Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold798
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: 93289
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
File 1 of 2
Found at i:123 original size:51 final size:51
Alignment explanation
Indices: 15--184 Score: 202
Period size: 51 Copynumber: 3.3 Consensus size: 51
5 AGGATACAAC
* * * *
15 GGGGCTAGAGTATCCCCGATTATGGAAAAA-CGGTGTTCTAAAAAATAAAA-T
1 GGGGTTAGAGTATCCCCGATTAT-GAAAAATTGGTGTT-TTAGAAATAAAACT
* **
66 CAGGGTTAGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACT
1 -GGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
* *
118 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAATC-
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
*
168 GGGGTTGGAGTATCCCC
1 GGGGTTAGAGTATCCCC
185 TCGGAAATCG
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 17 0.16
51 61 0.59
52 26 0.25
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (51 bp):
GGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
Found at i:524 original size:77 final size:79
Alignment explanation
Indices: 118--689 Score: 825
Period size: 78 Copynumber: 7.4 Consensus size: 79
108 AAATAAAACT
* *
118 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAAT-AAATCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
182 CCCTCGGAAAT--C
66 CCCTCAGAAATAAC
* * * *
194 GGGGTTGGAGTATCTCCGATTGTGAAAAATTAATATTTTAGAAATAAAACC-GGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
258 CCCTCAAAAATAAC
66 CCCTCAGAAATAAC
* * *
272 GGGGTTGGAGTATCCCCGATTATGAAAAAATGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
337 CCCTC-GAAAATAAC
66 CCCTCAG-AAATAAC
* * * *
351 GGGGTTGGAGTATCTCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
416 CCCTCA-AAATAAC
66 CCCTCAGAAATAAC
*
429 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGAT-AAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
493 CCCTCAGAAATAAC
66 CCCTCAGAAATAAC
* *
507 AGGGTTGGAGT-TCCCCGATTATG-AAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
570 CCCTCAGAAATAAA
66 CCCTCAGAAATAAC
*
584 GGGGTTAGAGTATCCCCGATTATGAAAAATT-AGTGTTTTAGAAA-AAAA-CGGGGTTGGAG--T
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACCGGGGTTGGAGTAT
644 CCCCTCAGAAATAAC
65 CCCCTCAGAAATAAC
*
659 --GGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA
690 GAAACTTAAC
Statistics
Matches: 446, Mismatches: 38, Indels: 26
0.87 0.07 0.05
Matches are distributed among these distances:
73 27 0.06
74 1 0.00
75 15 0.03
76 80 0.18
77 93 0.21
78 125 0.28
79 105 0.24
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCAGAAATAAC
Found at i:566 original size:233 final size:234
Alignment explanation
Indices: 118--689 Score: 860
Period size: 233 Copynumber: 2.5 Consensus size: 234
108 AAATAAAACT
* *
118 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAATCGGGGTTGGAGTATCC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACGGGGTTGGAGTATCC
* * *
183 CCTCGGAAAT--CGGGGTTGGAGTATCTCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCG
66 CCTC-AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCG
*
246 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAAATGGTGTTTT
130 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAAATGGTGTTTT
* *
311 AGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAAC
195 AGAAATAAAACCGGGGTTGGAGTATCCCCTCAG-AAATAAA
* * * *
351 GGGGTTGGAGTATCTCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAA-CGGGGTTGGAGTATC
* * *
416 CCCTCAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGAT-AAACCG
65 CCCTCAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACC-
* *
480 GGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGT-TCCCCGATTATG-AAAATTGGTGTTT
129 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAAATGGTGTTT
543 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAAA
194 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAAA
*
584 GGGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAA-AAAACGGGGTTGGAG--TCC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACGGGGTTGGAGTATCC
646 CCTCAGAAATAAC--GGTTGGAGTATCCCCGATTGTGAAAAATTGA
66 CCTCA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
690 GAAACTTAAC
Statistics
Matches: 310, Mismatches: 23, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
228 30 0.10
229 8 0.03
230 7 0.02
231 11 0.04
232 4 0.01
233 135 0.44
234 38 0.12
235 77 0.25
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (234 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACGGGGTTGGAGTATCC
CCTCAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGG
GTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAAATGGTGTTTTA
GAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAAA
Found at i:1943 original size:35 final size:35
Alignment explanation
Indices: 1880--2167 Score: 478
Period size: 35 Copynumber: 8.3 Consensus size: 35
1870 TCATTTTATG
*
1880 CATCATTCCACGCCTTC-TTTTT-TATTCCATG-C
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
* *
1912 CATCATTCTATGCCTTCATTTTTTTTATTCCATGCC
1 CATCATTCCATGCCTTCA-TTTTTATATTCCATGCC
*
1948 CAT-TTTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
1982 CATCATTCCATGCCTTCATTTTTTTATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
2017 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
2052 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
2087 CATCATTCCATGCCTTCATTTTTTTATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
2122 CATCATTCCATGCCTTCA-TTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
2156 CATCATTCCATG
1 CATCATTCCATG
2168 TTTTTTTATT
Statistics
Matches: 241, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
32 15 0.06
34 51 0.21
35 171 0.71
36 4 0.02
ACGTcount: A:0.18, C:0.31, G:0.06, T:0.44
Consensus pattern (35 bp):
CATCATTCCATGCCTTCATTTTTATATTCCATGCC
Found at i:3278 original size:27 final size:27
Alignment explanation
Indices: 3248--3333 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
3238 GCTTTAAAAG
3248 GAAAAGGCATCCTGCTCTTTGAGGACT
1 GAAAAGGCATCCTGCTCTTTGAGGACT
** * * *
3275 GAAAAGTGCCA-CCAACT-TGTGTGGGCTT
1 GAAAAG-G-CATCCTGCTCTTTGAGGAC-T
* *
3303 TAAAAGGCGTCCTGCTCTTTGAGGACT
1 GAAAAGGCATCCTGCTCTTTGAGGACT
3330 GAAA
1 GAAA
3334 GGTGCCACTA
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
26 1 0.02
27 21 0.51
28 17 0.41
29 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (27 bp):
GAAAAGGCATCCTGCTCTTTGAGGACT
Found at i:3460 original size:113 final size:116
Alignment explanation
Indices: 3019--4363 Score: 2145
Period size: 116 Copynumber: 11.7 Consensus size: 116
3009 AAGAAGTGTG
* *
3019 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTAGAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCT
* * * * * *
3084 GCAT-TTTGAGGACTGGAAGATGCCACCAACTAGTGTGAGATTTGCAAA-GAGAAA-GCA
60 GC-TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA-AAAGGCA
3141 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3206 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
3257 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
3322 TGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTT-AAAGG-AAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
3371 TCCTGCTCTTTG-GGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
**
3435 TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC-
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
3485 -GCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3549 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGG-AAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
3598 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3662 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
3713 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* *
3778 TGAGGATTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
3829 TCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
** *
3894 TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
3945 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
4008 TGAGGACTGAAAGGTGCCA-CAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
4058 TCCTGCTCTTT-AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC-TCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
4121 TG-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
4171 TCCTGCTCTTTG-GGATTGAAAAGTGCCACCAACATGTGTGGGTTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* * ** *
4235 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* **
4286 TCCTG-TCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGATGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
4350 TTGAGGACT-AAAGG
65 TTGAGGACTGAAAGG
4364 GCGAAAGGAG
Statistics
Matches: 1149, Mismatches: 55, Indels: 45
0.92 0.04 0.04
Matches are distributed among these distances:
112 29 0.03
113 332 0.29
114 201 0.17
115 121 0.11
116 421 0.37
122 45 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:3966 original size:27 final size:27
Alignment explanation
Indices: 3936--4019 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
3926 GCTTTAAAAG
3936 GAAAAGGCGTCCTGCTCTTTGAGGACT
1 GAAAAGGCGTCCTGCTCTTTGAGGACT
** ** * *
3963 G-AAAGTGCCACCAACT-TGTGTGG-CTT
1 GAAAAG-GCGTCCTGCTCTTTGAGGAC-T
*
3989 TAAAAGGCGTCCTGCTCTTTGAGGACT
1 GAAAAGGCGTCCTGCTCTTTGAGGACT
4016 GAAA
1 GAAA
4020 GGTGCCACAA
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 1 0.03
26 16 0.42
27 20 0.53
28 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (27 bp):
GAAAAGGCGTCCTGCTCTTTGAGGACT
Found at i:3967 original size:26 final size:26
Alignment explanation
Indices: 3938--4021 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
3928 TTTAAAAGGA
3938 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
** ** * * *
3964 AAAGTGCCACCAACT-TGTGTGG-CTTTA
1 AAAG-GCGTCCTGCTCTTTGAGGAC--TG
3991 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
4017 AAAGG
1 AAAGG
4022 TGCCACAACT
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 1 0.03
26 21 0.54
27 16 0.41
28 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (26 bp):
AAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:4164 original size:572 final size:574
Alignment explanation
Indices: 3019--4696 Score: 2232
Period size: 572 Copynumber: 3.0 Consensus size: 574
3009 AAGAAGTGTG
* *
3019 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTAGAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCT
* * * * * *
3084 GCAT-TTTGAGGACTGGAAGATGCCACCAACTAGTGTGAGATTTGCAAA-GAGAAA-GCATCCTG
60 GC-TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA-AAAGGCATCCTG
3146 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
122 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
3211 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTG
187 ACTGAAAGGTGCCA-CAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTG
3276 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
251 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* * *
3341 CTAACTTGTGTGGGCTTTAAAGGAAAGGCATCCTGCTCTTTG-GGATTGAAAAGTGCCACCAACT
316 CCAACTTGTGTGGGCTTTAAAGGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
* **
3405 TGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCT
381 TGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCT
*
3470 TTAAAAGGAAAAGGCGCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAA
446 TTAAAAGGAAAAGGCCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAA
3535 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGG-AAAGGCA
511 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCA
*
3598 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3662 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
* *
3727 GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGATTGAAAGG
131 GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
*
3792 TGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGATTGAAAAGTGCC
196 TGCCAC-AACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCC
* **
3857 ACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGT
260 ACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGT
3922 GTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGT-G
325 GTGGGCTTT-AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGG
3985 GCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA-CAACTTGTGTGGGCTTTAAAAG
388 GCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
4049 GAAAAGGCATCCTGCTCTTT-AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC-T
453 GAAAAGGC--CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGT
4112 CCTGCTCTTTG-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
516 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGGCA
* * *
4171 TCCTGCTCTTTG-GGATTGAAAAGTGCCACCAACATGTGTGGGTTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* * ** *
4235 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCGTCCTG-TCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
* **
4299 GACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGATGTCCTGCTCTTTGAGGACT-AAAG
131 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
* * * *
4363 G-GCGA-AA--------GG-------AGG--GA-GCATCCTGCTCTTTAAGGACT-AGGAAGTGC
195 GTGCCACAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA-AAAGTGC
* * * *
4407 CACCAACTTGTGTGGGCTTTAAAATGAGTCATGCTCTTTGAAGACTG-AAGGTGCCACCAACTTG
259 CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * *
4471 TGTAGGCTTTGAAAGGCGAAGGCGTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGT
324 TGTGGGCTTT-AAAGG-AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGT
** * *
4536 GGGCTTTAAAAGATGTCCTGCTCTTTGAGGACT-AAAGG-GCGA--AA---G-GAGGG-------
386 GGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
* * * * * *
4586 A-G----CGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGAG
451 AGGAAAAGGCCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCG
*
4645 TCCTGCTCTTTGAAGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
515 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGG
4697 CGTCCTGCTC
Statistics
Matches: 1013, Mismatches: 65, Indels: 87
0.87 0.06 0.07
Matches are distributed among these distances:
532 11 0.01
533 37 0.04
534 45 0.04
535 5 0.00
538 1 0.00
539 1 0.00
546 4 0.00
547 1 0.00
550 55 0.05
551 71 0.07
552 26 0.03
553 30 0.03
554 3 0.00
561 2 0.00
569 2 0.00
571 45 0.04
572 330 0.33
573 248 0.24
574 47 0.05
575 5 0.00
578 25 0.02
579 19 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (574 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
TGCCACAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCA
CCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
TGGGCTTTAAAGGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCT
TTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
AAGGCCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCA
Found at i:4466 original size:54 final size:53
Alignment explanation
Indices: 4380--4573 Score: 192
Period size: 54 Copynumber: 3.4 Consensus size: 53
4370 GGAGGGAGCA
*
4380 TCCTGCTCTTTAAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAATGAG
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAG
* * * *
4435 TCATGCTCTTTGAAGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AA-GAG
* *
4495 TCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGATG
1 TCCTGCTCTTTGAGGACT-G-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA-G
*
4551 TCCTGCTCTTTGAGGACTAAAGG
1 TCCTGCTCTTTGAGGACTGAAGG
4574 GCGAAAGGAG
Statistics
Matches: 114, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
53 3 0.03
54 26 0.23
55 16 0.14
56 22 0.19
60 21 0.18
61 1 0.01
62 25 0.22
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (53 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
Found at i:4529 original size:210 final size:209
Alignment explanation
Indices: 4191--4698 Score: 890
Period size: 210 Copynumber: 2.4 Consensus size: 209
4181 TGGGATTGAA
* * *
4191 AAGTGCCACCAACATGTGTGGGTTTTAAAAGGCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAAGACTG-AAGGTGCCACC
*
4256 AACTTGTGTGGGCTTTGAAAGGTGAAGGCGTCCTGTCTTTGAGGACTAAAAAAGTGCCACCAACT
65 AACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGTCTTTGAGGACTAAAAAAGTGCCACCAACT
4321 TGTGTGGGCTTTAAAAGATGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCATCCTGC
130 TGTGTGGGCTTTAAAAGATGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCATCCTGC
4386 TCTTTAAGGACTAGG
195 TCTTTAAGGACTAGG
* *
4401 AAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGTCATGCTCTTTGAAGACTGAAGGTGCCACCA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAAGACTGAAGGTGCCACCA
* * *
4466 ACTTGTGTAGGCTTTGAAAGGCGAAGGCGTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAACT
66 ACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTG-TCTTTGAGGACTAAAAAAGTGCCACCAACT
*
4531 TGTGTGGGCTTTAAAAGATGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCGTCCTGC
130 TGTGTGGGCTTTAAAAGATGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCATCCTGC
*
4596 TCTTTGAGGACTAGG
195 TCTTTAAGGACTAGG
*
4611 AAGTGCCACCAACTTGTGCGGGCTTTAAAAGGAGTCCTGCTCTTTGAAGACTGAAGGTGCCACCA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAAGACTGAAGGTGCCACCA
4676 ACTTGTGTGGGCTTTGAAAGGCG
66 ACTTGTGTGGGCTTTGAAAGGCG
4699 TCCTGCTCTT
Statistics
Matches: 282, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
209 44 0.16
210 238 0.84
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (209 bp):
AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAAGACTGAAGGTGCCACCA
ACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGTCTTTGAGGACTAAAAAAGTGCCACCAACTT
GTGTGGGCTTTAAAAGATGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCATCCTGCT
CTTTAAGGACTAGG
Found at i:4648 original size:94 final size:95
Alignment explanation
Indices: 4492--4667 Score: 284
Period size: 94 Copynumber: 1.9 Consensus size: 95
4482 AAAGGCGAAG
* *
4492 GCGTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGATGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGCGGGCTTTAAAAGATGTCCTGC
*
4557 TCTTTGAGGACTAAAGGGCGAAAGGAGGGA
66 TCTTTGAAGACTAAAGGGCGAAAGGAGGGA
*
4587 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGA-GTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGCGGGCTTTAAAA-GATGTCCTG
*
4650 CTCTTTGAAGACTGAAGG
65 CTCTTTGAAGACTAAAGG
4668 TGCCACCAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
94 51 0.68
95 24 0.32
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGCGGGCTTTAAAAGATGTCCTGC
TCTTTGAAGACTAAAGGGCGAAAGGAGGGA
Found at i:4680 original size:54 final size:54
Alignment explanation
Indices: 4589--4711 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
4579 AGGAGGGAGC
*
4589 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAAGACTA-GAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGA
* * *
4644 GTCCTGCTCTTTGAAGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAAGACTAGAA-GTGCCACCAACTTGTGCGGGCTTTAAAAGGA
4698 GTCCTGCTCTTTGA
1 GTCCTGCTCTTTGA
4712 GAACTGGAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 3 0.05
54 42 0.67
55 18 0.29
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (54 bp):
GTCCTGCTCTTTGAAGACTAGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGA
Found at i:7434 original size:2 final size:2
Alignment explanation
Indices: 7409--7449 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
7399 CCCCACTCAA
* * *
7409 AT AT AA AT AT AA AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7450 CACACACACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:8015 original size:2 final size:2
Alignment explanation
Indices: 8008--8050 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7998 GGCCTGCTTG
8008 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
8050 A
1 A
8051 AAACAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9561 original size:17 final size:17
Alignment explanation
Indices: 9544--9579 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9534 ATTAATTATT
9544 ATTTTATAATAAAAATTA
1 ATTTT-TAATAAAAATTA
*
9562 ATTTTTAATAAAATTTA
1 ATTTTTAATAAAAATTA
9579 A
1 A
9580 AAAAAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTTAATAAAAATTA
Found at i:9683 original size:19 final size:18
Alignment explanation
Indices: 9659--9696 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9649 TTATTATTTT
9659 TTTAATAAAATTAATTAAA
1 TTTAATAAAATTAA-TAAA
*
9678 TTTAATAAATTTAATAAA
1 TTTAATAAAATTAATAAA
9696 T
1 T
9697 AATATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTAATAAAATTAATAAA
Found at i:9694 original size:61 final size:60
Alignment explanation
Indices: 9629--9757 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 60
9619 TAAAATAAAA
* * *
9629 AATAAAATAAAAAGTGTTTATTATTATTTTTTTAATAAAATT-AATTAA-ATTTAA-TAAATTT
1 AATAAAAT-AAAA-TATTAATTATTA-TTTTTT-ATAAAATTAAAATAATATTTAATTAAATTT
*
9690 AAT-AAATAATATATTAATTATTATTTTTTATAAAATTAAAAATAATATTTAATTAAATTT
1 AATAAAATAAAATATTAATTATTATTTTTTATAAAATT-AAAATAATATTTAATTAAATTT
*
9750 AAAAAAAT
1 AATAAAAT
9758 TAAGCTATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
56 8 0.14
57 6 0.10
58 15 0.26
59 9 0.16
60 13 0.22
61 7 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (60 bp):
AATAAAATAAAATATTAATTATTATTTTTTATAAAATTAAAATAATATTTAATTAAATTT
Found at i:10260 original size:292 final size:293
Alignment explanation
Indices: 9928--10571 Score: 1024
Period size: 297 Copynumber: 2.2 Consensus size: 293
9918 TTACTTTTTA
* * *
9928 GTAACGACTTAAATACGAGTTTTCTTTTATCTATAAAATGACCAAGAAAAAATTTATTATATATG
1 GTAACGACTTAAATACGAGCTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTTATTATACATG
9993 TATTATTTTTATTAAAATTAATTAATATTGTACATG-TATTAC-TTATTTATAAATTATTTTTAA
66 TATTATTTTTATTAAAATTAATTAATATTGTACATGATATTACTTTATTTATAAATTATTTTTAA
*
10056 TTTATCTATAAATTATACAAATTTATTTTTATTAAAATTAAATAATATTGTACATGTATTATTTT
131 TTTATCTATAAATTATACAAATTTATTTTT-TTAAAATTAAATAATATTATACATGTATTATTTT
** *
10121 TATAATTGATAGAACTTAAATTTATGTTAACCAACAATATTTTACTTTTTTCAATAATGACTTAT
195 TATAATTGATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCAATAACGACTTAT
* * *
10186 TTTGGATTTACAGACGTACACATTTTATTTTTCG
260 TTCGGATTTACAGACGCACACATTTCATTTTTCG
*
10220 GTAACGACTTAAATACGAGCTTTCTTTTATCTGTAAAATGATCAAGAAAAAATTTATTATACATG
1 GTAACGACTTAAATACGAGCTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTTATTATACATG
*
10285 TATTATTTTTATTAAAATTGATTAATATTGTACATGAATTATTACTTTTTATTTATAAATTATTT
66 TATTATTTTTATTAAAATTAATTAATATTGTACATG-A-TATTAC--TTTATTTATAAATTATTT
* *
10350 TTAATTTATTTATAAATTATACAAATTTATTTTTTTAAAATTAAGTAATATTATACATGTATTAT
127 TTAATTTATCTATAAATTATACAAATTTATTTTTTTAAAATTAAATAATATTATACATGTATTAT
* * *
10415 TTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTTCGATAACGATT
192 TTTTATAATTGATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCAATAACGACT
* *
10480 TATTTCGGATTTACATATGCACACATTTCATTTTTCG
257 TATTTCGGATTTACAGACGCACACATTTCATTTTTCG
* *
10517 GTAATGACTTAAATACGAGCTTT-TCTTTATCTGTAAAATGACAAAGAAAAAATTT
1 GTAACGACTTAAATACGAGCTTTCT-TTTATCTGTAAAATGACCAAGAAAAAATTT
10572 TCCTCAACTT
Statistics
Matches: 323, Mismatches: 22, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
292 96 0.30
295 6 0.02
296 1 0.00
297 170 0.53
298 50 0.15
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (293 bp):
GTAACGACTTAAATACGAGCTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTTATTATACATG
TATTATTTTTATTAAAATTAATTAATATTGTACATGATATTACTTTATTTATAAATTATTTTTAA
TTTATCTATAAATTATACAAATTTATTTTTTTAAAATTAAATAATATTATACATGTATTATTTTT
ATAATTGATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCAATAACGACTTATT
TCGGATTTACAGACGCACACATTTCATTTTTCG
Found at i:10349 original size:11 final size:11
Alignment explanation
Indices: 10333--10369 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
10323 TTATTACTTT
10333 TTATTTATAAA
1 TTATTTATAAA
* *
10344 TTATTTTTAAT
1 TTATTTATAAA
10355 TTATTTATAAA
1 TTATTTATAAA
10366 TTAT
1 TTAT
10370 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:11668 original size:91 final size:91
Alignment explanation
Indices: 11508--11830 Score: 479
Period size: 91 Copynumber: 3.5 Consensus size: 91
11498 CAAAAAGTTC
* * * * *
11508 TTTTCTATAAAAGAGAATTGATTTTCAGAT-TAATTCATGCATTAGTCTAATCTTTGTAGTCTGA
1 TTTTCTATAAAAAAGAATTGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAA
*
11572 CATTTACAATCAATCAACTTTTCTTT
66 TATTTACAATCAATCAACTTTTCTTT
* * * * *
11598 TTTTC-ATAAAAAAGAATCTGATTCTTAAATATAATTCATGCATTAGTATAATCTTCGCAGTTTT
1 TTTTCTATAAAAAAGAAT-TGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGCAGTCTA
11662 ATATTTACAATCAATCAACTTTTCTTT
65 ATATTTACAATCAATCAACTTTTCTTT
* *
11689 TTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCAGTAGTCTAATCTTTGCAGTCTAA
1 TTTTCTATAAAAAAGAATTGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAA
11754 TATTTACAATCAATCAACTTTTCTTT
66 TATTTACAATCAATCAACTTTTCTTT
* *
11780 TTTTCTATAAAAAAGAATCTGATTCTCAAATATAAATCATGTATTAGTCTA
1 TTTTCTATAAAAAAGAAT-TGATTCTCAAATATAATTCATGCATTAGTCTA
11831 TTTTTTACCA
Statistics
Matches: 208, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
89 11 0.05
90 14 0.07
91 143 0.69
92 40 0.19
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (91 bp):
TTTTCTATAAAAAAGAATTGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAA
TATTTACAATCAATCAACTTTTCTTT
Found at i:12378 original size:67 final size:68
Alignment explanation
Indices: 12298--12427 Score: 169
Period size: 67 Copynumber: 1.9 Consensus size: 68
12288 TTTTTATAAA
* * *
12298 TTAATTAAATTTAAAAATTTTAATAAATAAT-AATGTATTA-ATT-ATTATTTTTAATA-AAAAA
1 TTAATTAAATTTAAAAAATTT-AT-AATAATAAAT-TATAATATTAATTATTTTTAAAATAAAAA
12359 TAATAT
63 TAATAT
*
12365 TTAATTAACTTTAAAAAATTTATAATAATAAATTATAATATTAATTATTTTTAAAATAAAAAT
1 TTAATTAAATTTAAAAAATTTATAATAATAAATTATAATATTAATTATTTTTAAAATAAAAAT
12428 TTAAATAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
65 10 0.18
66 8 0.15
67 31 0.56
68 6 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (68 bp):
TTAATTAAATTTAAAAAATTTATAATAATAAATTATAATATTAATTATTTTTAAAATAAAAATAA
TAT
Found at i:12391 original size:38 final size:39
Alignment explanation
Indices: 12344--12420 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
12334 ATTAATTATT
*
12344 ATTTTTAATAA-AAA-ATAATATTTAATTAACTTTAAAAA
1 ATTTATAATAATAAATATAATA-TTAATTAACTTTAAAAA
**
12382 ATTTATAATAATAAATTATAATATTAATTATTTTTAAAA
1 ATTTATAATAATAAA-TATAATATTAATTAACTTTAAAA
12421 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 10 0.30
39 3 0.09
40 14 0.42
41 6 0.18
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (39 bp):
ATTTATAATAATAAATATAATATTAATTAACTTTAAAAA
Found at i:12962 original size:23 final size:22
Alignment explanation
Indices: 12936--12989 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
12926 AATGATAAAT
* *
12936 TTTTTTTAATTTCTTAAATGTTA
1 TTTTTTAAATTTCTT-AATGTAA
*
12959 TTTTTTAAATTTGTTAATGTAA
1 TTTTTTAAATTTCTTAATGTAA
12981 TTTTTTAAA
1 TTTTTTAAA
12990 ATTTAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTTTAAATTTCTTAATGTAA
Found at i:12991 original size:23 final size:23
Alignment explanation
Indices: 12936--13012 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
12926 AATGATAAAT
* *
12936 TTTTTTTAATTTCTTAAATGTTA
1 TTTTTTAAATTTCTTAAATGTAA
*
12959 TTTTTTAAATTTGTT-AATGTAA
1 TTTTTTAAATTTCTTAAATGTAA
* * *
12981 TTTTTTAAAATTTAATTAAATATCA
1 TTTTTT-AAATTT-CTTAAATGTAA
13006 TTTTTTA
1 TTTTTTA
13013 TTTTATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.27
23 19 0.42
24 3 0.07
25 11 0.24
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTTTAAATTTCTTAAATGTAA
Found at i:13141 original size:3 final size:3
Alignment explanation
Indices: 13133--13158 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13123 TTTTATTAAA
13133 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13159 ATCCTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13223 original size:21 final size:22
Alignment explanation
Indices: 13190--13257 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 22
13180 TTTTAAAAAA
*
13190 TAAT-TAATATTTTAA-TTTAT
1 TAATATAATTTTTTAAGTTTAT
*
13210 TAATATAATTTTTTTAAAGTTAAT
1 TAATATAA-TTTTTT-AAGTTTAT
* *
13234 TAATATTA-TTTTTAATTTTAT
1 TAATATAATTTTTTAAGTTTAT
13255 TAA
1 TAA
13258 AAATAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.10
21 12 0.31
22 10 0.26
23 2 0.05
24 11 0.28
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
TAATATAATTTTTTAAGTTTAT
Found at i:13282 original size:111 final size:115
Alignment explanation
Indices: 13148--13361 Score: 339
Period size: 112 Copynumber: 1.9 Consensus size: 115
13138 TAATAATAAT
13148 AATAATAATAAATCCTTTTAATTTAATTTTT-ATTTTAAAAAATAATTAATATTTTAATTTATTA
1 AATAATAATAAATCCTTTTAATTTAATTTTTGATTTTAAAAAATAATTAATATTTTAATTTATTA
**
13212 ATAT-AATTTTTTTAAAGTTAA-TT-AATATTATTTTTAATTTTATTAAA
66 ATATAAATTTTTAAAAAGTTAATTTAAATATTATTTTTAATTTTATTAAA
*
13259 AATAATAA-AAATGCTTTTTAATTTAATTTTTGATTTTAAAAAATAATTAATATTTTAATTTATT
1 AATAATAATAAAT-CCTTTTAATTTAATTTTTGATTTTAAAAAATAATTAATATTTTAATTTATT
* *
13323 AATGTAAATTTTTAAAAATTTAATTTAAATATTATTTTT
65 AATATAAATTTTTAAAAAGTTAATTTAAATATTATTTTT
13362 TATTAAAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
110 4 0.04
111 25 0.27
112 36 0.39
113 14 0.15
114 2 0.02
115 12 0.13
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (115 bp):
AATAATAATAAATCCTTTTAATTTAATTTTTGATTTTAAAAAATAATTAATATTTTAATTTATTA
ATATAAATTTTTAAAAAGTTAATTTAAATATTATTTTTAATTTTATTAAA
Found at i:13371 original size:111 final size:109
Alignment explanation
Indices: 13143--13378 Score: 325
Period size: 111 Copynumber: 2.1 Consensus size: 109
13133 AATAATAATA
*
13143 ATAATAATAATAATAAATCCTTTTAATTTAATTTTTATTTTAAAAAATAATTAATATTTTAATTT
1 ATAAAAATAATAATAAATCCTTTTAATTTAATTTTTATTTTAAAAAATAATTAATATTTTAATTT
** *
13208 ATTAATATAATTTTTTTAAAGTTAATTAATATTATTTTTAATTTT
66 ATTAATATAATTTTTAAAAAGTTAATTAATATTATTTTT-ATATT
*
13253 ATTAAAAATAATAA-AAATGCTTTTTAATTTAATTTTTGATTTTAAAAAATAATTAATATTTTAA
1 A-TAAAAATAATAATAAAT-CCTTTTAATTTAATTTTT-ATTTTAAAAAATAATTAATATTTTAA
* *
13317 TTTATTAATGTAAATTTTTAAAAATTTAATTTAAATATTATTTTT-TATT
63 TTTATTAATAT-AATTTTTAAAAAGTTAA-TT-AATATTATTTTTATATT
13366 A-AAAAATAATAAT
1 ATAAAAATAATAAT
13379 TAATACATTA
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
110 5 0.04
111 39 0.35
112 36 0.32
113 18 0.16
114 2 0.02
115 12 0.11
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (109 bp):
ATAAAAATAATAATAAATCCTTTTAATTTAATTTTTATTTTAAAAAATAATTAATATTTTAATTT
ATTAATATAATTTTTAAAAAGTTAATTAATATTATTTTTATATT
Found at i:13395 original size:112 final size:109
Alignment explanation
Indices: 13143--13395 Score: 307
Period size: 112 Copynumber: 2.3 Consensus size: 109
13133 AATAATAATA
* *
13143 ATAATAATAATAATAAATCCTT-TTAATTTAATTTTTATTTTAAAAAATAATTAATATTTTAATT
1 ATAAAAATAATAA-AAATACTTATTAATTTAATTTTTATTTTAAAAAATAATTAATATTTTAATT
** *
13207 TATTAATATAATTTTTTTAAAGTTAATTAATATTATTTTTAATTTT
65 TATTAATATAATTTTTAAAAAGTTAATTAATATTATTTTT-ATATT
* *
13253 ATTAAAAATAATAAAAATGCTTTTTAATTTAATTTTTGATTTTAAAAAATAATTAATATTTTAAT
1 A-TAAAAATAATAAAAATACTTATTAATTTAATTTTT-ATTTTAAAAAATAATTAATATTTTAAT
* *
13318 TTATTAATGTAAATTTTTAAAAATTTAATTTAAATATTATTTTT-TATT
64 TTATTAATAT-AATTTTTAAAAAGTTAA-TT-AATATTATTTTTATATT
*
13366 A-AAAAATAATAATTAATACATTATT-ATTTA
1 ATAAAAATAATAA-AAATAC-TTATTAATTTA
13396 TTAAATTTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
110 8 0.06
111 36 0.29
112 45 0.36
113 22 0.18
114 2 0.02
115 12 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (109 bp):
ATAAAAATAATAAAAATACTTATTAATTTAATTTTTATTTTAAAAAATAATTAATATTTTAATTT
ATTAATATAATTTTTAAAAAGTTAATTAATATTATTTTTATATT
Found at i:14033 original size:20 final size:20
Alignment explanation
Indices: 13980--14034 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
13970 CAAAATTTAA
13980 ATAACATAATTATTAATATATT
1 ATAA-ATAATTA-TAATATATT
*
14002 A-AAAT-ATATATAATATTTT
1 ATAAATAAT-TATAATATATT
14021 ATAAATAATTATAA
1 ATAAATAATTATAA
14035 CATGTGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 11 0.38
20 13 0.45
21 4 0.14
22 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAATAATTATAATATATT
Found at i:14173 original size:21 final size:22
Alignment explanation
Indices: 14149--14189 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14139 ACTAAATAGC
*
14149 AAAATG-TAGATTAATTTTTGA
1 AAAATGATAAATTAATTTTTGA
*
14170 AAAATGATAAATTCATTTTT
1 AAAATGATAAATTAATTTTT
14190 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (22 bp):
AAAATGATAAATTAATTTTTGA
Found at i:19484 original size:20 final size:21
Alignment explanation
Indices: 19459--19497 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19449 ATTACATATT
19459 ATATATAA-ATAAATAAAATA
1 ATATATAATATAAATAAAATA
*
19479 ATATATAATATAATTAAAA
1 ATATATAATATAAATAAAA
19498 ATAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATATAATATAAATAAAATA
Found at i:19871 original size:17 final size:19
Alignment explanation
Indices: 19770--19888 Score: 81
Period size: 20 Copynumber: 6.3 Consensus size: 19
19760 GGTACTAAAA
19770 TATTATTAAAAATATTA-A-
1 TATTATT-AAAATATTATAT
* *
19788 -A-TATTAAAAGAATACTAT
1 TATTATTAAAATATTA-TAT
19806 TATTATTAGAACATCAATTATAT
1 TATTATTA-AA-AT--ATTATAT
*
19829 TAATATTAAAATATTATCAT
1 TATTATTAAAATATTAT-AT
19849 TATTATTAAAATATTAT-T
1 TATTATTAAAATATTATAT
* *
19867 T-TTATTAATATAATA-AT
1 TATTATTAAAATATTATAT
19884 TATTA
1 TATTA
19889 AATATAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
15 7 0.09
16 4 0.05
17 16 0.20
18 5 0.06
19 6 0.07
20 23 0.28
21 4 0.05
22 3 0.04
23 10 0.12
24 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (19 bp):
TATTATTAAAATATTATAT
Found at i:19873 original size:43 final size:43
Alignment explanation
Indices: 19781--19877 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 43
19771 ATTATTAAAA
*
19781 ATATTAAATATTAAAAGAATACTATTATTATTAGAACATCAATT
1 ATATT-AATATTAAAAGAATACTATTATTATTAAAACATCAATT
* * * * *
19825 ATATTAATATTAAAATATTA-TCATTATTATTAAAATATTATTT
1 ATATTAATATTAAAAGAATACT-ATTATTATTAAAACATCAATT
*
19868 TTATTAATAT
1 ATATTAATAT
19878 AATAATTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.02
43 39 0.87
44 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (43 bp):
ATATTAATATTAAAAGAATACTATTATTATTAAAACATCAATT
Found at i:20001 original size:14 final size:14
Alignment explanation
Indices: 19973--20026 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
19963 TTATTATTAA
19973 AATATTAAT-TTTT
1 AATATTAATATTTT
19986 AATATTAATATTTT
1 AATATTAATATTTT
* *
20000 AAATAGT-ATATTCT
1 -AATATTAATATTTT
*
20014 AATAATAATATTT
1 AATATTAATATTT
20027 AATTCTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 14 0.41
14 15 0.44
15 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:20001 original size:21 final size:22
Alignment explanation
Indices: 19957--20108 Score: 65
Period size: 21 Copynumber: 7.1 Consensus size: 22
19947 AAACATTAAA
*
19957 AATTATTTATTATTAAAATATT
1 AATTATTTAATATTAAAATATT
* *
19979 AATT-TTTAATATTAATATTTT
1 AATTATTTAATATTAAAATATT
* * ** *
20000 AAATA-GT-ATATTCTAATAAT
1 AATTATTTAATATTAAAATATT
*
20020 AA-TATTTAAT-TCTCAAATATT
1 AATTATTTAATAT-TAAAATATT
20041 ATATTCATATTAAATACTTAAAATA--
1 A-ATT-AT-TT-AATA-TTAAAATATT
* *
20066 ACATTATTTATTATTAAAACATT
1 A-ATTATTTAATATTAAAATATT
20089 -ATT-TTT-ATATTAAAAT-TT
1 AATTATTTAATATTAAAATATT
20107 AA
1 AA
20109 AATATTACAA
Statistics
Matches: 97, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
18 2 0.02
19 11 0.11
20 15 0.15
21 38 0.39
22 8 0.08
23 3 0.03
24 4 0.04
25 6 0.06
26 3 0.03
27 6 0.06
28 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (22 bp):
AATTATTTAATATTAAAATATT
Found at i:20088 original size:18 final size:19
Alignment explanation
Indices: 20065--20103 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
20055 TACTTAAAAT
20065 AACATTATTTAT-TATTAA
1 AACATTATTTATATATTAA
*
20083 AACATTATTTTTATATTAA
1 AACATTATTTATATATTAA
20102 AA
1 AA
20104 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
AACATTATTTATATATTAA
Found at i:20857 original size:13 final size:13
Alignment explanation
Indices: 20839--20863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20829 ATGAAAGAAA
20839 ATAAAAGAAAGAT
1 ATAAAAGAAAGAT
20852 ATAAAAGAAAGA
1 ATAAAAGAAAGA
20864 GAAAAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
ATAAAAGAAAGAT
Found at i:23237 original size:24 final size:24
Alignment explanation
Indices: 23191--23242 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
23181 TATACATGAC
*
23191 AAAATAAATGTAGGTACTGAATTGA
1 AAAAAAAATGTAGGTACTGAATT-A
23216 AAAAAAAAT-TAGGTAC-GAAATTA
1 AAAAAAAATGTAGGTACTG-AATTA
23239 AAAA
1 AAAA
23243 TTGATAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 11 0.44
25 8 0.32
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (24 bp):
AAAAAAAATGTAGGTACTGAATTA
Found at i:23879 original size:24 final size:24
Alignment explanation
Indices: 23851--23899 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23841 TTAAATTATG
*
23851 ATAATTGA-TATAATAAATAATATT
1 ATAATTAATTATAAT-AATAATATT
*
23875 ATAATTAATTATAATAATTATATT
1 ATAATTAATTATAATAATAATATT
23899 A
1 A
23900 ATTAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATAATTAATTATAATAATAATATT
Found at i:23894 original size:9 final size:9
Alignment explanation
Indices: 23844--23933 Score: 62
Period size: 9 Copynumber: 10.1 Consensus size: 9
23834 ATGTATTTTA
*
23844 AATTATGAT
1 AATTATAAT
23853 AATTGAT-AT
1 AATT-ATAAT
*
23862 AATAAATAAT
1 AAT-TATAAT
23872 -ATTATAATT
1 AATTATAA-T
23881 AATTATAAT
1 AATTATAAT
*
23890 AATTATATT
1 AATTATAAT
*
23899 AATTAAAAT
1 AATTATAAT
*
23908 -ATTAAAAT
1 AATTATAAT
* *
23916 TA-TAAAAT
1 AATTATAAT
23924 AATTATAAT
1 AATTATAAT
23933 A
1 A
23934 TCATCTTGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
8 19 0.28
9 37 0.55
10 11 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (9 bp):
AATTATAAT
Found at i:23930 original size:34 final size:36
Alignment explanation
Indices: 23851--23930 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
23841 TTAAATTATG
* *
23851 ATAATTGATATAATAAATAATATTATAATTAATTATA
1 ATAATT-ATATAATAAATAATATTAAAATTAATTAAA
*
23888 ATAATTATATTAATTAA-AATATTAAAATT-A-TAAA
1 ATAATTATA-TAATAAATAATATTAAAATTAATTAAA
23922 ATAATTATA
1 ATAATTATA
23931 ATATCATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 12 0.31
35 1 0.03
36 14 0.36
37 12 0.31
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (36 bp):
ATAATTATATAATAAATAATATTAAAATTAATTAAA
Found at i:24058 original size:2 final size:2
Alignment explanation
Indices: 24051--24079 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24041 TCTAATTTGT
24051 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24080 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24084 original size:2 final size:2
Alignment explanation
Indices: 24079--24115 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24069 TCTCTCTCTC
24079 TA TA TA 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 TA TA TA T
24116 TTGGTTTGCT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30723 original size:2 final size:2
Alignment explanation
Indices: 30718--30754 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
30708 AAATACAAAC
*
30718 TA TA TA TA TA TA TA TA TA TA GA T- TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30755 GCAAATTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31218 original size:19 final size:20
Alignment explanation
Indices: 31194--31231 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31184 AACTTGGTCT
31194 AAAATAT-TATTTATTTAAA
1 AAAATATATATTTATTTAAA
*
31213 AAAATATATTTTTATTTAA
1 AAAATATATATTTATTTAA
31232 TTTAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATATATATTTATTTAAA
Found at i:33979 original size:6 final size:6
Alignment explanation
Indices: 33968--34006 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
33958 ATATAAATAC
33968 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA
34007 ACACCTCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:36151 original size:16 final size:15
Alignment explanation
Indices: 36132--36170 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
36122 ATAACATATT
36132 TTTATAATTTGTGATA
1 TTTAT-ATTTGTGATA
*
36148 TTTATTTTTGTGATA
1 TTTATATTTGTGATA
*
36163 TTTTTATT
1 TTTATATT
36171 ATTTAACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTATATTTGTGATA
Found at i:44409 original size:20 final size:20
Alignment explanation
Indices: 44376--44416 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
44366 AAATTTTAAA
*
44376 ATTTTTTGTTTAATTTTGTTT
1 ATTTTTTGTATAA-TTTGTTT
44397 ATTTTTTG-ATAATTTGTTT
1 ATTTTTTGTATAATTTGTTT
44416 A
1 A
44417 ACTCTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (20 bp):
ATTTTTTGTATAATTTGTTT
Found at i:45499 original size:15 final size:15
Alignment explanation
Indices: 45481--45521 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
45471 AAAAATTTTA
45481 TAACTTAAAATAATC
1 TAACTTAAAATAATC
**
45496 TAACTCGAAATAATC
1 TAACTTAAAATAATC
45511 TAACTTAAAAT
1 TAACTTAAAAT
45522 TAACTCAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (15 bp):
TAACTTAAAATAATC
Found at i:45808 original size:2 final size:2
Alignment explanation
Indices: 45801--45825 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45791 TTAATTAATT
45801 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 T
45826 CTGCAGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46136 original size:25 final size:24
Alignment explanation
Indices: 46086--46136 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
46076 ATTACCATAA
*
46086 TTAATTAAATATATTTATTATTATT
1 TTAATTAAACATATTTA-TATTATT
46111 TTAATTAAAGCATATTTA-ATTGATT
1 TTAATTAAA-CATATTTATATT-ATT
46136 T
1 T
46137 GTAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.13
25 13 0.57
26 7 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TTAATTAAACATATTTATATTATT
Found at i:46411 original size:16 final size:16
Alignment explanation
Indices: 46390--46420 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46380 TATCTTTCCT
46390 TTTTATTTTGCCTTTC
1 TTTTATTTTGCCTTTC
46406 TTTTATTTTGCCTTT
1 TTTTATTTTGCCTTT
46421 TTGAGAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTATTTTGCCTTTC
Found at i:47999 original size:2 final size:2
Alignment explanation
Indices: 47992--48023 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47982 TACCCAACAC
47992 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
48024 AACCCAAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49854 original size:22 final size:22
Alignment explanation
Indices: 49826--49887 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
49816 CTACAACCTT
49826 AAATCAGTAAATTAAATCACTA
1 AAATCAGTAAATTAAATCACTA
*
49848 AAATCAGTAAATTACAA-CCCTA
1 AAATCAGTAAATTA-AATCACTA
*
49870 TAATCAGTAAATTAAATC
1 AAATCAGTAAATTAAATC
49888 CTTGATTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
AAATCAGTAAATTAAATCACTA
Found at i:50189 original size:2 final size:2
Alignment explanation
Indices: 50182--50215 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50172 AGTTATTAAC
50182 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
50216 GCTGCTAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50891 original size:2 final size:2
Alignment explanation
Indices: 50878--50916 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
50868 ACAAAAGGCA
*
50878 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50917 AATGAAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:51234 original size:17 final size:17
Alignment explanation
Indices: 51212--51254 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
51202 TTGATATATT
51212 TTTATATTTTTATCATA
1 TTTATATTTTTATCATA
* *
51229 TTTATATTTTTTTTATA
1 TTTATATTTTTATCATA
51246 TTT-TATTTT
1 TTTATATTTT
51255 AATTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATATTTTTATCATA
Found at i:51243 original size:11 final size:11
Alignment explanation
Indices: 51229--51269 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
51219 TTTTATCATA
51229 TTTATATTTTT
1 TTTATATTTTT
51240 TTTATATTTTAT
1 TTTATATTTT-T
51252 TTTA-ATTATTT
1 TTTATATT-TTT
51263 TTTATAT
1 TTTATAT
51270 CATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATATTTTT
Found at i:51260 original size:16 final size:16
Alignment explanation
Indices: 51216--51267 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
51206 TATATTTTTA
*
51216 TATTTTTATCATATTT
1 TATTTTTATTATATTT
*
51232 ATATTTTTTTTATATTT
1 -TATTTTTATTATATTT
* *
51249 TATTTTAATTATTTTT
1 TATTTTTATTATATTT
51265 TAT
1 TAT
51268 ATCATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTATTATATTT
Found at i:51260 original size:27 final size:27
Alignment explanation
Indices: 51210--51265 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
51200 TTTTGATATA
*
51210 TTTTTATATTTTTATCATATTTATATTT
1 TTTTTATATTTTTATCATAATTAT-TTT
**
51238 TTTTTATA-TTTTATTTTAATTATTTT
1 TTTTTATATTTTTATCATAATTATTTT
51264 TT
1 TT
51266 ATATCATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.20
27 12 0.48
28 8 0.32
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTATATTTTTATCATAATTATTTT
Found at i:51603 original size:20 final size:20
Alignment explanation
Indices: 51578--51629 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
51568 ATGATTTATT
* *
51578 TAATAAATATTAAGATAATA
1 TAATAAATATTAACATAAAA
51598 TAATAAATA-TAACATAAAA
1 TAATAAATATTAACATAAAA
*
51617 TATTTAAATATTA
1 TA-ATAAATATTA
51630 TTCACATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 10 0.37
20 15 0.56
21 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TAATAAATATTAACATAAAA
Found at i:52554 original size:20 final size:19
Alignment explanation
Indices: 52516--52554 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
52506 TTACTTTTTT
*
52516 TTAATTTTTTTTAAAAATA
1 TTAATTTTTATTAAAAATA
*
52535 TTAATTTATTATTAATAATA
1 TTAATTT-TTATTAAAAATA
52555 CAAATTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATTTTTATTAAAAATA
Found at i:52742 original size:33 final size:33
Alignment explanation
Indices: 52704--52787 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 33
52694 CTCTTTTAGC
*
52704 TAATATTTTATCTTTTATATATATAAAC-TAAGA-
1 TAATATTTTATCTTTTATATAGAT-AACGTAA-AT
* *
52737 TAATATTTTATTTTTTGTATAGATAACGTAAAT
1 TAATATTTTATCTTTTATATAGATAACGTAAAT
52770 TAAT-TTTTATCTCTTTAT
1 TAATATTTTATCT-TTTAT
52788 CTCTTATACG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 11 0.26
33 32 0.74
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.54
Consensus pattern (33 bp):
TAATATTTTATCTTTTATATAGATAACGTAAAT
Found at i:54229 original size:19 final size:18
Alignment explanation
Indices: 54202--54289 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 18
54192 AATAAGTATA
*
54202 TATAATAAATAATTAAATT
1 TATATTAAA-AATTAAATT
*
54221 TATATTAAATAA-T-ATTT
1 TATATTAAA-AATTAAATT
* *
54238 TATATATTAAAATTAAACT
1 TATAT-TAAAAATTAAATT
*
54257 TATGTTAAAAA-TAAATT
1 TATATTAAAAATTAAATT
* *
54274 AATAATAAAAATTAAA
1 TATATTAAAAATTAAA
54290 AAGATTGGAG
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
17 23 0.43
18 14 0.26
19 17 0.31
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
TATATTAAAAATTAAATT
Found at i:54686 original size:20 final size:19
Alignment explanation
Indices: 54661--54716 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
54651 TTAAAATTTT
54661 TTTAATTTTAATAATTAAAA
1 TTTAATTTT-ATAATTAAAA
*
54681 TTTAATTTTTTATAATTTTAAA
1 TTTAA--TTTTATAA-TTAAAA
*
54703 TATAATTTTATAAT
1 TTTAATTTTATAAT
54717 CTTTAATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.42
21 4 0.13
22 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATTTTATAATTAAAA
Found at i:54695 original size:21 final size:22
Alignment explanation
Indices: 54661--54716 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
54651 TTAAAATTTT
54661 TTTAA-TTTTAATAA-TTAAAA
1 TTTAATTTTTAATAATTTAAAA
* *
54681 TTTAATTTTTTATAATTTTAAA
1 TTTAATTTTTAATAATTTAAAA
*
54703 TATAATTTTATAAT
1 TTTAATTTT-TAAT
54717 CTTTAATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 8 0.28
22 13 0.45
23 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAATTTTTAATAATTTAAAA
Found at i:56227 original size:3 final size:3
Alignment explanation
Indices: 56219--56264 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
56209 TGATTTTGGT
*
56219 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
56265 ATGCTCTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:57463 original size:19 final size:18
Alignment explanation
Indices: 57409--57488 Score: 58
Period size: 19 Copynumber: 4.5 Consensus size: 18
57399 AACTGATCAT
**
57409 AATAATTAAATTTAATTA
1 AATAATTAAAAATAATTA
*
57427 TATAATTAAAAATAAATTA
1 AATAATTAAAAAT-AATTA
*
57446 AATATTTAATAAATAATT-
1 AATAATTAA-AAATAATTA
* *
57464 -TTAA-TAAAAATAATAA
1 AATAATTAAAAATAATTA
*
57480 AAAAATTAA
1 AATAATTAA
57489 TTGAATCGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
15 7 0.15
16 3 0.06
17 4 0.09
18 13 0.28
19 16 0.34
20 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATTAAAAATAATTA
Found at i:57877 original size:18 final size:16
Alignment explanation
Indices: 57815--57938 Score: 55
Period size: 16 Copynumber: 7.6 Consensus size: 16
57805 TGGGTCGAGC
57815 TTAAAATATGAATATAA
1 TTAAAATAT-AATATAA
* *
57832 -T--ATTATAAAATAA
1 TTAAAATATAATATAA
57845 TTAAAATATAATATAA
1 TTAAAATATAATATAA
*
57861 -TATAAATAT-ATATTA
1 TTA-AAATATAATATAA
* * *
57876 -TAAAATTTTATGATAT
1 TTAAAATATAAT-ATAA
57892 TTAAAA-ATTAATATAAA
1 TTAAAATA-TAATAT-AA
*
57909 TTAAATAATATTATAATATA
1 TT-AA-AATATAAT-ATA-A
57929 TTAAAATATA
1 TTAAAATATA
57939 TAAAAATAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
13 6 0.08
14 10 0.12
15 11 0.14
16 21 0.26
17 11 0.14
18 7 0.09
19 8 0.10
20 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
TTAAAATATAATATAA
Found at i:57935 original size:36 final size:36
Alignment explanation
Indices: 57815--57942 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
57805 TGGGTCGAGC
*
57815 TTAAAATATGAATATAATATTATAAAATAATTAAAATATAA
1 TTAAAAT-T-AATATAA-ATTATAAAAT-ATTATAATAT-A
* * * * *
57856 TATAATATAAATATATATTATAAAATTTTATGATAT-
1 T-TAAAATTAATATAAATTATAAAATATTATAATATA
57892 TTAAAAATTAATATAAATTA-AATAATATTATAATATA
1 TT-AAAATTAATATAAATTATAA-AATATTATAATATA
57929 TTAAAA-T-ATATAAA
1 TTAAAATTAATATAAA
57943 AATAATTTTG
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
34 7 0.10
35 4 0.06
36 30 0.42
37 2 0.03
38 7 0.10
39 10 0.14
40 6 0.08
41 1 0.01
42 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (36 bp):
TTAAAATTAATATAAATTATAAAATATTATAATATA
Found at i:57936 original size:10 final size:10
Alignment explanation
Indices: 57815--57946 Score: 50
Period size: 10 Copynumber: 13.8 Consensus size: 10
57805 TGGGTCGAGC
57815 TTAAAATATGA
1 TTAAAATAT-A
* *
57826 ATATAATAT-
1 TTAAAATATA
57835 TATAAAATA-A
1 T-TAAAATATA
57845 TTAAAATATA
1 TTAAAATATA
* *
57855 ATATAATATA
1 TTAAAATATA
*
57865 --AATATATA
1 TTAAAATATA
*
57873 TTATAAA-ATT
1 TTA-AAATATA
**
57883 TTATGATAT-
1 TTAAAATATA
57892 TT-AAA-A-A
1 TTAAAATATA
* *
57899 TTAATATAAA
1 TTAAAATATA
57909 TT-AAATAATA
1 TTAAAAT-ATA
*
57919 TTATAATATA
1 TTAAAATATA
57929 TTAAAATATA
1 TTAAAATATA
*
57939 TAAAAATA
1 TTAAAATA
57947 ATTTTGATAG
Statistics
Matches: 88, Mismatches: 20, Indels: 27
0.65 0.15 0.20
Matches are distributed among these distances:
7 3 0.03
8 9 0.10
9 14 0.16
10 50 0.57
11 12 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TTAAAATATA
Found at i:58045 original size:16 final size:16
Alignment explanation
Indices: 58002--58066 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
57992 ATGTTTAACA
58002 TTTAAATTA-TTT-AT
1 TTTAAATTATTTTAAT
* *
58016 TTT-GATTTTTTTAAT
1 TTTAAATTATTTTAAT
*
58031 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAT
* *
58047 GTTAAATTAATTTAAT
1 TTTAAATTATTTTAAT
58063 TTTA
1 TTTA
58067 GATAATTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 3 0.08
14 6 0.15
15 5 0.13
16 25 0.64
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTAAATTATTTTAAT
Found at i:58857 original size:25 final size:24
Alignment explanation
Indices: 58808--58861 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 24
58798 TTAATAATTT
*
58808 ATTTAATTTTATATATAAAATAAA
1 ATTTAATTTTATAAATAAAATAAA
*
58832 ATTTAAATTTTATAAAATTAAAAAAAA
1 ATTT-AATTTTAT-AAA-TAAAATAAA
58859 ATT
1 ATT
58862 GTTTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 8 0.32
26 2 0.08
27 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTAATTTTATAAATAAAATAAA
Found at i:58889 original size:12 final size:13
Alignment explanation
Indices: 58863--58900 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
58853 AAAAAAATTG
58863 TTTTAAATTTATT
1 TTTTAAATTTATT
58876 TTTTAAATTT-TT
1 TTTTAAATTTATT
**
58888 TTAAAAATTTATT
1 TTTTAAATTTATT
58901 ATAAATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTAAATTTATT
Found at i:59050 original size:17 final size:17
Alignment explanation
Indices: 58993--59050 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
58983 TATATCTATT
* *
58993 ATATTTAAACTTGTTTA
1 ATATTTAAATTTTTTTA
*
59010 ATATTTAAATTATTTATTTT
1 ATATTTAAA-T-TTT-TTTA
59030 ATATTTAAATTTTTTTA
1 ATATTTAAATTTTTTTA
59047 ATAT
1 ATAT
59051 AATTGATCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 16 0.47
18 3 0.09
19 3 0.09
20 12 0.35
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATTTAAATTTTTTTA
Found at i:59254 original size:16 final size:16
Alignment explanation
Indices: 59235--59399 Score: 68
Period size: 15 Copynumber: 10.6 Consensus size: 16
59225 TTAATAATTT
59235 ATATTATATTTATATA
1 ATATTATATTTATATA
*
59251 ATA-T-TA-TTATATT
1 ATATTATATTTATATA
* *
59264 ATAATTATATTAAAATTA
1 AT-ATTATATTTATA-TA
*
59282 AT-TTTTATTTATATA
1 ATATTATATTTATATA
59297 A-A-T-T-TTTATATA
1 ATATTATATTTATATA
* * *
59309 TTAATA-ATTTATATT
1 ATATTATATTTATATA
*
59324 ATATTA-ATTT-TAAA
1 ATATTATATTTATATA
*
59338 ATATTTATATTTTTATATT
1 ATA-TTATA--TTTATATA
59357 ATATTATATTT-TA-A
1 ATATTATATTTATATA
*
59371 TATATATATATTAATATA
1 -ATAT-TATATTTATATA
59389 TATATATATAT
1 -ATAT-TATAT
59400 ATGAAACCTC
Statistics
Matches: 113, Mismatches: 17, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
12 8 0.07
13 10 0.09
14 10 0.09
15 29 0.26
16 23 0.20
17 5 0.04
18 23 0.20
19 5 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTATATTTATATA
Found at i:59258 original size:19 final size:19
Alignment explanation
Indices: 59223--59401 Score: 70
Period size: 20 Copynumber: 9.1 Consensus size: 19
59213 AGATTTAATA
*
59223 ATTTAATAATTTATATTAT
1 ATTTAATAATATATATTAT
59242 ATTTATATAATAT-TATTAT
1 ATTTA-ATAATATATATTAT
* *
59261 ATTATAATTATATTAAAATTAAT
1 ATT-TAATAATA-T-ATATT-AT
* * * *
59284 TTTTATTTATATAAATTTTTAT
1 ATTTA-ATA-ATATA-TATTAT
*
59306 ATATTAATAATTTATATTAT
1 AT-TTAATAATATATATTAT
*
59326 A-TTAATTTTAAAATAT-TTAT
1 ATTTAA---TAATATATATTAT
*
59346 ATTT--TTATATTATATTAT
1 ATTTAATAATA-TATATTAT
59364 ATTT--TAATATATA-TAT
1 ATTTAATAATATATATTAT
59380 A-TTAATATATATATATATAT
1 ATTTAATA-ATATATAT-TAT
59400 AT
1 AT
59402 GAAACCTCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 42
0.66 0.11 0.23
Matches are distributed among these distances:
15 2 0.02
16 7 0.06
17 9 0.08
18 23 0.19
19 19 0.16
20 24 0.20
21 11 0.09
22 11 0.09
23 10 0.08
24 3 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATAATATATATTAT
Found at i:59317 original size:33 final size:33
Alignment explanation
Indices: 59280--59375 Score: 106
Period size: 32 Copynumber: 2.9 Consensus size: 33
59270 ATATTAAAAT
*
59280 TAATTTTTATTTATATAAATTTTTATATATTAA
1 TAATTTTTATTTATATAAATTTTAATATATTAA
* * * *
59313 TAATTTATA-TTATATTAATTTTAAAATATTTA
1 TAATTTTTATTTATATAAATTTTAATATATTAA
*
59345 T-ATTTTTATATTATATTATATTTTAATATAT
1 TAATTTTTAT-TTATA-TAAATTTTAATATAT
59376 ATATATTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
31 6 0.12
32 20 0.39
33 13 0.25
34 12 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TAATTTTTATTTATATAAATTTTAATATATTAA
Found at i:59323 original size:60 final size:66
Alignment explanation
Indices: 59257--59375 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 66
59247 TATAATATTA
*
59257 TTATATTATAATT-ATATT-AAA-A-TTA-ATTTTTAT-TTATA-TAAATTTTTATATATTAATA
1 TTATATTAT-ATTAATATTAAAATATTTATATTTTTATATTATATTAAATTTTAATATATTAATA
59315 AT
65 AT
* *
59317 TTATATTATATTAATTTTAAAATATTTATATTTTTATATTATATTATATTTTAATATAT
1 TTATATTATATTAATATTAAAATATTTATATTTTTATATTATATTAAATTTTAATATAT
59376 ATATATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
59 3 0.06
60 13 0.27
61 3 0.06
62 1 0.02
63 3 0.06
64 8 0.16
65 5 0.10
66 13 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (66 bp):
TTATATTATATTAATATTAAAATATTTATATTTTTATATTATATTAAATTTTAATATATTAATAA
T
Found at i:59375 original size:48 final size:48
Alignment explanation
Indices: 59245--59395 Score: 118
Period size: 48 Copynumber: 3.2 Consensus size: 48
59235 ATATTATATT
* * **
59245 TATATAATATTATTATATTATAATTATA--TTAA-A-ATTAATTTTTATT
1 TATAT-ATATTTTTATATTAT-ATTATATTTTAATATATTAATTTTAAAA
* * *
59291 TATATAAATTTTTATA-TAT-TAATAATTTATATTATATTAATTTTAAAA
1 TATATATATTTTTATATTATATTAT-ATTT-TAATATATTAATTTTAAAA
* * *
59339 TATTTATATTTTTATATTATATTATATTTTAATATA-TATATATTAATA
1 TATATATATTTTTATATTATATTATATTTTAATATATTA-ATTTTAAAA
59387 TATATATAT
1 TATATATAT
59396 ATATATGAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
42 3 0.04
43 1 0.01
44 3 0.04
45 10 0.12
46 7 0.09
47 3 0.04
48 45 0.55
49 7 0.09
50 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (48 bp):
TATATATATTTTTATATTATATTATATTTTAATATATTAATTTTAAAA
Found at i:59377 original size:2 final size:2
Alignment explanation
Indices: 59351--59401 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
59341 TTTATATTTT
*
59351 TA TA T- TA TA T- TA TA T- TT TA -A TA TA TA TA TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59387 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
59402 GAAACCTCGG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
1 6 0.14
2 36 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:59380 original size:84 final size:83
Alignment explanation
Indices: 59225--59378 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 83
59215 ATTTAATAAT
* *
59225 TTAATAATTTATATTATATTTATATAATATTATTATATTATAATTATATTAAAATTAATTTTTAT
1 TTAATAATTTATATTATATTAATATAAAATTATTATATTAT-ATTATATTAAAATTAATTTTTAT
*
59290 TTATATAAATTTTTATATA
65 ATATATAAATTTTTATATA
* * *
59309 TTAATAATTTATATTATATTAATTTTAAAA-TATTTATATT-T-TTATATT-ATATTATATTTTA
1 TTAATAATTTATATTATATTAA-TATAAAATTA-TTATATTATATTATATTAAAATTA-ATTTTT
59370 ATATATATA
63 ATATATATA
59379 TATTAATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
81 5 0.08
82 20 0.33
84 24 0.39
85 12 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (83 bp):
TTAATAATTTATATTATATTAATATAAAATTATTATATTATATTATATTAAAATTAATTTTTATA
TATATAAATTTTTATATA
Found at i:59393 original size:84 final size:83
Alignment explanation
Indices: 59225--59391 Score: 189
Period size: 82 Copynumber: 2.0 Consensus size: 83
59215 ATTTAATAAT
* * *
59225 TTAATAATTTATATTATATTTATATAATATTATTATATTATAATTATATTAAAATTAATTTTTAT
1 TTAATAATTTATATTATATTAATATAAAATTATTATATTAT-ATTATATTAAAATTAATTTTAAT
* *
59290 TTATATAAATTTTTATATA
65 ATATATAAATTTATATATA
* *
59309 TTAATAATTTATATTATATTAATTTTAAAA-TATTTATATT-T-TTATATT-ATATTATATTTTA
1 TTAATAATTTATATTATATTAA-TATAAAATTA-TTATATTATATTATATTAAAATTA-ATTTTA
* *
59370 ATATATATATATTAATATATA
63 ATATATATAAATTTATATATA
59391 T
1 T
59392 ATATATATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
81 5 0.07
82 30 0.42
84 24 0.34
85 12 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (83 bp):
TTAATAATTTATATTATATTAATATAAAATTATTATATTATATTATATTAAAATTAATTTTAATA
TATATAAATTTATATATA
Found at i:66070 original size:19 final size:18
Alignment explanation
Indices: 66038--66080 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
66028 TTAAATTTTA
*
66038 ATATATTATAATTTTTATC
1 ATAT-TTATAATTTATATC
*
66057 ATATTTATATATTTATATT
1 ATATTTATA-ATTTATATC
66076 ATATT
1 ATATT
66081 AAATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTATAATTTATATC
Found at i:66088 original size:17 final size:18
Alignment explanation
Indices: 66007--66089 Score: 68
Period size: 16 Copynumber: 4.7 Consensus size: 18
65997 CTATAATAAT
*
66007 TTTAAATTATTATAAATATA
1 TTTAAATT-TTAT-ATTATA
66027 TTTAAATTTTA-A-TATA
1 TTTAAATTTTATATTATA
*
66043 -TTATAATTTT-TATCATA
1 TTTA-AATTTTATATTATA
*
66060 TTTATATATTTATATTATA
1 TTTAAAT-TTTATATTATA
66079 -TTAAATTTTAT
1 TTTAAATTTTAT
66090 TTTTTTATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
15 3 0.06
16 11 0.21
17 11 0.21
18 11 0.21
19 9 0.17
20 8 0.15
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTTTATATTATA
Found at i:66094 original size:41 final size:38
Alignment explanation
Indices: 66022--66127 Score: 95
Period size: 41 Copynumber: 2.7 Consensus size: 38
66012 ATTATTATAA
* * * * *
66022 ATATATTTAAATTTTAATATATTATAATTTTTATCATATTT
1 ATATATTTATATTATATTAAATTATAATTTTT-T-ATA-TC
* *
66063 ATATATTTATATTATATTAAATTTTATTTTTTTATATC
1 ATATATTTATATTATATTAAATTATAATTTTTTATATC
*
66101 ATATAATTATATTATATTTAAAATTAT
1 ATATATTTATATTATA-TT-AAATTAT
66128 TAAATTATTC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
38 16 0.30
39 5 0.09
40 7 0.13
41 26 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (38 bp):
ATATATTTATATTATATTAAATTATAATTTTTTATATC
Found at i:66113 original size:23 final size:25
Alignment explanation
Indices: 66068--66113 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
66058 TATTTATATA
* *
66068 TTTATATTATATTAAATTTTATTTT
1 TTTATATCATATTAAATTATATTTT
66093 TTTATATCATA-T-AATTATATT
1 TTTATATCATATTAAATTATATT
66114 ATATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 1 0.05
25 10 0.53
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATATCATATTAAATTATATTTT
Found at i:66605 original size:12 final size:12
Alignment explanation
Indices: 66584--66634 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
66574 AAATATCTCA
66584 TATTTATTATAT
1 TATTTATTATAT
*
66596 TATTTTTTATATT
1 TATTTATTATA-T
* * *
66609 TATTAAATATGT
1 TATTTATTATAT
66621 TATTT-TTATAT
1 TATTTATTATAT
66632 TAT
1 TAT
66635 ATTTAAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
11 7 0.23
12 15 0.50
13 8 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTTATTATAT
Found at i:66612 original size:25 final size:25
Alignment explanation
Indices: 66583--66647 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
66573 TAAATATCTC
*
66583 ATATTTATTATATTATTTTTTATATT
1 ATATTTAATATATTA-TTTTTATATT
* *
66609 -TATTAAATATGTTATTTTTATATT
1 ATATTTAATATATTATTTTTATATT
66633 ATATTTAA-A-ATTATT
1 ATATTTAATATATTATT
66648 AAATTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 5 0.15
24 11 0.33
25 17 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTTAATATATTATTTTTATATT
Found at i:66615 original size:39 final size:35
Alignment explanation
Indices: 66566--66651 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 35
66556 TTAAATATGT
* *
66566 TATTTTTTAAATATCTCATATTTATTATATTATTTTTTA
1 TATTTATTAAATATCT--TATTT-TTATATTA-TATTTA
*
66605 TATTTATTAAATATGTTATTTTTATATTATATTTA
1 TATTTATTAAATATCTTATTTTTATATTATATTTA
* *
66640 AAATTATTAAAT
1 TATTTATTAAAT
66652 TTAATTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 15 0.36
36 8 0.19
37 5 0.12
39 14 0.33
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (35 bp):
TATTTATTAAATATCTTATTTTTATATTATATTTA
Found at i:66646 original size:23 final size:22
Alignment explanation
Indices: 66583--66647 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 22
66573 TAAATATCTC
66583 ATATTTATT--ATATTATTTTTT
1 ATATTTATTAAATATTA-TTTTT
66604 ATATTTATTAAATATGTTATTTTT
1 ATATTTATTAAATA--TTATTTTT
66628 ATATTATATTTAAA-ATTATT
1 ATATT-TA-TTAAATATTATT
66648 AAATTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
21 9 0.24
23 8 0.21
24 10 0.26
25 6 0.16
26 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATTTATTAAATATTATTTTT
Found at i:67244 original size:3 final size:3
Alignment explanation
Indices: 67236--67272 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
67226 TATCAAATTT
67236 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
67273 GTGGAGGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:67760 original size:16 final size:16
Alignment explanation
Indices: 67749--67785 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
67739 ATAAATTTTA
67749 AATTTTAAAAATTATT
1 AATTTTAAAAATTATT
*
67765 AATTTT-ATAATTA-T
1 AATTTTAAAAATTATT
67779 AATTTTA
1 AATTTTA
67786 TTAACATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 6 0.32
16 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTAAAAATTATT
Found at i:68173 original size:17 final size:17
Alignment explanation
Indices: 68153--68193 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
68143 TTTATTTACA
*
68153 TTATATTTATATTATTT
1 TTATATTTATATCATTT
* *
68170 TTATTTTTTTATCATTT
1 TTATATTTATATCATTT
68187 TTATATT
1 TTATATT
68194 ATTATATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTATATCATTT
Found at i:68173 original size:42 final size:41
Alignment explanation
Indices: 68116--68215 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 41
68106 CGAGCTTTTT
* *
68116 TTTATTTTATGTTTATATTTTTTAT-TTTTTAT-TTACATTATA
1 TTTATATTATTTTTAT-TTTTTTATATTTTTATATT--ATTATA
68158 TTTATATTATTTTTATTTTTTTATCATTTTTATATTATTATA
1 TTTATATTATTTTTATTTTTTTAT-ATTTTTATATTATTATA
*
68200 TATTATTATAATTTTT
1 T-TTA-TATTATTTTT
68216 GATAAGTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
41 8 0.16
42 21 0.42
43 10 0.20
44 11 0.22
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (41 bp):
TTTATATTATTTTTATTTTTTTATATTTTTATATTATTATA
Found at i:68427 original size:23 final size:24
Alignment explanation
Indices: 68401--68452 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
68391 TTAAATCAAA
* *
68401 TATATTATATTCATA-TTTATTTT
1 TATATTATAATCATATTTTATTAT
68424 TATATTATAATCATATTTTATTAT
1 TATATTATAATCATATTTTATTAT
68448 TATAT
1 TATAT
68453 ATTTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATTATAATCATATTTTATTAT
Found at i:73795 original size:12 final size:13
Alignment explanation
Indices: 73778--73822 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
73768 AAAAATTAAA
73778 TTATTTATA-AAT
1 TTATTTATATAAT
*
73790 TTATTTA-ATAGT
1 TTATTTATATAAT
73802 TTATTT-TATAAT
1 TTATTTATATAAT
73814 TTA-TTATAT
1 TTATTTATAT
73823 TATTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 25 0.89
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATTTATATAAT
Found at i:73874 original size:6 final size:6
Alignment explanation
Indices: 73863--73938 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
73853 TATTTTATAA
* * *
73863 TTAAAT TTAAAT TTAAAT TTAAAT TTTATT ATTAAA- TAATAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTA-AAT TTAAAT
*
73911 TTAAA- TTAAAT TAATTAAT TTAAAT TTA
1 TTAAAT TTAAAT T--TAAAT TTAAAT TTA
73939 TAAAAATTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
5 12 0.21
6 34 0.61
7 5 0.09
8 5 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:73897 original size:31 final size:30
Alignment explanation
Indices: 73854--73938 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
73844 AATAATATAT
*
73854 ATTTTATAATTAAATTTAAATTTAAATTTAA
1 ATTTTATTATTAAATTTAAATTTAAA-TTAA
*
73885 ATTTTATTATTAAA-TAATAATTTAAATTAA
1 ATTTTATTATTAAATTTA-AATTTAAATTAA
**
73915 ATTAAATTAATT-AATTTAAATTTA
1 ATTTTATT-ATTAAATTTAAATTTA
73939 TAAAAATTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 20 0.43
31 26 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTTATTATTAAATTTAAATTTAAATTAA
Found at i:73928 original size:4 final size:5
Alignment explanation
Indices: 73861--73936 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
73851 TATATTTTAT
* * *
73861 AATTA AATTTA AATTTA AATTTA AATTT TATT- -ATTA AATAATA ATTTA
1 AATTA AA-TTA AA-TTA AA-TTA AATTA AATTA AATTA AAT--TA AATTA
*
73909 AATTA AATTA AATT- AATTA ATTTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
73937 TATAAAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 31 0.53
6 17 0.29
7 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
AATTA
Found at i:74049 original size:35 final size:38
Alignment explanation
Indices: 74007--74109 Score: 99
Period size: 35 Copynumber: 2.7 Consensus size: 38
73997 ATATAAATAT
74007 TTAAAATATAATTTAAAATATAATATAAAA-A-ATAATA
1 TTAAAATATAATTT-AAATATAATATAAAATATATAATA
* * *
74044 -T-AAATATTATATAAATATATTA-AAAATATATAATA
1 TTAAAATATAATTTAAATATAATATAAAATATATAATA
74079 TTAAAATATAATATTTTAAATATAATTATAA
1 TTAAAATAT-A-A-TTTAAATATAA-TATAA
74110 TTAAAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.08
34 10 0.20
35 15 0.29
36 2 0.04
37 6 0.12
39 1 0.02
40 9 0.18
41 2 0.04
42 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (38 bp):
TTAAAATATAATTTAAATATAATATAAAATATATAATA
Found at i:74083 original size:72 final size:74
Alignment explanation
Indices: 73991--74144 Score: 194
Period size: 72 Copynumber: 2.1 Consensus size: 74
73981 TAGTTTAATT
* *
73991 TTAAAAATATAAATATTTAAAATAT-A-ATTTAAAATATAA-TATAA-AAAATAATATAAATATT
1 TTAAAAATATAAATATTTAAAATATAATATTTAAAATATAATTATAATAAAAAAATACAAATA--
74052 ATATAAATATA
64 ATATAAATATA
*
74063 TTAAAAATATATAATA-TTAAAATATAATATTTTAAATATAATTATAATTAAAAAAATACAAATA
1 TTAAAAATATA-AATATTTAAAATATAATATTTAAAATATAATTATAA-TAAAAAAATACAAATA
*
74127 ATATAATTATA
64 ATATAAATATA
74138 -TAAAAAT
1 TTAAAAAT
74145 TAAGAGGGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
72 20 0.28
73 5 0.07
74 19 0.26
75 15 0.21
77 13 0.18
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.38
Consensus pattern (74 bp):
TTAAAAATATAAATATTTAAAATATAATATTTAAAATATAATTATAATAAAAAAATACAAATAAT
ATAAATATA
Found at i:74093 original size:29 final size:29
Alignment explanation
Indices: 73994--74102 Score: 102
Period size: 29 Copynumber: 3.8 Consensus size: 29
73984 TTTAATTTTA
*
73994 AAAATATAAATATT-TAAA-ATATAAT-TT
1 AAAATAT-AATATTAAAAATATATAATATT
*
74021 AAAATATAATATAAAAAATAATATAAATATT
1 AAAATATAATATTAAAAAT-ATAT-AATATT
74052 ATATAA-AT-ATATTAAAAATATATAATATT
1 A-A-AATATAATATTAAAAATATATAATATT
**
74081 AAAATATAATATTTTAAATATA
1 AAAATATAATATTAAAAATATA
74103 ATTATAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
26 5 0.07
27 12 0.18
28 3 0.04
29 23 0.34
30 7 0.10
31 13 0.19
32 3 0.04
33 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAATATAATATTAAAAATATATAATATT
Found at i:74101 original size:14 final size:13
Alignment explanation
Indices: 73994--74104 Score: 92
Period size: 12 Copynumber: 8.8 Consensus size: 13
73984 TTTAATTTTA
73994 AAAATATAAATATTT
1 AAAATAT-AATA-TT
74009 AAAATATAAT-TT
1 AAAATATAATATT
74021 AAAATATAATA-T
1 AAAATATAATATT
*
74033 AAAAAATAATA-T
1 AAAATATAATATT
*
74045 -AAATATTATA-T
1 AAAATATAATATT
* *
74056 -AAATATATTA-A
1 AAAATATAATATT
74067 AAATATATAATATT
1 AAA-ATATAATATT
74081 AAAATATAATATTT
1 AAAATATAATA-TT
*
74095 TAAATATAAT
1 AAAATATAAT
74105 TATAATTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
11 17 0.21
12 26 0.32
13 15 0.18
14 17 0.21
15 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATATAATATT
Found at i:75095 original size:4 final size:4
Alignment explanation
Indices: 75086--75110 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
75076 TGTACTAAGC
75086 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
75111 GCTGATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:75634 original size:32 final size:34
Alignment explanation
Indices: 75598--75664 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
75588 ATTGTTTAGG
* *
75598 TCATTTTGAGTTTAAG-TTA-TTTTAGATTCGGA
1 TCATTTTGAATTTAAGTTTATTTTTAAATTCGGA
75630 TCATTTTGAATTTAAGTTTATTTTTAAATTCGGA
1 TCATTTTGAATTTAAGTTTATTTTTAAATTCGGA
75664 T
1 T
75665 TGGTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 15 0.48
33 3 0.10
34 13 0.42
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (34 bp):
TCATTTTGAATTTAAGTTTATTTTTAAATTCGGA
Found at i:75943 original size:18 final size:19
Alignment explanation
Indices: 75912--75975 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
75902 AACTTTTATT
*
75912 ATTTTAAATATTTTTTAAC
1 ATTTTAAATATTTTATAAC
*
75931 ATTTT-AATTTTTTATAAC
1 ATTTTAAATATTTTATAAC
75949 ATTTTTTTAAAT-TTCTTATAAC
1 A---TTTTAAATATT-TTATAAC
75971 ATTTT
1 ATTTT
75976 TTTCATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 12 0.32
19 9 0.24
21 6 0.16
22 11 0.29
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTAAATATTTTATAAC
Found at i:75954 original size:12 final size:12
Alignment explanation
Indices: 75937--75977 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
75927 TAACATTTTA
75937 ATTTTTTATAAC
1 ATTTTTTATAAC
75949 ATTTTTT-TAA-
1 ATTTTTTATAAC
*
75959 ATTTCTTATAAC
1 ATTTTTTATAAC
75971 ATTTTTT
1 ATTTTTT
75978 TCATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 6 0.24
11 6 0.24
12 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTTTTATAAC
Found at i:75958 original size:21 final size:22
Alignment explanation
Indices: 75932--75978 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
75922 TTTTTTAACA
*
75932 TTTT-AATTTTTTATAACATTT
1 TTTTAAATTTCTTATAACATTT
75953 TTTTAAATTTCTTATAACATTT
1 TTTTAAATTTCTTATAACATTT
75975 TTTT
1 TTTT
75979 CATAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTAAATTTCTTATAACATTT
Found at i:75962 original size:28 final size:26
Alignment explanation
Indices: 75898--75962 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 26
75888 TTTTTATATG
75898 TTTAAACTTTTATTATTTTAAATATTT
1 TTTAAA-TTTTATTATTTTAAATATTT
*
75925 TTTAACATTTTAATT-TTTTATAACATTTT
1 TTTAA-ATTTT-ATTATTTTA-AATA-TTT
75954 TTTAAATTT
1 TTTAAATTT
75963 CTTATAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 14 0.42
28 11 0.33
29 8 0.24
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTAAATTTTATTATTTTAAATATTT
Found at i:76626 original size:13 final size:12
Alignment explanation
Indices: 76606--76640 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
76596 GTTAAATGAT
76606 TTAATTTTTTTA
1 TTAATTTTTTTA
*
76618 TTAAATTTTATTA
1 TT-AATTTTTTTA
76631 TTAATTTTTT
1 TTAATTTTTT
76641 AAAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTAATTTTTTTA
Found at i:76651 original size:24 final size:25
Alignment explanation
Indices: 76606--76652 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
76596 GTTAAATGAT
*
76606 TTAATTTTTTTATTAAATTTTATTA
1 TTAATTTTTTTATAAAATTTTATTA
76631 TTAA-TTTTTTA-AAAATATTTAT
1 TTAATTTTTTTATAAAAT-TTTAT
76653 GGTAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTAATTTTTTTATAAAATTTTATTA
Found at i:77383 original size:3 final size:3
Alignment explanation
Indices: 77375--77399 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
77365 TCTCTATAAA
77375 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
77400 GTATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:78630 original size:21 final size:23
Alignment explanation
Indices: 78606--78648 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
78596 ATATTATGCG
*
78606 AAATTTTTTTATT-TAT-TTTAA
1 AAATATTTTTATTCTATATTTAA
78627 AAATATTTTTATTCTATATTTA
1 AAATATTTTTATTCTATATTTA
78649 TATTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 3 0.16
23 4 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
AAATATTTTTATTCTATATTTAA
Found at i:78800 original size:17 final size:17
Alignment explanation
Indices: 78764--78804 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
78754 ATTTAAAAAA
*
78764 AAAAATAAATAAATATG
1 AAAAATAAATAAATAAG
78781 AAAAATAAATAACA-AAG
1 AAAAATAAATAA-ATAAG
78798 AAAAATA
1 AAAAATA
78805 GATAGATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAATAAATAAATAAG
Found at i:79929 original size:24 final size:22
Alignment explanation
Indices: 79885--79953 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
79875 GTATAAATTA
*
79885 TTATTTAATATAAATTAATATAT
1 TTATTTAATATAAAAT-ATATAT
79908 TTATTTAATTATAAAA-ATATAT
1 TTATTTAA-TATAAAATATATAT
**
79930 AAATATTAATATAAAATA-ATAT
1 TTAT-TTAATATAAAATATATAT
79952 TT
1 TT
79954 TAATAACATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 19 0.50
23 13 0.34
24 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATTTAATATAAAATATATAT
Found at i:79958 original size:24 final size:24
Alignment explanation
Indices: 79889--79958 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
79879 AAATTATTAT
*
79889 TTAATATAAATTAATATATTT-AT-
1 TTAATATAAAATAATAT-TTTAATA
* *
79912 TTAAT-TATAAA-AATATATAAATA
1 TTAATATA-AAATAATATTTTAATA
79935 TTAATATAAAATAATATTTTAATA
1 TTAATATAAAATAATATTTTAATA
79959 ACATTATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 15 0.41
24 12 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATATAAAATAATATTTTAATA
Found at i:80075 original size:2 final size:2
Alignment explanation
Indices: 80068--80097 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
80058 TTACCCATAC
80068 AT 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 AT
80098 TTAACTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.