATCGCACCACCGTTCAGGCGGTTTGGTTAGC
* *
51598935 CCGAATTTAGGCACCGATTTTGACGTTCGGCCAAGCCCCGATTTGAGCGAAGCCACCGTGACTTC
261 CCGAATTCAGGCACCGATTTCGACGTTCGGCCAAGCCCCGATTTGAGCGAAGCCACCGTGACTTC
51599000 GACGGAGAGTCCTCAAAGGTACTACCCCCTTTTTTGATTTTTGTTTATGAAATAAAAATAAAAAA
326 GACGGAGAGTCCTCAAAGGTACTACCCCCTTTTTTGATTTTTGTTTATGAAATAAAAATAAAAAA
51599065 AACAACCAAAAGAGTAGAAAATCTGTAAG-AAAAAAAACCAATTCACCTTCAAAAACTTTGTACT
391 AACAACCAAAAGAGTAGAAAATCTGTAAGAAAAAAAAACCAATTCACCTTCAAAAACTTTGTACT
51599129 TTCTTATATTTCCTTTCTATTTTTTGGTATCTATTTTTCCCCGTCCCCCTGTTACAGATTATAGA
456 TTCTTATATTTCCTTTCTATTTTTTGGTATCTATTTTTCCCCGTCCCCCTGTTACAGATTATAGA
51599194 AGACCCTTTTATAGGCCGAAAAAAGAAAAAAATACAATTATTTCACTTGTTTTTTTCTCTTCGGA
521 AGACCCTTTTATAGGCCGAAAAAAGAAAAAAATACAATTATTTCACTTGTTTTTTTCTCTTCGGA
51599259 CTCTTTGAGTCCGCATTCGCAGGTGAACGTGGAGCAAACGGCGCGCCTGA
586 CTCTTTGAGTCCGCATTCGCAGGTGAACGTGGAGCAAACGGCGCGCCTGA
51599309 CGCTGCAAACAGGAGGGGCCAATTGCGCAAATAGCCCATATGACGTCAGGGCGCGCGGATCCTCC
1 CGCTGCAAACAGGAGGGGCCAATTGCGCAAATAGCCCATATGACGTCAGGGCGCGCGGATCCTCC
* *
51599374 CCTCCGGGTCGGGTCACCGCGCAGGTCAGGGCCTGGAAAACGGCGCCGTTTTGTCTCATTACTTA
66 CCTCCGGGTCGGGTCACCGCGCAGGTCAGGGCCTGGAAAACGACACCGTTTTGTCTCATTACTTA
51599439 AAACATATTTTTTTCTCTAAAAATCATTTTCATCAGATTGAAAAGAAAAAAAATAAAAAAAAGGC
131 AAACATATTTTTTTCTCTAAAAATCATTTTCATCAGATTGAAAAGAAAAAAAA-AAAAAAAAGGC
51599504 TCCTTTTGCTCTGCTAGGGTTTTGTCCCTAGCATCATCGCACCACCGTTCAGGCGGTTTGGTTAG
195 TCCTTTTGCTCTGCTAGGGTTTTGTCCCTAGCATCATCGCACCACCGTTCAGGCGGTTTGGTTAG
* *
51599569 CCCGAATTCAGGCACCGATTTCGACGTTCGGCCAAGCCCCGATTTGAGCGAAGTCGCCGTGACTT
260 CCCGAATTCAGGCACCGATTTCGACGTTCGGCCAAGCCCCGATTTGAGCGAAGCCACCGTGACTT
51599634 CGACGGAGAGTCCTCAAAGGTACTACCCCCTTTTTTGATTTTTGTTTATGAAATAAAAATAAAAA
325 CGACGGAGAGTCCTCAAAGGTACTACCCCCTTTTTTGATTTTTGTTTATGAAATAAAAATAAAAA
51599699 AAACAACCAAAAGAGTAGAAAATCTGTAAGAAAAAAAAAACCAATTCACCTTCAAAAACTTTGTA
390 AAACAACCAAAAGAGTAGAAAATCTGTAAG-AAAAAAAAACCAATTCACCTTCAAAAACTTTGTA
*
51599764 CTTTCTTGTATTTCCTTTCTATTTTTTGGTATCTATTTTTCCCCGTCCCCCTGTTACAGATTATA
454 CTTTCTTATATTTCCTTTCTATTTTTTGGTATCTATTTTTCCCCGTCCCCCTGTTACAGATTATA
*
51599829 GAAGACCCTTTTATAGGCCGAAAAAAGAAAAAAATACAATTATTTCGCTTGTTTTTTTCTCTTCG
519 GAAGACCCTTTTATAGGCCGAAAAAAGAAAAAAATACAATTATTTCACTTGTTTTTTTCTCTTCG
51599894 GACTCTTTGAGTCCGCATTCGCAGGTGAACGTGGAGCAAACGGCGCGCCTG
584 GACTCTTTGAGTCCGCATTCGCAGGTGAACGTGGAGCAAACGGCGCGCCTG
51599945 GGGTGGTCGA
Statistics
Matches: 623, Mismatches: 10, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
634 180 0.29
635 231 0.37
637 212 0.34
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (635 bp):
CGCTGCAAACAGGAGGGGCCAATTGCGCAAATAGCCCATATGACGTCAGGGCGCGCGGATCCTCC
CCTCCGGGTCGGGTCACCGCGCAGGTCAGGGCCTGGAAAACGACACCGTTTTGTCTCATTACTTA
AAACATATTTTTTTCTCTAAAAATCATTTTCATCAGATTGAAAAGAAAAAAAAAAAAAAAAGGCT
CCTTTTGCTCTGCTAGGGTTTTGTCCCTAGCATCATCGCACCACCGTTCAGGCGGTTTGGTTAGC
CCGAATTCAGGCACCGATTTCGACGTTCGGCCAAGCCCCGATTTGAGCGAAGCCACCGTGACTTC
GACGGAGAGTCCTCAAAGGTACTACCCCCTTTTTTGATTTTTGTTTATGAAATAAAAATAAAAAA
AACAACCAAAAGAGTAGAAAATCTGTAAGAAAAAAAAACCAATTCACCTTCAAAAACTTTGTACT
TTCTTATATTTCCTTTCTATTTTTTGGTATCTATTTTTCCCCGTCCCCCTGTTACAGATTATAGA
AGACCCTTTTATAGGCCGAAAAAAGAAAAAAATACAATTATTTCACTTGTTTTTTTCTCTTCGGA
CTCTTTGAGTCCGCATTCGCAGGTGAACGTGGAGCAAACGGCGCGCCTGA
Found at i:51601387 original size:44 final size:44
Alignment explanation
Indices: 51601328--51601436 Score: 155
Period size: 47 Copynumber: 2.4 Consensus size: 44
51601318 ACCAGTATGG
* *
51601328 GAAGAGAAAATCTGCTTTCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACAT
* *
51601372 GAAGACAAGATCTGCTTTTTTTTTTGATCTACTTCACGCCAATATAT
1 GAAGACAAGATCTGC---TTTCTTTGATCTACTTCACGCCAATACAT
51601419 GAAGACAAGATCTGCTTT
1 GAAGACAAGATCTGCTTT
51601437 TTCCGATCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
44 16 0.28
47 42 0.72
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACAT
Found at i:51601407 original size:47 final size:47
Alignment explanation
Indices: 51601347--51601438 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
51601337 ATCTGCTTTC
51601347 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTTT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTTT
*
51601394 TTTGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTTTTT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTT
51601439 CCGATCAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (47 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTTT
Found at i:51601741 original size:45 final size:44
Alignment explanation
Indices: 51601688--51601844 Score: 131
Period size: 45 Copynumber: 3.5 Consensus size: 44
51601678 GTACATGAAA
51601688 ACAAGATCTGCTTTCCTTGATCTGCTTCGCCACTAGTATGGGAAG
1 ACAAGATCTGCTTT-CTTGATCTGCTTCGCCACTAGTATGGGAAG
* * * * * * *
51601733 GCAAGATCTGGTATCTCTGATCTACTCCACGCCAATA-CAT--GAAG
1 ACAAGATCTGCTTTCT-TGATCTGCT--TCGCCACTAGTATGGGAAG
* * * *
51601777 ACAAGATCTGTTTTTTTTTATCTGCTTCGCCACCAGTATGGGAAG
1 ACAAGATCTG-CTTTCTTGATCTGCTTCGCCACTAGTATGGGAAG
*
51601822 ACAAGATCTACTTTCTTCGATCT
1 ACAAGATCTGCTTTCTT-GATCT
51601845 ACTCCACCAC
Statistics
Matches: 83, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
42 6 0.07
43 2 0.02
44 27 0.33
45 39 0.47
46 2 0.02
47 7 0.08
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (44 bp):
ACAAGATCTGCTTTCTTGATCTGCTTCGCCACTAGTATGGGAAG
Done.