Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 108 of 199
Found at i:32947562 original size:26 final size:25
Alignment explanation
Indices: 32947498--32947569 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
32947488 TTTAAAATTG
* *
32947498 TTTTATATGTTTTTTATATTATATA
1 TTTTAAATTTTTTTTATATTATATA
* * *
32947523 TTTTAAATTGTTTTTATTTTTATTTA
1 TTTTAAATTTTTTTTA-TATTATATA
* *
32947549 TTTTTAGTTTTTTTATATATT
1 TTTTAAATTTTTTT-TATATT
32947570 CTGTTTATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
25 13 0.36
26 21 0.58
27 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTAAATTTTTTTTATATTATATA
Found at i:32951817 original size:10 final size:10
Alignment explanation
Indices: 32951802--32951833 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
32951792 GCAGGAGAGG
32951802 CAAAAAAAAA
1 CAAAAAAAAA
32951812 C--AAAAAAA
1 CAAAAAAAAA
32951820 CAAAAAAAAA
1 CAAAAAAAAA
32951830 CAAA
1 CAAA
32951834 TAAGCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:32951825 original size:18 final size:18
Alignment explanation
Indices: 32951802--32951863 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
32951792 GCAGGAGAGG
32951802 CAAAAAAAAACAAAAAAA
1 CAAAAAAAAACAAAAAAA
* *
32951820 CAAAAAAAAACAAATAAG
1 CAAAAAAAAACAAAAAAA
* * *
32951838 CAAAATAAAAGAGCAAAAA
1 CAAAAAAAAACA-AAAAAA
32951857 CAAAAAA
1 CAAAAAA
32951864 CAAAAACCTC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 26 0.74
19 9 0.26
ACGTcount: A:0.81, C:0.11, G:0.05, T:0.03
Consensus pattern (18 bp):
CAAAAAAAAACAAAAAAA
Found at i:32951870 original size:13 final size:13
Alignment explanation
Indices: 32951806--32951870 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
32951796 GAGAGGCAAA
32951806 AAAAAACAAAAA-
1 AAAAAACAAAAAC
32951818 AACAAAA-AAAAAC
1 AA-AAAACAAAAAC
*
32951831 AAATAAGCAAAATA-
1 AAA-AAACAAAA-AC
* *
32951845 AAAGAGCAAAAAC
1 AAAAAACAAAAAC
32951858 AAAAAACAAAAAC
1 AAAAAACAAAAAC
32951871 CTCTACTGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 9 0.21
13 26 0.60
14 7 0.16
15 1 0.02
ACGTcount: A:0.80, C:0.12, G:0.05, T:0.03
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:32953770 original size:141 final size:142
Alignment explanation
Indices: 32953456--32954053 Score: 711
Period size: 143 Copynumber: 4.2 Consensus size: 142
32953446 AAGATGCTGT
* * * * *
32953456 GGAGCAGACTGAAGACAGTGAATCTTATTTCCCTAGCGTT---GTAGGAATAGGTTAAATCTACA
1 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGT-GGAACAGATTAAAGCTACA
* * * * *
32953518 AATTATGGTGGATCTTATCTTCCTAAAGTTGCAGTAGAGCAGATTGAAGCCACTAGCCTTATCTC
65 AATTATAGCGGAACTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AGCCTTATCTC
* *
32953583 CCCGAAGTCGCAGC
129 CCTGAAGTTGCAGC
* *
32953597 GGAGTAGACTGAAGACAGCGAATCTTATTTCCCTGGTGTTACAGTGGAACAGATTAAAGCTACAA
1 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAA
* * *
32953662 ATTATGGCGGAACTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCC-CAGCCTTATCTCCT
66 ATTATAGCGGAACTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAGCCTTATCTCCC
* *
32953726 TTAAGTTGCAGT
131 TGAAGTTGCAGC
* * * * *
32953738 GGAGCAGACTGAAGACAACGAATTTTATTTCCCTGGCATTGCAGTGGAACAGATTAATGCTACAA
1 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAA
* * * * * * *
32953803 ATTATAGCGGATCTTATCTTCTTGAAGTTACAGTGGAGCATATTAAAGCCCCCAGCCTTCTCTCC
66 ATTATAGCGGAACTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACAGCCTTATCTCC
32953868 CTGAAGTTGCAGC
130 CTGAAGTTGCAGC
* * * * * * **
32953881 GGAGTAGACTAAAAATAGCGAATCTTATTTCCCTGGCGTTATAGTGGAATAGATTAAAATTACAA
1 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAA
* * *
32953946 AATATAACGGATA-TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATTTC
66 ATTATAGCGGA-ACTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGCCTTATCTC
32954010 CCTGAAGTTGCAGC
129 CCTGAAGTTGCAGC
* * *
32954024 GAACCAGATTGAAGACAGCGAATCTTATTT
1 GGAGCAGACTGAAGACAGCGAATCTTATTT
32954054 TCCTACTACT
Statistics
Matches: 386, Mismatches: 64, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
141 156 0.40
142 5 0.01
143 223 0.58
144 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (142 bp):
GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAA
ATTATAGCGGAACTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAGCCTTATCTCCC
TGAAGTTGCAGC
Found at i:32953817 original size:284 final size:283
Alignment explanation
Indices: 32953435--32954058 Score: 786
Period size: 284 Copynumber: 2.2 Consensus size: 283
32953425 GTTACAAGTT
* * * * * *
32953435 TTATCTCATTGAAGATGCTGTGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTAGCGTTGTAG
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAG
* * * * * *
32953500 GAATAGGTTAAATCTACAAATTATGGTGGATCTTATCTTCCTAAAGTTGCAGTAGAGCAGATTGA
66 GAACAGATTAAATCTACAAATTATAGCGGATCTTATCTTCCTAAAGTTACAGTAGAGCAGATTAA
* * *
32953565 AGCCACTAGCCTTATCTCCCCGAAGTCGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCC
131 AGCCACCAGCCTTATCTCCCCGAAGTCGCAGCGGAGTAGACTAAAAACAGCGAATCTTATTTCCC
* * * **
32953630 TGGTGTTACAGTGGAACAGATTAAAGCTACAAATTATGGCGGA-ACTTATCTTCCTGAAGTTGCA
196 TGGCGTTACAGTGGAACAGATTAAAACTACAAAATATAACGGATA-TTATCTTCCTGAAGTTGCA
32953694 GTGGAGCAAATTGAAGCC-CAGCC
260 GTGGAGCAAATTGAAGCCACAGCC
* * * *
32953717 TTATCTCCTTTAAGTTGCAGTGGAGCAGACTGAAGACAACGAATTTTATTTCCCTGGCATTGCAG
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCATTGCA-
* * * *
32953782 TGGAACAGATT-AATGCTACAAATTATAGCGGATCTTATCTTCTTGAAGTTACAGTGGAGCATAT
65 -GGAACAGATTAAAT-CTACAAATTATAGCGGATCTTATCTTCCTAAAGTTACAGTAGAGCAGAT
* * * * *
32953846 TAAAGCCCCCAGCCTTCTCTCCCTGAAGTTGCAGCGGAGTAGACTAAAAATAGCGAATCTTATTT
128 TAAAGCCACCAGCCTTATCTCCCCGAAGTCGCAGCGGAGTAGACTAAAAACAGCGAATCTTATTT
* * *
32953911 CCCTGGCGTTATAGTGGAATAGATTAAAATTACAAAATATAACGGATATTATCTTCCTGAAGTTG
193 CCCTGGCGTTACAGTGGAACAGATTAAAACTACAAAATATAACGGATATTATCTTCCTGAAGTTG
*
32953976 CAGTGGAGCAGATTGAAGCCATCAGCC
258 CAGTGGAGCAAATTGAAGCCA-CAGCC
* * * * * * *
32954003 TTATTTCCCTGAAGTTGCAGCGAACCAGATTGAAGACAGCGAATCTTATTTTCCTA
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTA
32954059 CTACTACAAT
Statistics
Matches: 288, Mismatches: 48, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
282 54 0.19
283 3 0.01
284 180 0.62
285 1 0.00
286 50 0.17
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (283 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAG
GAACAGATTAAATCTACAAATTATAGCGGATCTTATCTTCCTAAAGTTACAGTAGAGCAGATTAA
AGCCACCAGCCTTATCTCCCCGAAGTCGCAGCGGAGTAGACTAAAAACAGCGAATCTTATTTCCC
TGGCGTTACAGTGGAACAGATTAAAACTACAAAATATAACGGATATTATCTTCCTGAAGTTGCAG
TGGAGCAAATTGAAGCCACAGCC
Found at i:32955608 original size:26 final size:25
Alignment explanation
Indices: 32955576--32955681 Score: 90
Period size: 26 Copynumber: 4.2 Consensus size: 25
32955566 TTTTATCATC
* *
32955576 ATTTATTTTAAGTTTTTATATTTATT
1 ATTTATTTTAAATTTTT-TATATATT
* * *
32955602 ATTTATTTGAAATTTTTTACATATA
1 ATTTATTTTAAATTTTTTATATATT
32955627 ATTTA-TTTAAATTTATTTTATATATT
1 ATTTATTTTAAA-TT-TTTTATATATT
* * *
32955653 ATTTATTATAAACTTATGTATATA-T
1 ATTTATTTTAAA-TTTTTTATATATT
32955678 ATTT
1 ATTT
32955682 CAAATTTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
24 5 0.08
25 17 0.26
26 36 0.55
27 7 0.11
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (25 bp):
ATTTATTTTAAATTTTTTATATATT
Found at i:32956223 original size:146 final size:145
Alignment explanation
Indices: 32955960--32956254 Score: 502
Period size: 146 Copynumber: 2.0 Consensus size: 145
32955950 TGTGTATTGT
* **
32955960 ATTTCTTAAATTGTATTTATTGATTATTTGTCGTTCATTAGTGCACATTTTGTTTTTGAGATGCC
1 ATTTCTTAAATTGTATTTATTGATTATTTGTCATTCATTAGTGCACATTTTGTTTTCAAGATGCC
*
32956025 ACTTTGCGTTGCACATTATCATTCCTTCGGGTTTTATTCGCTCAAAAAGTTACGTTTAATATCAT
66 ACTTTGCGTTGCACATTATCATTCCTTCGCGTTTTATTCGCTCAAAAAGTTACGTTTAATATCAT
32956090 TTAAGTTTTGAAATC
131 TTAAGTTTTGAAATC
* *
32956105 ATTTCTTAAATTGTATTTATTGATTATTTGTCATTCATTAGTGCGCATTTTTGTTTTCAAGATGT
1 ATTTCTTAAATTGTATTTATTGATTATTTGTCATTCATTAGTGCACA-TTTTGTTTTCAAGATGC
*
32956170 CACTTTGCGTTGTACATTATCATTCCATT-GCGTTTTATTCGCTCAAAAAGTTACGTTTAATATC
65 CACTTTGCGTTGCACATTATCATTCC-TTCGCGTTTTATTCGCTCAAAAAGTTACGTTTAATATC
32956234 ATTTAAGTTTTGAAATC
129 ATTTAAGTTTTGAAATC
32956251 ATTT
1 ATTT
32956255 TATTCAAAAG
Statistics
Matches: 141, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
145 45 0.32
146 94 0.67
147 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (145 bp):
ATTTCTTAAATTGTATTTATTGATTATTTGTCATTCATTAGTGCACATTTTGTTTTCAAGATGCC
ACTTTGCGTTGCACATTATCATTCCTTCGCGTTTTATTCGCTCAAAAAGTTACGTTTAATATCAT
TTAAGTTTTGAAATC
Found at i:32960951 original size:82 final size:84
Alignment explanation
Indices: 32960805--32960969 Score: 194
Period size: 82 Copynumber: 2.0 Consensus size: 84
32960795 TGTTAACAAC
* * * *
32960805 AGAAATCGAATAAATTTCTGTTGAACAATAGGAAAAGAATCCGAAAATAGAATTATTCAATTGAT
1 AGAAATCGAACAAATTCCTGTTAAACAATAGGAAAAGAATCCGAAAACAGAATTATTCAATTGAT
* *
32960870 TTTTGTTT-GAAACAAAAA
66 TTCTGTTTACAAACAAAAA
* * * *
32960888 AGAAATCGAACAAA-TCCTTTTAAACAGTAGGAACAA-AATCCTG-AAACAGAATTGTTCAGTTG
1 AGAAATCGAACAAATTCCTGTTAAACAATAGGAA-AAGAATCC-GAAAACAGAATTATTCAATTG
32960950 ATTTCTGTTTACAAACAAAA
64 ATTTCTGTTTACAAACAAAA
32960970 TACAATTTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
82 45 0.65
83 24 0.35
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.28
Consensus pattern (84 bp):
AGAAATCGAACAAATTCCTGTTAAACAATAGGAAAAGAATCCGAAAACAGAATTATTCAATTGAT
TTCTGTTTACAAACAAAAA
Found at i:32962005 original size:19 final size:19
Alignment explanation
Indices: 32961981--32962017 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32961971 TCCAACAGCA
32961981 AAAAATTTGATTACGGTGC
1 AAAAATTTGATTACGGTGC
32962000 AAAAATTTGATTACGGTG
1 AAAAATTTGATTACGGTG
32962018 GGTGACAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (19 bp):
AAAAATTTGATTACGGTGC
Found at i:32964572 original size:35 final size:35
Alignment explanation
Indices: 32964533--32964635 Score: 188
Period size: 35 Copynumber: 2.9 Consensus size: 35
32964523 AGTAAAATTT
*
32964533 AAATATTAATTAAATAGAATTTAATTGTAAAACAA
1 AAATATTAATTAAATAGGATTTAATTGTAAAACAA
32964568 AAATATTAATTAAATAGGATTTAATTGTAAAACAA
1 AAATATTAATTAAATAGGATTTAATTGTAAAACAA
32964603 AAATATTAATTAAATAGGATTTAATTGTTAAAA
1 AAATATTAATTAAATAGGATTTAATTG-TAAAA
32964636 AAAGAGAGGA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
35 61 0.92
36 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (35 bp):
AAATATTAATTAAATAGGATTTAATTGTAAAACAA
Found at i:32967289 original size:14 final size:14
Alignment explanation
Indices: 32967270--32967297 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32967260 ATGACGTGAA
32967270 CATAGTCGTTTAAT
1 CATAGTCGTTTAAT
32967284 CATAGTCGTTTAAT
1 CATAGTCGTTTAAT
32967298 GACACACGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CATAGTCGTTTAAT
Found at i:32969379 original size:20 final size:20
Alignment explanation
Indices: 32969351--32969392 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32969341 AATTTAGCCA
* *
32969351 TTTTATTTTTATTTTTATTT
1 TTTTATTTTTAATTTAATTT
*
32969371 TTTTGTTTTTAATTTAATTT
1 TTTTATTTTTAATTTAATTT
32969391 TT
1 TT
32969393 ACATTCTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTATTTTTAATTTAATTT
Found at i:32972657 original size:6 final size:6
Alignment explanation
Indices: 32972631--32972701 Score: 71
Period size: 6 Copynumber: 12.5 Consensus size: 6
32972621 AGTGATTTCA
* *
32972631 TTTAGT TTTATGT TTTA-- TTTATT TTTATT TTTACT TTTATT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
32972678 GTTA-- TTTATT TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
32972702 CAAATTTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 7 0.13
5 5 0.09
6 37 0.69
7 5 0.09
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:32972685 original size:28 final size:27
Alignment explanation
Indices: 32972631--32972730 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 27
32972621 AGTGATTTCA
*
32972631 TTTAGTTTTATGTTTTATTTATTTTTATT
1 TTTA-TTTTAT-TTTTATTTATATTTATT
32972660 TTTACTTTTATTTTTATTGT-TATTTATT
1 TTTA-TTTTATTTTTATT-TATATTTATT
*
32972688 TTTATTTTATTTTTCAAATTTATATGTTTTGT
1 TTTATTTTATTTTT---ATTTATAT-TTAT-T
32972720 TTTATTTTATT
1 TTTATTTTATT
32972731 ATGCACTTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
27 10 0.16
28 18 0.30
29 12 0.20
30 6 0.10
31 3 0.05
32 12 0.20
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTATTTTATTTTTATTTATATTTATT
Found at i:32972710 original size:34 final size:34
Alignment explanation
Indices: 32972645--32972730 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
32972635 GTTTTATGTT
* **
32972645 TTATTTATTTTTATTTTTACTTTTATTTTTAT-TG
1 TTATTTATTTTTA-TTTTATTTTTAAATTTATATG
32972679 TTATTTATTTTTATTTTATTTTTCAAATTTATATG
1 TTATTTATTTTTATTTTATTTTT-AAATTTATATG
*
32972714 -T-TTT-GTTTTATTTTATT
1 TTATTTATTTTTATTTTATT
32972731 ATGCACTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 12 0.26
33 12 0.26
34 20 0.43
35 2 0.04
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.74
Consensus pattern (34 bp):
TTATTTATTTTTATTTTATTTTTAAATTTATATG
Found at i:32972808 original size:18 final size:17
Alignment explanation
Indices: 32972785--32972824 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
32972775 TTTATATTTG
32972785 TTTTTTCATTTCTTTAT
1 TTTTTTCATTTCTTTAT
* *
32972802 CTTTTTTTATTTTTTTAT
1 -TTTTTTCATTTCTTTAT
32972820 TTTTT
1 TTTTT
32972825 ATTAGTGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCATTTCTTTAT
Found at i:32974428 original size:15 final size:14
Alignment explanation
Indices: 32974407--32974442 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
32974397 ATAATCTTTA
*
32974407 ATAATTATCTTAAT
1 ATAATTATCCTAAT
32974421 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
32974436 ATAATTA
1 ATAATTA
32974443 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:32976104 original size:4 final size:4
Alignment explanation
Indices: 32976070--32976136 Score: 50
Period size: 4 Copynumber: 16.5 Consensus size: 4
32976060 CCAAATAAGT
* *
32976070 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AAGA AAAA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA
*
32976116 AAT- AATA AATA AAAA AATA AA
1 AATA AATA AATA AATA AATA AA
32976137 AATAAAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
3 7 0.13
4 32 0.62
5 13 0.25
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:32976119 original size:21 final size:19
Alignment explanation
Indices: 32976081--32976142 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
32976071 ATAAATAATA
*
32976081 AAATAAAATAAAGTAATAAAT
1 AAATAAAA-AAA-AAATAAAT
32976102 AAAGTAAAGAAAAAAAT-AAT
1 AAA-TAAA-AAAAAAATAAAT
*
32976122 AAATAAAAAAATAA-AAAT
1 AAATAAAAAAAAAATAAAT
32976140 AAA
1 AAA
32976143 AATTGGGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 12 0.33
19 4 0.11
20 6 0.17
21 6 0.17
22 7 0.19
23 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (19 bp):
AAATAAAAAAAAAATAAAT
Found at i:32976144 original size:12 final size:11
Alignment explanation
Indices: 32976070--32976145 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 11
32976060 CCAAATAAGT
32976070 AATAAATAATAA
1 AATAAA-AATAA
32976082 AAT-AAAATAA
1 AATAAAAATAA
*
32976092 AGTAATAAATAA
1 AATAA-AAATAA
* *
32976104 AGTAAAGAAAAA
1 AATAAA-AATAA
32976116 AATAATAAATAA
1 AATAA-AAATAA
*
32976128 AA-AAATA-AA
1 AATAAAAATAA
32976137 AATAAAAAT
1 AATAAAAAT
32976146 TGGGTTGCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
9 4 0.08
10 13 0.25
11 6 0.12
12 28 0.54
13 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:32978533 original size:24 final size:24
Alignment explanation
Indices: 32978505--32978555 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
32978495 TTTCATGCTA
32978505 AGACAAACCATATGAAGCTCTTTC
1 AGACAAACCATATGAAGCTCTTTC
32978529 AGACAAACCATATGAAGCTCTTTC
1 AGACAAACCATATGAAGCTCTTTC
32978553 AGA
1 AGA
32978556 TGCTTGTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (24 bp):
AGACAAACCATATGAAGCTCTTTC
Found at i:32980068 original size:15 final size:14
Alignment explanation
Indices: 32980047--32980082 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
32980037 ATAATCTTTA
*
32980047 ATAATTATCTTAAT
1 ATAATTATCCTAAT
32980061 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
32980076 ATAATTA
1 ATAATTA
32980083 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:32981033 original size:22 final size:23
Alignment explanation
Indices: 32981003--32981045 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32980993 GCATTATGCT
* *
32981003 ACACTACCAAACTTTAAACTATC
1 ACACTACCAAAATATAAACTATC
32981026 ACAC-ACCAAAATATAAACTA
1 ACACTACCAAAATATAAACTA
32981046 GGCTAACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (23 bp):
ACACTACCAAAATATAAACTATC
Found at i:32981618 original size:15 final size:15
Alignment explanation
Indices: 32981598--32981659 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
32981588 ATCATTTATC
32981598 ATATTTTCCATTTCA
1 ATATTTTCCATTTCA
*
32981613 ATATTTTCTCATCTC-
1 ATATTTTC-CATTTCA
*
32981628 ATA--TT-CATTTCTC
1 ATATTTTCCATTTC-A
*
32981641 ATCTTTTCCATTTCA
1 ATATTTTCCATTTCA
32981656 ATAT
1 ATAT
32981660 CAATCACATA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
11 5 0.14
13 4 0.11
15 16 0.44
16 11 0.31
ACGTcount: A:0.24, C:0.23, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTCCATTTCA
Found at i:32982895 original size:15 final size:15
Alignment explanation
Indices: 32982875--32982907 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32982865 TGTTTTCATT
*
32982875 TTATTATCTTTATTA
1 TTATTATCATTATTA
32982890 TTATTATCATTATTA
1 TTATTATCATTATTA
32982905 TTA
1 TTA
32982908 AAGTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:32984194 original size:33 final size:32
Alignment explanation
Indices: 32984152--32984224 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 32
32984142 GGGTCACACG
32984152 GCCGTGTGGCCAGGCCGTTTGGAATCACCCCAA
1 GCCGTGTGGCCAGGCCGTTTGGAATCACCCC-A
*
32984185 GCCGTGTGGCCAGGTCGTTTGGAATCACCCCA
1 GCCGTGTGGCCAGGCCGTTTGGAATCACCCCA
32984217 GCCCGTGT
1 G-CCGTGT
32984225 CCTCACCGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.15, C:0.33, G:0.32, T:0.21
Consensus pattern (32 bp):
GCCGTGTGGCCAGGCCGTTTGGAATCACCCCA
Found at i:32984374 original size:30 final size:30
Alignment explanation
Indices: 32984340--32984398 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
32984330 CAGGCCATGT
*
32984340 CACCAGGCTGTGTGTCTCACACGACCGTGC
1 CACCAGGCTGTATGTCTCACACGACCGTGC
*
32984370 CACCAGGCTGTATGTCTCACACGGCCGTG
1 CACCAGGCTGTATGTCTCACACGACCGTG
32984399 TGACAACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.36, G:0.27, T:0.20
Consensus pattern (30 bp):
CACCAGGCTGTATGTCTCACACGACCGTGC
Found at i:33003614 original size:20 final size:19
Alignment explanation
Indices: 33003585--33003624 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
33003575 AATTTTTTAA
33003585 TTTTAAAATTATTTTGAAT
1 TTTTAAAATTATTTTGAAT
33003604 TTTTGAAAATTATTTTGAAT
1 TTTT-AAAATTATTTTGAAT
33003624 T
1 T
33003625 ATTTTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTTAAAATTATTTTGAAT
Found at i:33006435 original size:16 final size:16
Alignment explanation
Indices: 33006414--33006449 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33006404 TTTGGTTCGC
33006414 TGTATTAGATTAAAGG
1 TGTATTAGATTAAAGG
* *
33006430 TGTATTGGATTAGAGG
1 TGTATTAGATTAAAGG
33006446 TGTA
1 TGTA
33006450 ATAGCAAATC
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:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAAAGG
Found at i:33006854 original size:16 final size:16
Alignment explanation
Indices: 33006817--33006858 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33006807 TTAATCATAT
*
33006817 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
33006833 TT-AAATATATTATAA
1 TTAAAATATATTATAA
33006848 TTAAAATATAT
1 TTAAAATATAT
33006859 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:33006865 original size:14 final size:15
Alignment explanation
Indices: 33006826--33006867 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33006816 TTTAAACATA
*
33006826 ATTATTATTAAATAT
1 ATTATAATTAAATAT
33006841 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
33006855 A-TATAATTTAATA
1 ATTATAATTAAATA
33006868 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:33006956 original size:119 final size:120
Alignment explanation
Indices: 33006820--33007110 Score: 566
Period size: 120 Copynumber: 2.4 Consensus size: 120
33006810 ATCATATTTA
33006820 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
33006884 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
33006939 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
33007004 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
33007059 AACATAATTATTATTAAATATATTATAATTAAAAATATATAATTTAATAAAA
1 AACATAATTATTATTAAATATATTATAATT-AAAATATATAATTTAATAAAA
33007111 ATATAAATTA
Statistics
Matches: 170, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
119 61 0.36
120 88 0.52
121 21 0.12
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:33006984 original size:14 final size:15
Alignment explanation
Indices: 33006935--33006986 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33006925 GTAAAATATA
33006935 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
33006950 TATTAAATATATTAT
1 AATTAAATATATTAT
33006965 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
33006978 AATTTAATA
1 AATTAAATA
33006987 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:33007036 original size:61 final size:60
Alignment explanation
Indices: 33006850--33007219 Score: 214
Period size: 60 Copynumber: 6.2 Consensus size: 60
33006840 TATTATAATT
*
33006850 AAAATATATAATTTAATAAAATTCTTAATAA-TAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTATTATATGAATTTA-TCAAATC
* * * * * * * * *
33006910 ATAATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATATTATAATT
1 AAAATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTATTATATGAATTTATCA-AATC
*
33006969 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTATTATATGAATTTA-TCAAATC
* * * * * * * * * *
33007030 ATAATATATGATACT-GTAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTAT-AATTA
1 AAAATATATAAT-TTAATAAAATTCTTAA-TAA-TTAA-TATTATTATATGAAT-TTATCAAATC
* * * * * *
33007090 AAAATATATAATTTAATAAAAAT-AT-A-AATTAACATAATTATTAT-TAAATATATTATAATT
1 AAAATATATAATTTAATAAAATTCTTAATAATT-A-AT-ATTATTATATGAATTTATCA-AATC
*
33007150 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTATTATATGAATTTA-TCAAATC
*
33007211 ATAATATAT
1 AAAATATAT
33007220 GATACTATAA
Statistics
Matches: 228, Mismatches: 50, Indels: 63
0.67 0.15 0.18
Matches are distributed among these distances:
56 3 0.01
57 7 0.03
58 16 0.07
59 32 0.14
60 83 0.36
61 55 0.24
62 15 0.07
63 17 0.07
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (60 bp):
AAAATATATAATTTAATAAAATTCTTAATAATTAATATTATTATATGAATTTATCAAATC
Found at i:33007083 original size:15 final size:15
Alignment explanation
Indices: 33007055--33007167 Score: 92
Period size: 15 Copynumber: 7.6 Consensus size: 15
33007045 GTAAAATATA
33007055 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
33007070 TATTAAATATATTAT
1 AATTAAATATATTAT
*
33007085 AATTAAAAATA-TAT
1 AATTAAATATATTAT
* * *
33007099 AATTTAATAAAAATAT
1 AATTAAAT-ATATTAT
33007115 AAATTAACATA-ATTAT
1 -AATTAA-ATATATTAT
*
33007131 TATTAAATATATTAT
1 AATTAAATATATTAT
33007146 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
33007159 AATTTAATA
1 AATTAAATA
33007168 AAATTCTTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
13 9 0.11
14 19 0.24
15 37 0.46
16 7 0.09
17 6 0.08
18 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:33007087 original size:21 final size:21
Alignment explanation
Indices: 33007062--33007154 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
33007052 ATAAATTAAC
**
33007062 ATAATTATTATTAAATATATT
1 ATAATTAAAATTAAATATATT
* *
33007083 ATAATTAAAAATATATA-ATT
1 ATAATTAAAATTAAATATATT
* **
33007103 -TAATAAAAATATAAAT-TAAC
1 ATAATTAAAAT-TAAATATATT
**
33007123 ATAATTATTATTAAATATATT
1 ATAATTAAAATTAAATATATT
33007144 ATAATTAAAAT
1 ATAATTAAAAT
33007155 ATATAATTTA
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
19 8 0.15
20 13 0.25
21 31 0.60
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTAAAATTAAATATATT
Found at i:33007111 original size:18 final size:18
Alignment explanation
Indices: 33007088--33007170 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 18
33007078 ATATTATAAT
33007088 TAAAAATATATAATTTAA
1 TAAAAATATATAATTTAA
*
33007106 TAAAAATATA-AATTAACA
1 TAAAAATATATAATTTA-A
* *
33007124 TAATTATTATTAAATATATTATAA
1 TAA--A--AATATATA-ATT-TAA
*
33007148 TTAAAATATATAATTTAA
1 TAAAAATATATAATTTAA
33007166 TAAAA
1 TAAAA
33007171 TTCTTAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
17 5 0.10
18 21 0.43
19 3 0.06
20 7 0.14
22 5 0.10
23 1 0.02
24 6 0.12
25 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAATATATAATTTAA
Found at i:33007126 original size:181 final size:180
Alignment explanation
Indices: 33006927--33007290 Score: 626
Period size: 181 Copynumber: 2.0 Consensus size: 180
33006917 ATGATACTGT
33006927 AAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
1 AAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
*
33006992 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
*
33007056 A-TT-AACATAATTATTATTAAATATATTATAATTAAAAATATATAATTTAATA
129 ATTTGAA-ATAATTAATATTAAATATATT-TAATTAAAAATATATAATTTAATA
33007108 AAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
1 AAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
33007173 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAAAT
66 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAAAT
* * *
33007238 TTGAAATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATA
131 TTGAAATAATTAATATTAAATATATTTAATTAAAAATATATAATTTAATA
33007288 AAA
1 AAA
33007291 TTTAAAATAA
Statistics
Matches: 175, Mismatches: 5, Indels: 7
0.94 0.03 0.04
Matches are distributed among these distances:
180 31 0.18
181 142 0.81
182 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (180 bp):
AAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAAAT
TTGAAATAATTAATATTAAATATATTTAATTAAAAATATATAATTTAATA
Found at i:33007171 original size:120 final size:118
Alignment explanation
Indices: 33006820--33007158 Score: 443
Period size: 120 Copynumber: 2.8 Consensus size: 118
33006810 ATCATATTTA
33006820 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT-AATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAAT-A
* * * *
33006884 TATTCTTATATGAATTTACTCA-AATCATAATATATGATACTGTAAAATATAAATT
65 -ATTATTAT-TAAATATACTTATAATCATAATATATGATACTGTAAAATATAAATT
*
33006939 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAAT-A
* * * *
33007004 TATTCTTATATGAATTTACTCA-AATCATAATATATGATACTGTAAAATATAAATT
65 -ATTATTAT-TAAATATACTTATAATCATAATATATGATACTGTAAAATATAAATT
* * *
33007059 AACATAATTATTATTAAATATATTATAATTAAAAATATATAATTTAATAAAAATATAAATTAACA
1 AACATAATTATTATTAAATATATTATAATT-AAAATATATAATTTAATAAAATTCTTAA-TAA-A
* *
33007124 TAATTATTATTAAATATA-TTATAATTAAAATATAT
63 TAATTATTATTAAATATACTTATAATCATAATATAT
33007159 AATTTAATAA
Statistics
Matches: 204, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
119 61 0.30
120 106 0.52
121 32 0.16
122 4 0.02
123 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (118 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TTATTATTAAATATACTTATAATCATAATATATGATACTGTAAAATATAAATT
Found at i:33007379 original size:24 final size:25
Alignment explanation
Indices: 33007333--33007392 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
33007323 TATGAATTTG
*
33007333 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTAAA
33007359 TATAATTTAATAAT-TAA-TATTAAA
1 TATAATTTAA-AATATAATTATTAAA
33007383 TATAATTTAA
1 TATAATTTAA
33007393 CAGTGATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 16 0.50
25 3 0.09
26 10 0.31
27 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTAAA
Found at i:33010402 original size:11 final size:11
Alignment explanation
Indices: 33010386--33010412 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
33010376 GATTTTATCA
33010386 ATTGTTGAGAT
1 ATTGTTGAGAT
33010397 ATTGTTGAGAT
1 ATTGTTGAGAT
33010408 ATTGT
1 ATTGT
33010413 CATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:33010611 original size:97 final size:97
Alignment explanation
Indices: 33010501--33010690 Score: 371
Period size: 97 Copynumber: 2.0 Consensus size: 97
33010491 TTTTATAACA
33010501 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
33010566 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
33010598 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
33010663 TAAAATATGTAGATTTAATCTTAAATTT
66 TAAAATATGAAGATTTAATCTTAAATTT
33010691 NNNNNNNNNN
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGAAGATTTAATCTTAAATTTGGAT
Found at i:33011390 original size:17 final size:17
Alignment explanation
Indices: 33011368--33011411 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
33011358 AAGAGGTGAA
33011368 AATAAAAATACAATTTC
1 AATAAAAATACAATTTC
33011385 AATAAAAATACAATTTC
1 AATAAAAATACAATTTC
*
33011402 AATAATAATA
1 AATAAAAATA
33011412 AAAAAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAAAATACAATTTC
Found at i:33012145 original size:2 final size:2
Alignment explanation
Indices: 33012138--33012166 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33012128 ATTATGCAAC
33012138 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 A
33012167 AACCTCACTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33021591 original size:19 final size:19
Alignment explanation
Indices: 33021569--33021605 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33021559 TACCAAAATC
33021569 AAAATT-AAAGTTCTAAAAA
1 AAAATTAAAAGTTC-AAAAA
33021588 AAAATTAAAAGTTCAAAA
1 AAAATTAAAAGTTCAAAA
33021606 GTCTGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAATTAAAAGTTCAAAAA
Found at i:33022268 original size:18 final size:18
Alignment explanation
Indices: 33022238--33022282 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
33022228 GTGATTTGTA
**
33022238 TTCAAAA-GTTATTCTCT
1 TTCAAAACGTTATTAACT
*
33022255 TTCAAAACGTTATTAAGT
1 TTCAAAACGTTATTAACT
33022273 TTCAAAACGT
1 TTCAAAACGT
33022283 CACTTATTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (18 bp):
TTCAAAACGTTATTAACT
Found at i:33022418 original size:22 final size:20
Alignment explanation
Indices: 33022388--33022428 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
33022378 TAGCAGTTGT
33022388 AAATCAAAAGAATAAAAACCCC
1 AAATC-AAA-AATAAAAACCCC
*
33022410 AAATTAAAAATAAAAACCC
1 AAATCAAAAATAAAAACCC
33022429 AAAGAGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 3 0.17
22 4 0.22
ACGTcount: A:0.66, C:0.20, G:0.02, T:0.12
Consensus pattern (20 bp):
AAATCAAAAATAAAAACCCC
Found at i:33033040 original size:16 final size:16
Alignment explanation
Indices: 33033019--33033051 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33033009 CTAGACTAAA
33033019 ATTTTTTT-AATCCTAT
1 ATTTTTTTCAA-CCTAT
33033035 ATTTTTTTCAACCTAT
1 ATTTTTTTCAACCTAT
33033051 A
1 A
33033052 ACTTGATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTTTTCAACCTAT
Found at i:33036920 original size:41 final size:41
Alignment explanation
Indices: 33036838--33036935 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
33036828 GTTAATTATT
** * *
33036838 CCCTAAATTGCACATATGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTAAATTGCACATACATGCCCCTGATTATACTTCAGTAC
** **
33036879 CTTTAAATTGCACATACATGCCCCTGATTATACTTTGGTAC
1 CCCTAAATTGCACATACATGCCCCTGATTATACTTCAGTAC
*
33036920 CCCTGAATTGCACATA
1 CCCTAAATTGCACATA
33036936 TGTGCCATGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (41 bp):
CCCTAAATTGCACATACATGCCCCTGATTATACTTCAGTAC
Found at i:33042040 original size:7 final size:7
Alignment explanation
Indices: 33042028--33042054 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33042018 TTCGAACTTA
33042028 ATCAAAT
1 ATCAAAT
33042035 ATCAAAT
1 ATCAAAT
33042042 ATCAAAT
1 ATCAAAT
33042049 ATCAAA
1 ATCAAA
33042055 GAACTACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
ATCAAAT
Found at i:33046240 original size:3 final size:3
Alignment explanation
Indices: 33046226--33046305 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
33046216 CAAATAAAAC
*
33046226 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
33046272 TAA TAA TAA TAA TAA -AA CTAA T-T TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
33046306 GAAATAACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 3 0.04
3 61 0.88
4 5 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33047919 original size:44 final size:44
Alignment explanation
Indices: 33047813--33047973 Score: 148
Period size: 44 Copynumber: 3.7 Consensus size: 44
33047803 GATGCGATCT
* * * * *
33047813 GCTCTACTGCAA-CTTCAGAGAGATAAGATC-AATCATTTTAACCC
1 GCTCCACTGCAACCTT-AGGGAGATAAGATCTACT-ACTTTAATCC
*
33047857 GCTCCACTGCAACTTTAGGGAGATAAGATCTACTACTTTAATCC
1 GCTCCACTGCAACCTTAGGGAGATAAGATCTACTACTTTAATCC
* * ** * *
33047901 GCTCCTCTGCAACCTTAGGGAGATAGGAT-TATCGGCTTCAATCT
1 GCTCCACTGCAACCTTAGGGAGATAAGATCTA-CTACTTTAATCC
* *
33047945 ACTCCACTGCAACCTCAGGGAGATAAGAT
1 GCTCCACTGCAACCTTAGGGAGATAAGAT
33047974 TTGTATCTTC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.02
44 91 0.94
45 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACCTTAGGGAGATAAGATCTACTACTTTAATCC
Found at i:33047984 original size:44 final size:44
Alignment explanation
Indices: 33047858--33048067 Score: 131
Period size: 44 Copynumber: 4.8 Consensus size: 44
33047848 TTTTAACCCG
* * ** * *
33047858 CTCCACTGCAACTTTAGGGAGATAAGATCTACTA-CTTTAATCCG
1 CTCCACTGCAACCTCAGGGAGATAAGAT-TTGTATCTTCAATCCA
* * * * *
33047902 CTCCTCTGCAACCTTAGGGAGATAGGATTATCG--GCTTCAATCTA
1 CTCCACTGCAACCTCAGGGAGATAAGATT-T-GTATCTTCAATCCA
***
33047946 CTCCACTGCAACCTCAGGGAGATAAGATTTGTATCTTCAATTTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTTGTATCTTCAATCCA
* * * * * *
33047990 CCCCACTGCATCTTCAGGGGGATAAGACTTTGGT-TGTTCGATCCA
1 CTCCACTGCAACCTCAGGGAGATAAGA-TTT-GTATCTTCAATCCA
* ** *
33048035 CTCCACTGTAATATCAGGGAGATAGGATTTGTA
1 CTCCACTGCAACCTCAGGGAGATAAGATTTGTA
33048068 ACTCGTAACT
Statistics
Matches: 128, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 92 0.72
45 29 0.23
46 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACCTCAGGGAGATAAGATTTGTATCTTCAATCCA
Found at i:33048244 original size:125 final size:125
Alignment explanation
Indices: 33048100--33048587 Score: 807
Period size: 125 Copynumber: 3.9 Consensus size: 125
33048090 GATTCATCAT
* * * * * * *
33048100 TGTGGCTTTAATCTTTTTAACTGCAATATCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
*
33048165 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACGGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
33048225 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
* * *
33048290 TTCTACTGCATCGCTTGAGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
33048350 TGTGGCTTTAATATTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
33048415 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
33048475 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
* * * * *
33048540 TTTCACTACACCGCCTGGGAG-GTAAGATTCGCTGCTGTAGCTTTAATC
66 TTCCACTGCATCGCTTGGG-GCGTAAGATTCGCTGTTGTAGCTTTAATC
33048588 TTTTTTTAAC
Statistics
Matches: 341, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
125 340 1.00
126 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
Found at i:33048526 original size:50 final size:49
Alignment explanation
Indices: 33048462--33048640 Score: 162
Period size: 50 Copynumber: 3.6 Consensus size: 49
33048452 TAGCTTTAAT
*
33048462 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTA-GGGAGG
* * * * **
33048512 CAAGATTCACCGATGTGGTTTTAATCTGTTTCACTACACCGCCT-GGGAGG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATG--TAGGGAGG
* * * * * * *
33048562 TAAGATTCGCTGCTGTAGCTTTAATCTTTTTTTAACCGCAATGTCAGAGAGG
1 CAAGATTCACCGATGTGGCTTTAATC--TTTTTAACTGCAATGT-AGGGAGG
*
33048614 CAAGATTCACCGTTGTGGCTTTAATCT
1 CAAGATTCACCGATGTGGCTTTAATCT
33048641 ATTCCACTGC
Statistics
Matches: 98, Mismatches: 25, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
50 62 0.63
52 36 0.37
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (49 bp):
CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGAGG
Found at i:33048637 original size:102 final size:102
Alignment explanation
Indices: 33048463--33048694 Score: 299
Period size: 102 Copynumber: 2.3 Consensus size: 102
33048453 AGCTTTAATC
* * * * *
33048463 AAGATTCACCGATGTGGCTTTAATC--TTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGAT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTTTAACCGCAATGTAGGAGAAGCAAGATTCACCGAT
* * * *
33048526 GTGGTTTTAATCTGTTTCACTACACCGCCTGGGAGGT
66 GTGGCTTTAATCTATTCCACTACACCGCCTGGGAGAT
* * *
33048563 AAGATTCGCTGCTGTAGCTTTAATCTTTTTTTAACCGCAATGTCA-GAGAGGCAAGATTCACCGT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTTTAACCGCAATGT-AGGAGAAGCAAGATTCACCGA
*
33048627 TGTGGCTTTAATCTATTCCACTGCACCGCCTGGGAGAT
65 TGTGGCTTTAATCTATTCCACTACACCGCCTGGGAGAT
* *
33048665 AAGATTCGCTGATGTAGCTTCAATATTTTT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTT
33048695 AAATGCAATG
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
100 21 0.19
102 91 0.81
103 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (102 bp):
AAGATTCGCTGATGTAGCTTTAATCTTTTTTTAACCGCAATGTAGGAGAAGCAAGATTCACCGAT
GTGGCTTTAATCTATTCCACTACACCGCCTGGGAGAT
Found at i:33048747 original size:100 final size:100
Alignment explanation
Indices: 33048561--33049193 Score: 722
Period size: 100 Copynumber: 6.4 Consensus size: 100
33048551 CGCCTGGGAG
* * * ** * * * * * *
33048561 GTAAGATTCGCTGCTGTAGCTTTAATCTTTTTTTAACCGCAATGTCAGAGAGGCAAGATTCACCG
1 GTAAGATCCGCTGTTGTAGCTTCAATC--TTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTG
* * * * * *
33048626 TTGTGGCTTTAATCTATTCCACTGCACCGCCTGGGAGA
64 TTGTAGCTTCAATCTGTTCCACTGCAACG-CTAGGAAA
* * *
33048664 -TAAGATTCGCTGATGTAGCTTCAATATTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGTT
1 GTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGTT
33048728 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
66 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
* ** * * * *
33048763 ATAAGATCCATTGTTGTAGCCTT-AATCCTTTT-AA--C--TGCCGGGGAAATAAGATCCGCTGT
1 GTAAGATCCGCTGTTGTAG-CTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGT
*
33048822 TGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAA
65 TGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
* * *
33048858 GTAAGATCCGCTGTTGTAGCTTCAATCTTTTT-AA--C--TGCCGGGGAA--ACA-ATCCGCTAT
1 GTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAGTA-AGATCCGCTGT
* *
33048915 TGTAGCTTCAATCCGTTCCACTGCAACACTAGGAAA
65 TGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
* *
33048951 GTAAGATCCGCTGTTGTAACTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTT
1 GTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGTT
33049016 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
66 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
* * * * *
33049051 GTAAGATCCGCTATTGTAGCTTCAATCTTCTTAATTACAATGTCAGGGAAGTAAGATCTGCTGTT
1 GTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGTT
33049116 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
66 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
* * *
33049151 GTAAGATCCGCTGTTGTAGCTTTAATCTTCTT-AATACAATGTC
1 GTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTC
33049194 NNNNNNNNNN
Statistics
Matches: 470, Mismatches: 48, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
93 75 0.16
94 5 0.01
95 93 0.20
96 1 0.00
97 1 0.00
98 8 0.02
99 19 0.04
100 242 0.51
101 3 0.01
102 23 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (100 bp):
GTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGTT
GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAA
Found at i:33048752 original size:50 final size:49
Alignment explanation
Indices: 33048664--33049178 Score: 441
Period size: 50 Copynumber: 10.6 Consensus size: 49
33048654 GCCTGGGAGA
* * * * * * *
33048664 TAAGATTCGCTGATGTAGCTTCAATATTTTTAAATGCAATG-TCAGGGAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCT-AGGAAAG
* *
33048714 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAA
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCTAGGAAAG
** * **
33048764 TAAGATCCATTGTTGTAGCCTT-AATCCT-TTTAACTGC---CGGGGAAA-
1 TAAGATCCGCTGTTGTAG-CTTCAAT-CTGTTCAACTGCAAGCTAGGAAAG
* *
33048809 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCTAGGAAAG
* * **
33048859 TAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGC---CGGGGAAA-
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAAGCTAGGAAAG
* * * * *
33048904 -CA-ATCCGCTATTGTAGCTTCAATCCGTTCCACTGCAACACTAGGAAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCTAGGAAAG
* * * * *
33048952 TAAGATCCGCTGTTGTAACTTCAATCTTTTTAATTGCAATG-TCAGGGAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCT-AGGAAAG
*
33049002 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCTAGGAAAG
* * * * *
33049052 TAAGATCCGCTATTGTAGCTTCAATCT-TCTTAATTACAATG-TCAGGGAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGT-TCAACTGCAA-GCT-AGGAAAG
* *
33049102 TAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAG
1 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA-GCTAGGAAAG
*
33049152 TAAGATCCGCTGTTGTAGCTTTAATCT
1 TAAGATCCGCTGTTGTAGCTTCAATCT
33049179 TCTTAATACA
Statistics
Matches: 372, Mismatches: 70, Indels: 46
0.76 0.14 0.09
Matches are distributed among these distances:
43 28 0.08
44 6 0.02
45 26 0.07
46 12 0.03
47 6 0.02
49 10 0.03
50 275 0.74
51 9 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (49 bp):
TAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAAGCTAGGAAAG
Found at i:33049059 original size:193 final size:195
Alignment explanation
Indices: 33048664--33049193 Score: 657
Period size: 193 Copynumber: 2.7 Consensus size: 195
33048654 GCCTGGGAGA
* * * * * *
33048664 TAAGATTCGCTGA-TGTAGCTTCAATATTTTTAAATGCAATGTCAGGGAAGTAAGATCCGCTGTT
1 TAAGATCCGCT-ATTGTAGCTTCAATCTTCTT-ATTACAATGCCAGGGAAG-AAGATCCGCTGTT
* ** * *
33048728 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAATAAGATCCATTGTTGTAGCCTTAATCCTT
63 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA-ACTTAATCTTT
* *
33048793 TTAA-C--TGCCGGGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGG
127 TTAATCAATGTCAGGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGG
33048855 AAAG
192 AAAG
* * * *
33048859 TAAGATCCGCTGTTGTAGCTTCAATC-T-TT-TTA-ACTGCCGGGGAA-ACA-ATCCGCTATTGT
1 TAAGATCCGCTATTGTAGCTTCAATCTTCTTATTACAATGCCAGGGAAGA-AGATCCGCTGTTGT
* *
33048918 AGCTTCAATCCGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAACTTCAATCTTTTT
65 AGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAACTT-AATCTTTTT
* *
33048983 AATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGG
129 AA-T-CAATGTCAGGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGG
33049048 AAAG
192 AAAG
* *
33049052 TAAGATCCGCTATTGTAGCTTCAATCTTCTTAATTACAATGTCAGGGAAGTAAGATCTGCTGTTG
1 TAAGATCCGCTATTGTAGCTTCAATCTTCTT-ATTACAATGCCAGGGAAG-AAGATCCGCTGTTG
* *
33049117 TAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTTAATCTTCT
64 TAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAAC-TTAATCTTTT
33049182 TAATACAATGTC
128 TAAT-CAATGTC
33049194 NNNNNNNNNN
Statistics
Matches: 287, Mismatches: 31, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
187 3 0.01
188 68 0.24
189 1 0.00
190 9 0.03
191 2 0.01
193 84 0.29
194 2 0.01
195 24 0.08
197 3 0.01
198 9 0.03
199 9 0.03
200 71 0.25
201 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (195 bp):
TAAGATCCGCTATTGTAGCTTCAATCTTCTTATTACAATGCCAGGGAAGAAGATCCGCTGTTGTA
GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAACTTAATCTTTTTAA
TCAATGTCAGGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAG
Found at i:33053420 original size:21 final size:21
Alignment explanation
Indices: 33053394--33053440 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
33053384 GGTATAGCAA
33053394 GATCACCACATGCCCCGA-TCT
1 GATCACCACATGCCCC-ATTCT
**
33053415 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCATTCT
33053436 GATCA
1 GATCA
33053441 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCATTCT
Found at i:33053550 original size:15 final size:14
Alignment explanation
Indices: 33053523--33053559 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
33053513 TTAGCCTCTC
*
33053523 CATTTTTACTTTTT
1 CATTTTTTCTTTTT
33053537 CATTTTTTCATTTTT
1 CATTTTTTC-TTTTT
33053552 CATTTTTT
1 CATTTTTT
33053560 TCATCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (14 bp):
CATTTTTTCTTTTT
Found at i:33054439 original size:9 final size:9
Alignment explanation
Indices: 33054425--33054468 Score: 79
Period size: 9 Copynumber: 4.8 Consensus size: 9
33054415 TGACTTTGGT
33054425 TTTTTTTGA
1 TTTTTTTGA
33054434 TTTTTTTGA
1 TTTTTTTGA
33054443 TTTTTTTTGA
1 -TTTTTTTGA
33054453 TTTTTTTGA
1 TTTTTTTGA
33054462 TTTTTTT
1 TTTTTTT
33054469 TGTTTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:33054446 original size:19 final size:18
Alignment explanation
Indices: 33054419--33054495 Score: 97
Period size: 19 Copynumber: 4.3 Consensus size: 18
33054409 TATTTTTGAC
*
33054419 TTTGGTTTTTTTTGATTTT
1 TTTGATTTTTTTTG-TTTT
33054438 TTTGATTTTTTTTGATTTT
1 TTTGATTTTTTTTG-TTTT
33054457 TTTGATTTTTTTTG-TTT
1 TTTGATTTTTTTTGTTTT
33054474 TTTG-TTTTTGTTT-TTTT
1 TTTGATTTTT-TTTGTTTT
33054491 TTTGA
1 TTTGA
33054496 GTCTGAACTC
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
16 5 0.09
17 17 0.31
19 32 0.59
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (18 bp):
TTTGATTTTTTTTGTTTT
Found at i:33054474 original size:9 final size:9
Alignment explanation
Indices: 33054423--33054494 Score: 78
Period size: 9 Copynumber: 8.1 Consensus size: 9
33054413 TTTGACTTTG
33054423 GTTTTTTTT
1 GTTTTTTTT
*
33054432 GATTTTTTT
1 GTTTTTTTT
33054441 GATTTTTTTT
1 G-TTTTTTTT
*
33054451 GATTTTTTT
1 GTTTTTTTT
33054460 GATTTTTTTT
1 G-TTTTTTTT
33054470 G--TTTTTT
1 GTTTTTTTT
*
33054477 GTTTTTGTT
1 GTTTTTTTT
33054486 -TTTTTTTT
1 GTTTTTTTT
33054494 G
1 G
33054495 AGTCTGAACT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.13
8 7 0.13
9 22 0.42
10 16 0.31
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:33054492 original size:10 final size:10
Alignment explanation
Indices: 33054419--33054492 Score: 62
Period size: 10 Copynumber: 7.3 Consensus size: 10
33054409 TATTTTTGAC
*
33054419 TTTGGTTTTT
1 TTTGTTTTTT
*
33054429 TTTG-ATTTT
1 TTTGTTTTTT
*
33054438 TTTGATTTTT
1 TTTGTTTTTT
*
33054448 TTTG-ATTTT
1 TTTGTTTTTT
33054457 TTTGATTTTTT
1 TTTG-TTTTTT
*
33054468 TTGTTTTTTGTT
1 TT-TGTTTT-TT
33054480 TTTGTTTTTT
1 TTTGTTTTTT
33054490 TTT
1 TTT
33054493 TGAGTCTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
9 16 0.30
10 17 0.32
11 15 0.28
12 5 0.09
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.82
Consensus pattern (10 bp):
TTTGTTTTTT
Found at i:33058920 original size:12 final size:12
Alignment explanation
Indices: 33058905--33058936 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
33058895 TAATGAAAAT
33058905 ATAAATAAAGAA
1 ATAAATAAAGAA
33058917 ATAAATAAAGAA
1 ATAAATAAAGAA
*
33058929 ATGAATAA
1 ATAAATAA
33058937 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:33059168 original size:2 final size:2
Alignment explanation
Indices: 33059161--33059201 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
33059151 AGTAGAAAGC
*
33059161 AT AT AT AT AG 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 AT A
33059202 ATAAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:33059291 original size:3 final size:3
Alignment explanation
Indices: 33059277--33059353 Score: 104
Period size: 3 Copynumber: 25.7 Consensus size: 3
33059267 CAAATAAAAC
*
33059277 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
33059323 TAA TAA TAA TAA -AA CTAA T-T TAA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
33059354 GAAATAACAA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 3 0.05
3 58 0.88
4 5 0.08
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33060583 original size:21 final size:21
Alignment explanation
Indices: 33060559--33060604 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
33060549 GGGCTTCTAC
* *
33060559 ATTAATTATTTATAAAATTTA
1 ATTAAATATTAATAAAATTTA
* *
33060580 ATTAAATATTAATACAATTTT
1 ATTAAATATTAATAAAATTTA
33060601 ATTA
1 ATTA
33060605 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAAATATTAATAAAATTTA
Found at i:33065981 original size:36 final size:38
Alignment explanation
Indices: 33065939--33066020 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
33065929 TATAGTATTA
* *
33065939 TATATTATG-ATTTTCGTAAATT-TATATAAGAATAAT
1 TATATTAAGAATTTTAGTAAATTATATATAAGAATAAT
* * *
33065975 TATATTAAGAATTTTATTAAATTATATTTAATAATAAT
1 TATATTAAGAATTTTAGTAAATTATATATAAGAATAAT
*
33066013 TATGTTAA
1 TATATTAA
33066021 AATATGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 8 0.21
37 11 0.29
38 19 0.50
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (38 bp):
TATATTAAGAATTTTAGTAAATTATATATAAGAATAAT
Found at i:33066011 original size:38 final size:37
Alignment explanation
Indices: 33065955--33066036 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
33065945 ATGATTTTCG
* *
33065955 TAAATT-TATATAAGAATAATTATATTAAGAATTTTAT
1 TAAATTATATATAAGAATAATTATATTAA-AATATGAT
* * *
33065992 TAAATTATATTTAATAATAATTATGTTAAAATATGAT
1 TAAATTATATATAAGAATAATTATATTAAAATATGAT
33066029 TAAATTAT
1 TAAATTAT
33066037 TTATTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 20 0.51
38 19 0.49
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (37 bp):
TAAATTATATATAAGAATAATTATATTAAAATATGAT
Found at i:33066790 original size:15 final size:15
Alignment explanation
Indices: 33066772--33066827 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
33066762 AAAATTAAAA
33066772 ATTTATATTTATATT
1 ATTTATATTTATATT
33066787 ATTTATAATTTA-A-T
1 ATTTAT-ATTTATATT
*
33066801 ATTTAATAATTATATT
1 ATTT-ATATTTATATT
*
33066817 -TTTTTATTTAT
1 ATTTATATTTAT
33066828 TAAAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
14 15 0.44
15 13 0.38
16 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATATTTATATT
Found at i:33068341 original size:25 final size:23
Alignment explanation
Indices: 33068313--33068360 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
33068303 ACACACACAT
33068313 AAATTTTAAAAATGAAAAATAGAGG
1 AAATTTTAAAAAT-AAAAA-AGAGG
* *
33068338 AAATTTTCAAACTAAAAAAGAGG
1 AAATTTTAAAAATAAAAAAGAGG
33068361 GCTCAGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (23 bp):
AAATTTTAAAAATAAAAAAGAGG
Found at i:33068788 original size:132 final size:132
Alignment explanation
Indices: 33068551--33068800 Score: 387
Period size: 132 Copynumber: 1.9 Consensus size: 132
33068541 AGAAAAATAG
* * * *
33068551 ATAGAAGAGATGAACAAGAGAAGGCGGCGTCTATCGGTTGAGAGAGCCAGATATTTAAAGGGGAA
1 ATAGAAGAGATGAACAAGAGAAGGCGGCGACTAACGGTTAAGAGAGCCAGATATTTAAAGGGAAA
*
33068616 GAAATGAGAAGGTATAGGGTTTAAGTTTAGGTATTATGACAAATTTAACCTTTTACCTCTTCTAT
66 GAAATGAGAAGGTATAGGGTTTAAGTTTAGGTATAATGACAAATTTAACCTTTTACCTCTTCTAT
33068681 CA
131 CA
* *
33068683 ATAGAAGAGATGAACAGGAGAAGGCGGCGGAC-AACGGTTAAGATAGCCAGATATTTAAAGGGAA
1 ATAGAAGAGATGAACAAGAGAAGGCGGC-GACTAACGGTTAAGAGAGCCAGATATTTAAAGGGAA
* *
33068747 AGAAATGAGAAGGTATAGGGTTTAA-TATTAGGTGTAATGACAATTTTAACCTTT
65 AGAAATGAGAAGGTATAGGGTTTAAGT-TTAGGTATAATGACAAATTTAACCTTT
33068801 AATTTTTACA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 1 0.01
132 104 0.97
133 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.26
Consensus pattern (132 bp):
ATAGAAGAGATGAACAAGAGAAGGCGGCGACTAACGGTTAAGAGAGCCAGATATTTAAAGGGAAA
GAAATGAGAAGGTATAGGGTTTAAGTTTAGGTATAATGACAAATTTAACCTTTTACCTCTTCTAT
CA
Found at i:33073240 original size:30 final size:27
Alignment explanation
Indices: 33073183--33073248 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 27
33073173 AAAATTGATG
*
33073183 TTTTTTTTTTTTTTGCTTTCTTGTTGT
1 TTTTTTTTTTTTTTGCTTTCTTCTTGT
33073210 TTTTTTATTGTTTTGTTGCTATT-TTCTTGT
1 TTTTTT-TT-TTTT-TTGCT-TTCTTCTTGT
33073240 TTTTTTTTT
1 TTTTTTTTT
33073249 CACTATTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
29 6 0.18
30 17 0.50
31 2 0.06
ACGTcount: A:0.03, C:0.06, G:0.11, T:0.80
Consensus pattern (27 bp):
TTTTTTTTTTTTTTGCTTTCTTCTTGT
Found at i:33073258 original size:34 final size:33
Alignment explanation
Indices: 33073199--33073274 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 33
33073189 TTTTTTTTGC
* * * *
33073199 TTTCTTGTTGTTTTTTTATTGTTTTGTTGCTAT
1 TTTCTTGTTGTTTTTTTACTATTTTGCTACTAT
*
33073232 TTTCTTGTTTTTTTTTTCACTATTTTGCTACTAT
1 TTTCTTGTTGTTTTTTT-ACTATTTTGCTACTAT
*
33073266 TTTGTTGTT
1 TTTCTTGTT
33073275 ATTGTTTGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 16 0.44
34 20 0.56
ACGTcount: A:0.08, C:0.09, G:0.12, T:0.71
Consensus pattern (33 bp):
TTTCTTGTTGTTTTTTTACTATTTTGCTACTAT
Found at i:33074178 original size:20 final size:21
Alignment explanation
Indices: 33074134--33074180 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
33074124 AATATATAAA
33074134 ATAAAAA-AACACAAAAAATC
1 ATAAAAATAACACAAAAAATC
* *
33074154 -CAAAAATAACA-AAAAAGTC
1 ATAAAAATAACACAAAAAATC
33074173 ATAAAAAT
1 ATAAAAAT
33074181 CTCAAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.72, C:0.13, G:0.02, T:0.13
Consensus pattern (21 bp):
ATAAAAATAACACAAAAAATC
Found at i:33074260 original size:17 final size:18
Alignment explanation
Indices: 33074237--33074281 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
33074227 AAAAAATTAA
33074237 AAATATAT-TTGTCTTTTT
1 AAATATATATT-TCTTTTT
33074255 -AATATATACTTTCTTTTT
1 AAATATATA-TTTCTTTTT
33074273 AAATATATA
1 AAATATATA
33074282 ATAAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (18 bp):
AAATATATATTTCTTTTT
Found at i:33079373 original size:19 final size:20
Alignment explanation
Indices: 33079349--33079393 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
33079339 TTGAATTCGT
*
33079349 AAAAAACAACAAAAA-AGTA
1 AAAAAACAACAAAAATAATA
* *
33079368 AAAAAATAATAAAAATAATA
1 AAAAAACAACAAAAATAATA
33079388 AAAAAA
1 AAAAAA
33079394 ACGTCAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAAACAACAAAAATAATA
Found at i:33085998 original size:18 final size:17
Alignment explanation
Indices: 33085965--33086003 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33085955 TTTTATAAAT
33085965 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
33085983 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
33086000 TGTG
1 TGTG
33086004 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:33086256 original size:23 final size:23
Alignment explanation
Indices: 33086229--33086350 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
33086219 AGTGTTATTG
33086229 ATCAGTGGTAGCTTCGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
* *
33086251 ATTCAGTGGTAGCTACGGCTCCAT
1 A-TCAGTGGTAGCTTCGGCTACAT
*
33086275 ATCAGTGGTAGCTTCGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
33086298 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
33086321 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
33086344 ATCAGTG
1 ATCAGTG
33086351 TGGCACTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.98
24 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:33086282 original size:46 final size:46
Alignment explanation
Indices: 33086229--33086350 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
33086219 AGTGTTATTG
*
33086229 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
* * *
33086275 ATCAGTGGTAGCTTCGGCTCCATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
33086321 ATCAGTGGTAGCTTCGGCTAC-ATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACAAT-TCAGTG
33086351 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
Found at i:33094216 original size:31 final size:31
Alignment explanation
Indices: 33094174--33094236 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
33094164 CACCAAAGTA
33094174 AGTTACCTGTAAATAATAGCAATATATTTTT
1 AGTTACCTGTAAATAATAGCAATATATTTTT
*
33094205 AGTTACTTGTAAATAATAGCAATATATTTTT
1 AGTTACCTGTAAATAATAGCAATATATTTTT
33094236 A
1 A
33094237 TAAATTGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTACCTGTAAATAATAGCAATATATTTTT
Found at i:33094550 original size:22 final size:23
Alignment explanation
Indices: 33094498--33094572 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
33094488 AGTATTATTG
33094498 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
33094521 TTCAGTGGTAGCTACGGCTAC-T
1 ATCAGTGGTAGCTTCGGCTACAT
33094543 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
33094566 ATCAGTG
1 ATCAGTG
33094573 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
22 20 0.43
23 27 0.57
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:33095601 original size:2 final size:2
Alignment explanation
Indices: 33095594--33095624 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33095584 TGTATTATTC
33095594 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33095625 TCATGGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33100208 original size:29 final size:30
Alignment explanation
Indices: 33100150--33100208 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
33100140 GATGGGAGGA
* * **
33100150 GAATAAAAGTTTTAGGGGAAAAGTGGAAGG
1 GAATAAAAATTTTAGGGGAAAAATAAAAGG
33100180 GAATAAAAATTTT-GGGGAAAAATAAAAGG
1 GAATAAAAATTTTAGGGGAAAAATAAAAGG
33100209 TTTTGAGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (30 bp):
GAATAAAAATTTTAGGGGAAAAATAAAAGG
Found at i:33100429 original size:9 final size:9
Alignment explanation
Indices: 33100415--33100451 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33100405 TATAGTTTGA
33100415 TATTCGAAT
1 TATTCGAAT
33100424 TATTCGAAT
1 TATTCGAAT
*
33100433 TATTCGAGT
1 TATTCGAAT
33100442 TATTCGAAT
1 TATTCGAAT
33100451 T
1 T
33100452 CGAAAGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33100524 original size:9 final size:9
Alignment explanation
Indices: 33100507--33100537 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33100497 TCGAGTTGAT
33100507 TCGAATAAC
1 TCGAATAAC
*
33100516 TCGATTAAC
1 TCGAATAAC
33100525 TCGAATAAC
1 TCGAATAAC
33100534 TCGA
1 TCGA
33100538 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:33103666 original size:2 final size:2
Alignment explanation
Indices: 33103659--33103688 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33103649 ATAGTTTCCT
33103659 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
33103689 ACAAATCCAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:33110628 original size:26 final size:25
Alignment explanation
Indices: 33110599--33110648 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
33110589 TTTTATAATC
* *
33110599 TATATATGTATATAATTATTTTTTTA
1 TATATATGTACAT-ATTATATTTTTA
33110625 TATATATGTACATATTATATTTTT
1 TATATATGTACATATTATATTTTT
33110649 CAATTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
TATATATGTACATATTATATTTTTA
Found at i:33115388 original size:23 final size:22
Alignment explanation
Indices: 33115343--33115390 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
33115333 CAAGTATTAC
*
33115343 TAAAATGTTAGAATGATAAATA
1 TAAAATGTTAAAATGATAAATA
* *
33115365 TAAAATTTTAAAATTGATACATA
1 TAAAATGTTAAAA-TGATAAATA
33115388 TAA
1 TAA
33115391 TGTAACCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (22 bp):
TAAAATGTTAAAATGATAAATA
Found at i:33118194 original size:21 final size:21
Alignment explanation
Indices: 33118170--33118210 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33118160 TCATTAAGCC
33118170 ATTAGATTAAA-AACTAATTAG
1 ATTA-ATTAAATAACTAATTAG
*
33118191 ATTAATTAAATTACTAATTA
1 ATTAATTAAATAACTAATTA
33118211 TTAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (21 bp):
ATTAATTAAATAACTAATTAG
Found at i:33119967 original size:69 final size:69
Alignment explanation
Indices: 33119856--33119995 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 69
33119846 GGAGAAGGGC
* * *
33119856 TAATAGGGTGTGATTCCCCTCATATGTATTATGATGAGGATTCGAGTATCTCATTGTATTGGGCA
1 TAATAGAGTGTGATTCCCCTCATATGTATTATGATGAGGATTCGAGCATCTCATTGTATTGAGCA
*
33119921 TAAT
66 CAAT
* * * * * *
33119925 TAATAGAGTGTGCTTCCCCTTATATGTATTATGATGGGGATTCGGGCCTTTCATTGTATTGAGCA
1 TAATAGAGTGTGATTCCCCTCATATGTATTATGATGAGGATTCGAGCATCTCATTGTATTGAGCA
33119990 CAAT
66 CAAT
33119994 TA
1 TA
33119996 TATGTGTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TAATAGAGTGTGATTCCCCTCATATGTATTATGATGAGGATTCGAGCATCTCATTGTATTGAGCA
CAAT
Found at i:33124384 original size:4 final size:4
Alignment explanation
Indices: 33124375--33124401 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33124365 AAACTAAGTA
33124375 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
33124402 ACTTTACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:33128288 original size:18 final size:18
Alignment explanation
Indices: 33128265--33128307 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33128255 ACCCAATCTA
**
33128265 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
33128283 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
33128301 AACCCAA
1 AACCCAA
33128308 TCATAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:33128429 original size:9 final size:9
Alignment explanation
Indices: 33128415--33128481 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
33128405 GTAGTGATTC
*
33128415 AATTTGGTT
1 AATTCGGTT
*
33128424 AATTTGGTT
1 AATTCGGTT
*
33128433 AATTCGGGT
1 AATTCGGTT
33128442 AATTCGGTT
1 AATTCGGTT
*
33128451 AATTCGGGT
1 AATTCGGTT
33128460 AATTCGGTT
1 AATTCGGTT
33128469 AATTCGGTT
1 AATTCGGTT
33128478 AATT
1 AATT
33128482 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:33131422 original size:7 final size:7
Alignment explanation
Indices: 33131410--33131439 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
33131400 TCTATATATT
33131410 TAAATTA
1 TAAATTA
33131417 TAAATTA
1 TAAATTA
33131424 TAAATTA
1 TAAATTA
33131431 TAAATTA
1 TAAATTA
33131438 TA
1 TA
33131440 TGAATGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATTA
Found at i:33131771 original size:3 final size:3
Alignment explanation
Indices: 33131763--33131797 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33131753 ATAAAAGGAA
33131763 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33131798 AGTTAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33136867 original size:22 final size:21
Alignment explanation
Indices: 33136834--33136877 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
33136824 CAAATATAAG
*
33136834 TATTGTATTAACCAAATCATT
1 TATTGAATTAACCAAATCATT
33136855 TATTGAATATAACCAAATCATT
1 TATTGAAT-TAACCAAATCATT
33136877 T
1 T
33136878 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (21 bp):
TATTGAATTAACCAAATCATT
Found at i:33137488 original size:13 final size:13
Alignment explanation
Indices: 33137466--33137516 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
33137456 ACACTCAAAT
*
33137466 TTCTCAAAAGCAG
1 TTCTCAAAAGCAC
*
33137479 TTCTCCAAAGCAC
1 TTCTCAAAAGCAC
*
33137492 TTCTCCAAAGCAC
1 TTCTCAAAAGCAC
33137505 TTCTCAAAAGCA
1 TTCTCAAAAGCA
33137517 ATAAAGAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:33139347 original size:3 final size:3
Alignment explanation
Indices: 33139339--33139369 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33139329 CTGAAGTTGG
33139339 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
33139370 TTATTATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:33153325 original size:44 final size:44
Alignment explanation
Indices: 33153262--33153378 Score: 198
Period size: 44 Copynumber: 2.7 Consensus size: 44
33153252 GGTCACGAAC
33153262 CCTATTTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGT
1 CCTATTTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGT
* *
33153306 CCTATTTCCCTGAAGTTGCAGTGGAGGAGGTTGAGGATACAAGT
1 CCTATTTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGT
* *
33153350 CTTATTTCCCTGAAGATGCAGTGGAGTAG
1 CCTATTTCCCTGAAGTTGCAGTGGAGTAG
33153379 ACTGAAAACA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (44 bp):
CCTATTTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGT
Found at i:33155236 original size:12 final size:13
Alignment explanation
Indices: 33155210--33155250 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
33155200 ATGTATTATC
*
33155210 ATTTATTATTATT
1 ATTTATTAATATT
33155223 ATTTA-TAATATT
1 ATTTATTAATATT
*
33155235 A-TTATTTATATT
1 ATTTATTAATATT
33155247 ATTT
1 ATTT
33155251 TTATTTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 3 0.12
12 14 0.58
13 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTATTAATATT
Found at i:33155236 original size:15 final size:15
Alignment explanation
Indices: 33155203--33155270 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
33155193 TACTTTAATG
*
33155203 TATTATCATTTAT--
1 TATTATTATTTATAA
33155216 TATTATTATTTATAA
1 TATTATTATTTATAA
*
33155231 TATTATTATTTATAT
1 TATTATTATTTATAA
* *
33155246 TATTTTTATTTATCA
1 TATTATTATTTATAA
*
33155261 TACTATTATT
1 TATTATTATT
33155271 ATATGATAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
13 12 0.26
15 34 0.74
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTATTTATAA
Found at i:33155249 original size:30 final size:29
Alignment explanation
Indices: 33155213--33155316 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 29
33155203 TATTATCATT
*
33155213 TATTATTATTATTTATAATATTATTATTTA
1 TATTATTATTATTTATAATACTATTA-TTA
* *
33155243 TATTATTTTTATTTATCATACTATTATTA
1 TATTATTATTATTTATAATACTATTATTA
* *
33155272 TATGA-TAGTT-TTGATATACATAC-ATGTATAA
1 TATTATTA-TTATT--TATA-ATACTAT-TATTA
33155303 TATTATTATTATTT
1 TATTATTATTATTT
33155317 CTTTTTTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
28 3 0.05
29 9 0.15
30 29 0.49
31 14 0.24
32 4 0.07
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (29 bp):
TATTATTATTATTTATAATACTATTATTA
Found at i:33165316 original size:26 final size:26
Alignment explanation
Indices: 33165280--33165331 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
33165270 AAGCCCATGT
33165280 ATGCAAATCAGACAGAGTGTGAAGAA
1 ATGCAAATCAGACAGAGTGTGAAGAA
33165306 ATGCAAATCAGACAGAGTGTGAAGAA
1 ATGCAAATCAGACAGAGTGTGAAGAA
33165332 CTTGATGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.27, T:0.15
Consensus pattern (26 bp):
ATGCAAATCAGACAGAGTGTGAAGAA
Found at i:33170238 original size:26 final size:22
Alignment explanation
Indices: 33170193--33170240 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
33170183 TGTAAATCAG
33170193 AAAATATCTCTAGAAATTTTCT
1 AAAATATCTCTAGAAATTTTCT
33170215 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAAT-ATCTC-T-AGA-AATTTTCT
33170241 CTTTACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 5 0.23
24 1 0.05
25 3 0.14
26 8 0.36
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (22 bp):
AAAATATCTCTAGAAATTTTCT
Found at i:33170488 original size:25 final size:24
Alignment explanation
Indices: 33170460--33170509 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
33170450 TAAATTTCTA
*
33170460 TTAAGATAATCACT-TTAATATTAAG
1 TTAAGAAAAT-ACTATTAATA-TAAG
*
33170485 TTAATAAAATACTATTAATATAAG
1 TTAAGAAAATACTATTAATATAAG
33170509 T
1 T
33170510 ATTGAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
TTAAGAAAATACTATTAATATAAG
Found at i:33172613 original size:38 final size:38
Alignment explanation
Indices: 33172511--33172617 Score: 108
Period size: 38 Copynumber: 2.8 Consensus size: 38
33172501 TGTAATAGAA
* * * * *
33172511 CAATTCAACACTACCAGTAAACATGTTTAACATGTATT
1 CAATTCAACATTAGCAATCAACATGCTTAACATGTATT
*
33172549 CAATTCAACATTGGCAATCAACATGCTTAACATGTATT
1 CAATTCAACATTAGCAATCAACATGCTTAACATGTATT
* * * *
33172587 CACTTTAACATTAGTAAT-AGATATGCTTAAC
1 CAATTCAACATTAGCAATCA-ACATGCTTAAC
33172618 GTGCACTTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 1 0.02
38 56 0.98
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (38 bp):
CAATTCAACATTAGCAATCAACATGCTTAACATGTATT
Found at i:33173062 original size:20 final size:21
Alignment explanation
Indices: 33173025--33173072 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
33173015 CATGGTGCAC
*
33173025 AAAAATAAATAAAAAAAGAAA
1 AAAAAGAAATAAAAAAAGAAA
* *
33173046 AAAAAGAAA-AAACAAAGAGA
1 AAAAAGAAATAAAAAAAGAAA
*
33173066 AAGAAGA
1 AAAAAGA
33173073 GAGACTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAAAGAAATAAAAAAAGAAA
Found at i:33173507 original size:21 final size:21
Alignment explanation
Indices: 33173485--33173534 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
33173475 AAATAACTTA
*
33173485 TATATTAATTAAA-A-TTTAC
1 TATATTTATTAAATATTTTAC
33173504 TATATTTATTAAATATTTTAC
1 TATATTTATTAAATATTTTAC
33173525 TAT-TTTATTA
1 TATATTTATTA
33173535 GAGTAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.43
20 8 0.29
21 8 0.29
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATTTATTAAATATTTTAC
Found at i:33174426 original size:12 final size:12
Alignment explanation
Indices: 33174409--33174434 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33174399 CAAAACAGGC
33174409 TTTTAGCGGCGT
1 TTTTAGCGGCGT
33174421 TTTTAGCGGCGT
1 TTTTAGCGGCGT
33174433 TT
1 TT
33174435 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:33174468 original size:41 final size:38
Alignment explanation
Indices: 33174423--33174514 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 38
33174413 AGCGGCGTTT
33174423 TTAGCGGCGTTTGGACAAAAAACGCCGCTAAAAATGGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCGCTAAAAAT-GAGCA
** *
33174464 TTAGCGGCGCTTTACGTAAAGCGCCGCTAAAAATGAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCGCTAAAAATGAGCA
*
33174503 TTACCGGCGTTT
1 TTAGCGGCGTTT
33174515 TTTGGAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.07
39 13 0.28
40 18 0.39
41 9 0.20
42 3 0.07
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (38 bp):
TTAGCGGCGTTTACAAAAAACGCCGCTAAAAATGAGCA
Found at i:33174529 original size:40 final size:40
Alignment explanation
Indices: 33174440--33174536 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
33174430 CGTTTGGACA
*
33174440 AAAAACGCCGCTAAAAATGGAGCATTAGCGGCGCTTTACG
1 AAAAACGCCGCTAAAAATGGAGCATTACCGGCGCTTTACG
* * * **
33174480 TAAAGCGCCGCTAAAAAT-GAGCATTACCGGCGTTTTTTGG
1 AAAAACGCCGCTAAAAATGGAGCATTACCGGCG-CTTTACG
33174520 AAAAACGCCGCTAAAAA
1 AAAAACGCCGCTAAAAA
33174537 CCTAAGCACA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 13 0.27
40 35 0.73
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATGGAGCATTACCGGCGCTTTACG
Found at i:33174649 original size:41 final size:41
Alignment explanation
Indices: 33174573--33174722 Score: 219
Period size: 41 Copynumber: 3.6 Consensus size: 41
33174563 CCTTTCGGGA
*
33174573 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGCTCAGAT
* *
33174615 CTTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
** * **
33174656 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
33174697 CTTTAGCGGCGTTTTTGAAAAAGCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGC
33174723 TGCAAAAACA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 82 0.84
42 16 0.16
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:33174870 original size:26 final size:26
Alignment explanation
Indices: 33174822--33174871 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
33174812 AAAATGTATA
** *
33174822 AATTTGAAATAATGACACGTAGAAGT
1 AATTTGAAATAAAAACACATAGAAGT
*
33174848 AATTTGAAATAAAAATACATAGAA
1 AATTTGAAATAAAAACACATAGAA
33174872 AAATATTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (26 bp):
AATTTGAAATAAAAACACATAGAAGT
Found at i:33175411 original size:89 final size:89
Alignment explanation
Indices: 33175236--33175400 Score: 242
Period size: 89 Copynumber: 1.9 Consensus size: 89
33175226 TTCAGTGTTA
* *
33175236 GGTTAGGGGTTAGGGTTTAGATTAATTAGTATGTTTTAATTTATATATTAAATAATGTTAAGGGG
1 GGTTAGGGGTTAGGATTTAGATTAATTAGTATGTTTTAATTTATATATTAAATAAGGTTAAGGGG
*
33175301 TTAGGGGTTAGAGATTCGGGGTCG
66 TTAGGGGTCAGAGATTCGGGGTCG
* * * *
33175325 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTGT-AGGG
1 GGTTAGGGGTTAGGATTTAGATTAATTAGTATGTTTTAATTTATATATTAAATAAGGT-TAAGGG
*
33175389 GTTAGTGGTCAG
65 GTTAGGGGTCAG
33175401 GGGTTTGGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 66 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (89 bp):
GGTTAGGGGTTAGGATTTAGATTAATTAGTATGTTTTAATTTATATATTAAATAAGGTTAAGGGG
TTAGGGGTCAGAGATTCGGGGTCG
Found at i:33176150 original size:147 final size:143
Alignment explanation
Indices: 33175911--33176198 Score: 445
Period size: 147 Copynumber: 2.0 Consensus size: 143
33175901 GATTTTTAGC
* * *
33175911 ATAGCAAAATAGTGTCGTTTTATTCCAAATGAAATAAGTTTTTGCGGCGTTTTTGATAAAAACGC
1 ATAGCAAAACAGAGTCGTTTTATTCAAAATGAAATAAGTTTTTGCGGCGTTTTTGATAAAAACGC
33175976 CGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTAC-TTTAAA
66 CGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCAC--AAAA-AA-TTTACTTTTAAA
33176040 AAAATAGCGCCATTTTAT
127 AAAATAG-GCCATTTTAT
* *
33176058 ATAGCAAAACAGAGTCGTTTTATTCAAAATGAAATAATTTTTTGCGGCGTTTTT-CTGAAAAACG
1 ATAGCAAAACAGAGTCGTTTTATTCAAAATGAAATAAGTTTTTGCGGCGTTTTTGAT-AAAAACG
* *
33176122 CCGCAAAAGGTAAGCAATAGCGGTGTTTTTATTAAAAACGCCACAAAAAATTTACTTTTAAAAAA
65 CCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATTTACTTTTAAAAAA
33176187 ATAGGCCATTTT
130 ATAGGCCATTTT
33176199 TTAAAATCCC
Statistics
Matches: 132, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
143 13 0.10
144 15 0.11
145 4 0.03
146 1 0.01
147 99 0.75
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (143 bp):
ATAGCAAAACAGAGTCGTTTTATTCAAAATGAAATAAGTTTTTGCGGCGTTTTTGATAAAAACGC
CGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATTTACTTTTAAAAAAA
TAGGCCATTTTAT
Found at i:33176242 original size:22 final size:22
Alignment explanation
Indices: 33176217--33176274 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
33176207 CCCTCCCCCC
33176217 AAAATCCCCAACTTTCCCGCC-T
1 AAAATCCCCAACTTTCCC-CCTT
*
33176239 AAAATCCCTAA-TTTCCCCCTT
1 AAAATCCCCAACTTTCCCCCTT
* *
33176260 GAAACCCCCAACTTT
1 AAAATCCCCAACTTT
33176275 ACAAACATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 13 0.43
ACGTcount: A:0.29, C:0.41, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAATCCCCAACTTTCCCCCTT
Done.