Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 114 of 279
Found at i:35984240 original size:18 final size:17
Alignment explanation
Indices: 35984166--35984328 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
35984156 ATCCATTTTC
* *
35984166 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
35984184 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
35984202 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
35984218 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
35984235 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
35984253 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
35984270 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
35984288 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
35984305 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
35984323 CAAAAA
1 CAAAAA
35984329 AAAAATCTCG
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:35984328 original size:35 final size:34
Alignment explanation
Indices: 35984166--35984328 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
35984156 ATCCATTTTC
* * * *
35984166 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
35984202 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
35984235 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
35984270 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
35984305 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
35984329 AAAAATCTCG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:35984343 original size:39 final size:38
Alignment explanation
Indices: 35984289--35984417 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 38
35984279 TCTTGTTTTC
*
35984289 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAAA
1 AAAAATCTC-GTGTTTT-AAAATTTTCGTGTTTTCAAAAA
*
35984329 AAAAATCTCGTGTTTCATAAATTTT-G-GTTTT-AAAAA
1 AAAAATCTCGTGTTTTA-AAATTTTCGTGTTTTCAAAAA
* * * *
35984365 AAATAT-T-ATGTCTTAAAATTCTCGTGTTTTCAAAACA
1 AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA-A
*
35984402 AGAAATTCTCGTGTTT
1 A-AAAATCTCGTGTTT
35984418 CAATCGGATC
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 6 0.09
36 14 0.20
37 7 0.10
38 5 0.07
39 14 0.20
40 12 0.17
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (38 bp):
AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAAA
Found at i:35986132 original size:38 final size:38
Alignment explanation
Indices: 35986081--35986158 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
35986071 ATTTAGAAAA
35986081 TATCCACTAATTTTATTTGAAAAGAATATGTTAAATTC
1 TATCCACTAATTTTATTTGAAAAGAATATGTTAAATTC
*
35986119 TATCCACTAATTTTATTTGAAAAGAATATGTTCAATTC
1 TATCCACTAATTTTATTTGAAAAGAATATGTTAAATTC
35986157 TA
1 TA
35986159 CTATTAGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (38 bp):
TATCCACTAATTTTATTTGAAAAGAATATGTTAAATTC
Found at i:35987673 original size:40 final size:38
Alignment explanation
Indices: 35987618--35987755 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 38
35987608 TGGCGTTTGA
*
35987618 ATAAAAAATGCCGCTAAAAATCAATCATTAGCGGCGCTAT
1 ATAAAAAACGCCGCTAAAAAT-AATCATTAGCGGCGCT-T
* *
35987658 ATAAAAAACGCCGCTAAAGATGGAGT-ATTAGCGGCGCTT
1 ATAAAAAACGCCGCTAAAAAT--AATCATTAGCGGCGCTT
* * * * *
35987697 TTCTAAAAACGCCACTAAAAATGAGCATTAGCGGCG-TT
1 AT-AAAAAACGCCGCTAAAAATAATCATTAGCGGCGCTT
*
35987735 TTACAAAAAGCGCCGC-AAAAA
1 ATA-AAAAA-CGCCGCTAAAAA
35987756 CCTAAACCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
38 14 0.17
39 17 0.21
40 47 0.59
41 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (38 bp):
ATAAAAAACGCCGCTAAAAATAATCATTAGCGGCGCTT
Found at i:35987990 original size:41 final size:41
Alignment explanation
Indices: 35987795--35987990 Score: 311
Period size: 41 Copynumber: 4.8 Consensus size: 41
35987785 TTTTTAGGGA
* *
35987795 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
* * * *
35987836 TTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
* *
35987877 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAATCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
35987918 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
*
35987959 TTTAGGGGCGTTTTTTAAGAAGCGCCGCTAAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAA
35987991 AGCATTTTAT
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
Found at i:35988581 original size:15 final size:15
Alignment explanation
Indices: 35988561--35988592 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35988551 TATTTTAATG
35988561 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
35988576 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
35988591 TT
1 TT
35988593 AGCGTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:35989355 original size:21 final size:21
Alignment explanation
Indices: 35989311--35989364 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
35989301 TAAATAAGGT
**
35989311 TTAGGGGTTAGTAGTTAGTTG
1 TTAGGGGTTAGTAGTTAGAGG
35989332 TTAGGGGTTAG-ATGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGAGG
* *
35989353 TTAAGAGTTAGT
1 TTAGGGGTTAGT
35989365 GATTTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGAGG
Found at i:35989540 original size:50 final size:50
Alignment explanation
Indices: 35989459--35989557 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
35989449 TAATTGTAAA
* * *
35989459 ATAGGGGTTAGGGGTTTAGAGTTTTTGTTTTATGATTTAGGGTTTAGGAG
1 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGAG
35989509 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGA
1 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGA
35989558 TTAATTGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.42
Consensus pattern (50 bp):
ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGAG
Found at i:35991417 original size:27 final size:26
Alignment explanation
Indices: 35991387--35991443 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
35991377 AATTTCGAGG
*
35991387 TTTACAATTTT-TAATTTTTATTAATT
1 TTTA-AATTTTCTAACTTTTATTAATT
* *
35991413 ATTTATATTTTCTCACTTTTATTAATT
1 -TTTAAATTTTCTAACTTTTATTAATT
35991440 TTTA
1 TTTA
35991444 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAATTTTCTAACTTTTATTAATT
Found at i:35991794 original size:43 final size:43
Alignment explanation
Indices: 35991690--35991833 Score: 220
Period size: 43 Copynumber: 3.4 Consensus size: 43
35991680 GTTTGAGATA
* *
35991690 AAAAGCGTCGCTAAAGATCATGGTCTTTAGCGGC-ATTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGA-TTGTGGG
35991733 -AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
*
35991775 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
* *
35991818 AGAAGCGCCGCAAAAG
1 AAAAGCGCCGCTAAAG
35991834 TTAGCGACGT
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 38 0.40
43 56 0.60
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.22
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
Found at i:35991922 original size:22 final size:22
Alignment explanation
Indices: 35991894--35991937 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
35991884 TAGTGGCGCT
*
35991894 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
35991916 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
35991938 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:35996868 original size:2 final size:2
Alignment explanation
Indices: 35996863--35996895 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35996853 GAGAATCCAT
*
35996863 GA GA GA GA GA GA GT GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
35996896 TTAAGTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (2 bp):
GA
Found at i:36002650 original size:2 final size:2
Alignment explanation
Indices: 36002643--36002672 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
36002633 ATGCAGAATA
36002643 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36002673 CCAAATAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36014308 original size:41 final size:41
Alignment explanation
Indices: 36014263--36014342 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
36014253 GCAGATTACG
*
36014263 AAGGCAACATTGGTTAACATACGACTGCCTCGTCCAGTGTT
1 AAGGCAACATGGGTTAACATACGACTGCCTCGTCCAGTGTT
36014304 AAGGCAACATGGGTTAACATACGACTGCCTCGTCCAGTG
1 AAGGCAACATGGGTTAACATACGACTGCCTCGTCCAGTG
36014343 GGTTAACACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
AAGGCAACATGGGTTAACATACGACTGCCTCGTCCAGTGTT
Found at i:36026374 original size:21 final size:21
Alignment explanation
Indices: 36026348--36026388 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36026338 ATCTGCTCAA
* *
36026348 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
36026369 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
36026389 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:36035069 original size:14 final size:14
Alignment explanation
Indices: 36035037--36035096 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
36035027 AACTTTATTC
*
36035037 TTAACAAATATTTAA
1 TTAATAAAT-TTTAA
36035052 -TAATAAATTTTAA
1 TTAATAAATTTTAA
*
36035065 TTAATAATTTTTAA
1 TTAATAAATTTTAA
* *
36035079 AT-ATATAATTTTAG
1 TTAATA-AATTTTAA
36035093 TTAA
1 TTAA
36035097 AAGTAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
13 8 0.22
14 27 0.75
15 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
TTAATAAATTTTAA
Found at i:36035088 original size:15 final size:14
Alignment explanation
Indices: 36035050--36035090 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
36035040 ACAAATATTT
*
36035050 AATAATAAATTTTA
1 AATAATAATTTTTA
*
36035064 ATTAATAATTTTTA
1 AATAATAATTTTTA
36035078 AATATATAATTTT
1 AATA-ATAATTTT
36035091 AGTTAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATAATAATTTTTA
Found at i:36041019 original size:15 final size:15
Alignment explanation
Indices: 36040999--36041030 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
36040989 GTTAGTTCAT
36040999 TACTTATGTTGAGGC
1 TACTTATGTTGAGGC
36041014 TACTTATGTTGAGGC
1 TACTTATGTTGAGGC
36041029 TA
1 TA
36041031 TGGCTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (15 bp):
TACTTATGTTGAGGC
Found at i:36053776 original size:15 final size:15
Alignment explanation
Indices: 36053756--36053787 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
36053746 AAGAGGAAAG
36053756 AGAAAATTGAATTAA
1 AGAAAATTGAATTAA
36053771 AGAAAATTGAATTAA
1 AGAAAATTGAATTAA
36053786 AG
1 AG
36053788 TGTCGGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (15 bp):
AGAAAATTGAATTAA
Found at i:36065220 original size:39 final size:40
Alignment explanation
Indices: 36065165--36065246 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 40
36065155 AGGCATATTA
36065165 AAATACTAAAACTAAAATTTAACCTTTTATTATAAAATGC
1 AAATACTAAAACTAAAATTTAACCTTTTATTATAAAATGC
36065205 AAATA-TAAAACTAAAATTTAACCTTTTATTATAAAATGC
1 AAATACTAAAACTAAAATTTAACCTTTTATTATAAAATGC
36065244 AAA
1 AAA
36065247 AAGAAAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.88
40 5 0.12
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (40 bp):
AAATACTAAAACTAAAATTTAACCTTTTATTATAAAATGC
Found at i:36065434 original size:24 final size:21
Alignment explanation
Indices: 36065387--36065442 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
36065377 ATCAGCGGTG
*
36065387 GTGGTGAGATTAGTTACTATA
1 GTGGTGAGATTAGATACTATA
*
36065408 GTGGTGAGATTGGATACTATA
1 GTGGTGAGATTAGATACTATA
**
36065429 GCAGTGAGATTAGA
1 GTGGTGAGATTAGA
36065443 AATAATGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.32
Consensus pattern (21 bp):
GTGGTGAGATTAGATACTATA
Found at i:36069246 original size:16 final size:16
Alignment explanation
Indices: 36069225--36069255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36069215 AGCATAGTAT
36069225 AAAAATATCAAACATA
1 AAAAATATCAAACATA
*
36069241 AAAAATATCATACAT
1 AAAAATATCAAACAT
36069256 TAGTTTTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATATCAAACATA
Found at i:36070014 original size:7 final size:7
Alignment explanation
Indices: 36070002--36070028 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36069992 CCTACATAAT
36070002 ATGTTAA
1 ATGTTAA
36070009 ATGTTAA
1 ATGTTAA
36070016 ATGTTAA
1 ATGTTAA
36070023 ATGTTA
1 ATGTTA
36070029 TACTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:36072382 original size:38 final size:38
Alignment explanation
Indices: 36072302--36072491 Score: 218
Period size: 38 Copynumber: 4.9 Consensus size: 38
36072292 ATTTGATGTG
* *
36072302 TATCCGGGCTTAAAGACCCGCAGGCTATGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTTGTGCTGGTATTA
* * * *
36072342 TATCCGGGTTAAATCCCGCAGCCTTTGTACTAGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
* * *
36072380 TATCTGGGTTAAATCCGGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
*
36072418 TATCCGGGTTAAATCCCGTAGGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
** * *
36072456 TATTTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTTGTGCTGGT
36072492 GACTGGATTC
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 88 0.70
39 11 0.09
40 27 0.21
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
Found at i:36087104 original size:26 final size:26
Alignment explanation
Indices: 36087051--36087124 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
36087041 TATGTGTCGT
36087051 ATTTCAGGCACCTCGTGTGTCG--T-
1 ATTTCAGGCACCTCGTGTGTCGTATC
*
36087074 A--TCAGGCATCTCGTGTGTCGTATC
1 ATTTCAGGCACCTCGTGTGTCGTATC
36087098 ATTTCAGGCACCTCGTGTGTCGTATC
1 ATTTCAGGCACCTCGTGTGTCGTATC
36087124 A
1 A
36087125 GGCACCTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 18 0.41
23 2 0.05
24 1 0.02
26 23 0.52
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (26 bp):
ATTTCAGGCACCTCGTGTGTCGTATC
Found at i:36087112 original size:47 final size:47
Alignment explanation
Indices: 36087051--36087141 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
36087041 TATGTGTCGT
*
36087051 ATTTCAGGCACCTCGTGTGTCGTATCAGGCATCTCGTGTGTCGTATC
1 ATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTATC
*
36087098 ATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTTGTGTGTCGT
1 ATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
36087142 TTTAGGCACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.14, C:0.25, G:0.26, T:0.34
Consensus pattern (47 bp):
ATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTATC
Found at i:36087148 original size:21 final size:21
Alignment explanation
Indices: 36087043--36087150 Score: 99
Period size: 21 Copynumber: 4.8 Consensus size: 21
36087033 AGACACTTTA
36087043 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* * *
36087066 TGTGTCGTATCAGGCATCTCG
1 TGTGTCGTTTTAGGCACCTCG
36087087 TGTGTCGTATCATTTCAGGCACCTCG
1 TGTGTCG--T--TTT-AGGCACCTCG
* * *
36087113 TGTGTCGTATCAGGCACCTTG
1 TGTGTCGTTTTAGGCACCTCG
36087134 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
36087151 TTTATGTGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
21 40 0.58
22 2 0.03
23 9 0.13
24 1 0.01
25 1 0.01
26 16 0.23
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:36087158 original size:21 final size:21
Alignment explanation
Indices: 36087030--36087160 Score: 82
Period size: 21 Copynumber: 5.9 Consensus size: 21
36087020 GGCTTTATCG
* *
36087030 ATCAGACACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
**
36087051 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
* **
36087074 ATCAGGCATCTCGTGTGTCGTAT
1 ATCAGGCACCTTATGTGTCG--T
**
36087097 CATTTCAGGCACCTCGTGTGTCGT
1 -A--TCAGGCACCTTATGTGTCGT
*
36087121 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
* * *
36087142 TTTAGGCACTTTATGTGTC
1 ATCAGGCACCTTATGTGTC
36087161 TTATACTGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
21 53 0.58
23 19 0.21
24 2 0.02
26 18 0.20
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:36093098 original size:2 final size:2
Alignment explanation
Indices: 36093093--36093139 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
36093083 TATATATATA
*
36093093 TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
36093135 TG TG T
1 TG TG T
36093140 ATGAATGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:36093306 original size:15 final size:15
Alignment explanation
Indices: 36093288--36093345 Score: 98
Period size: 15 Copynumber: 3.8 Consensus size: 15
36093278 TATCTGTTTT
36093288 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
36093303 ATTGAATTTATTTTG
1 ATTGAATTTATATTG
36093318 ATTGAATTTATATTG
1 ATTGAATTTATATTG
36093333 ATTGAATTGTATA
1 ATTGAATT-TATA
36093346 ATATATATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 36 0.90
16 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:36093757 original size:23 final size:23
Alignment explanation
Indices: 36093728--36093788 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
36093718 AAACACTTTA
36093728 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
36093751 TGTGTCGTA--TCAGGCACCTTG
1 TGTGTCGTATTTCAGGCACCTCG
36093772 TGTGTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
36093789 TTTATGTGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 25 0.71
22 1 0.03
23 9 0.26
ACGTcount: A:0.13, C:0.23, G:0.28, T:0.36
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:36093796 original size:21 final size:21
Alignment explanation
Indices: 36093725--36093798 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
36093715 ATCAAACACT
36093725 TTATGTGTCGTATTTCAGGCACC
1 TTATGTGTCGT-TTT-AGGCACC
** * *
36093748 TCGTGTGTCGTATCAGGCACC
1 TTATGTGTCGTTTTAGGCACC
* *
36093769 TTGTGTGTCGTTTTAGGCACT
1 TTATGTGTCGTTTTAGGCACC
36093790 TTATGTGTC
1 TTATGTGTC
36093799 TTATACTGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 32 0.76
22 1 0.02
23 9 0.21
ACGTcount: A:0.14, C:0.20, G:0.26, T:0.41
Consensus pattern (21 bp):
TTATGTGTCGTTTTAGGCACC
Found at i:36098664 original size:31 final size:31
Alignment explanation
Indices: 36098629--36098691 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
36098619 GATGATGTTT
36098629 ATATGGAGCTTGTATCCGAATGTAGCAAATG
1 ATATGGAGCTTGTATCCGAATGTAGCAAATG
36098660 ATATGGAGCTTGTATCCGAATGTAGCAAATG
1 ATATGGAGCTTGTATCCGAATGTAGCAAATG
36098691 A
1 A
36098692 CTACTAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (31 bp):
ATATGGAGCTTGTATCCGAATGTAGCAAATG
Found at i:36098829 original size:38 final size:38
Alignment explanation
Indices: 36098758--36098947 Score: 173
Period size: 38 Copynumber: 4.9 Consensus size: 38
36098748 ATTTGATGTG
* * * *
36098758 TATCCAGGCTTAAAGACCCGTAGGCTATATGCTGGTATTA
1 TATCCAGG-TTAAA-TCCCGCAGGCTTTGTGCTGGTATTA
* * *
36098798 TATCCAGGATAAATCTCGCAGGCTTTGTGCTGGTAATA
1 TATCCAGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
** * *
36098836 TATCTGGGTTAAATCCCGCAGGCTTCGTGTTGGTATTA
1 TATCCAGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
* * * * *
36098874 TATCCGGGTTAAATCCCACAGGCATAGTACTGGTATTA
1 TATCCAGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
* * *
36098912 TATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TA-TCCAGGTTAAA-TCCCGCAGGCTTTGTGCTGGT
36098948 GACTGGATTC
Statistics
Matches: 120, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
38 84 0.70
39 12 0.10
40 24 0.20
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (38 bp):
TATCCAGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
Found at i:36099811 original size:20 final size:20
Alignment explanation
Indices: 36099777--36099834 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
36099767 GGGGTGTTAC
* * *
36099777 ACATGCCCGTATGGCCTGGG
1 ACATGGCCGTGTGGCCTGGA
*
36099797 ACATGGTCGTGTGGCCTGGA
1 ACATGGCCGTGTGGCCTGGA
36099817 ACATGGCCGTGTGGCCTG
1 ACATGGCCGTGTGGCCTG
36099835 CCCATGGGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (20 bp):
ACATGGCCGTGTGGCCTGGA
Found at i:36100456 original size:23 final size:23
Alignment explanation
Indices: 36100430--36100475 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36100420 ATTTCATTTC
* *
36100430 CAATGATAGATAAAATAAATCAT
1 CAATGAGACATAAAATAAATCAT
*
36100453 CAATGAGACATAAAATAACTCAT
1 CAATGAGACATAAAATAAATCAT
36100476 GAACCTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (23 bp):
CAATGAGACATAAAATAAATCAT
Found at i:36101864 original size:16 final size:15
Alignment explanation
Indices: 36101831--36101874 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
36101821 CTGTCACTAT
*
36101831 TTCTTTTTTT-TTCT
1 TTCTTTTTTTATTCA
36101845 TTCTTTCTTTTATTCA
1 TTCTTT-TTTTATTCA
36101861 TTCTTTATTTTATT
1 TTCTTT-TTTTATT
36101875 ACTTTATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 6 0.23
15 4 0.15
16 16 0.62
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTTTTTATTCA
Found at i:36106286 original size:35 final size:36
Alignment explanation
Indices: 36106246--36106319 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
36106236 TAAAACATTG
36106246 AATGATCATAT-AAAACACATATTAATCATTAAAAA
1 AATGATCATATAAAAACACATATTAATCATTAAAAA
*
36106281 AATGATCATATAAAAACACATATTAATTATTAAAAA
1 AATGATCATATAAAAACACATATTAATCATTAAAAA
36106317 AAT
1 AAT
36106320 AAAAATAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 11 0.30
36 26 0.70
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (36 bp):
AATGATCATATAAAAACACATATTAATCATTAAAAA
Found at i:36106375 original size:28 final size:29
Alignment explanation
Indices: 36106315--36106375 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
36106305 AATTATTAAA
* *
36106315 AAAATAAAAATAAGATTAATTCGAGCTTT
1 AAAATAAAAATAAGATTAATTCGAGCATG
*
36106344 AAAAT-AAAAT-AGATTAGATTCGGGCATG
1 AAAATAAAAATAAGATTA-ATTCGAGCATG
36106372 AAAA
1 AAAA
36106376 AGGACCAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 17 0.61
29 5 0.18
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (29 bp):
AAAATAAAAATAAGATTAATTCGAGCATG
Found at i:36107682 original size:16 final size:17
Alignment explanation
Indices: 36107661--36107694 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36107651 ATTCCATATT
36107661 GAATTAAATTG-AATGA
1 GAATTAAATTGAAATGA
*
36107677 GAATTATATTGAAATGA
1 GAATTAAATTGAAATGA
36107694 G
1 G
36107695 TTAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
GAATTAAATTGAAATGA
Found at i:36108077 original size:25 final size:25
Alignment explanation
Indices: 36108005--36108070 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
36107995 GACACACCAC
36108005 AGCTCGTATGAGCTTACTGATT-TGT
1 AGCTCGTATGAGCTTACTGATTCT-T
*
36108030 AGCTTGTGA-GAGCTTACTGATTCTT
1 AGCTCGT-ATGAGCTTACTGATTCTT
36108055 AGCTCGTATGAGCTTA
1 AGCTCGTATGAGCTTA
36108071 TCGATTCACA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACTGATTCTT
Found at i:36108083 original size:25 final size:25
Alignment explanation
Indices: 36108002--36108086 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
36107992 GCGGACACAC
36108002 CACAGCTCGTATGAGCTTACTGATT
1 CACAGCTCGTATGAGCTTACTGATT
*** *
36108027 TGTAGCTTGTGA-GAGCTTACTGATT
1 CACAGCTCGT-ATGAGCTTACTGATT
**
36108052 CTTAGCTCGTATGAGCTTA-TCGATT
1 CACAGCTCGTATGAGCTTACT-GATT
36108077 CACAGCTCGT
1 CACAGCTCGT
36108087 GAGGGCATAC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 2 0.04
25 45 0.94
26 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACTGATT
Found at i:36108089 original size:50 final size:50
Alignment explanation
Indices: 36108005--36108117 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
36107995 GACACACCAC
*** * * *
36108005 AGCTCGTATGAGCTTACTGATTTGTAGCTTGTGAGAGCTTACTGATTCT-T
1 AGCTCGTATGAGCTTACTGATTCACAGCTCGTGAGAGCATACCGATT-TAT
*
36108055 AGCTCGTATGAGCTTA-TCGATTCACAGCTCGTGAGGGCATACCGATTTAT
1 AGCTCGTATGAGCTTACT-GATTCACAGCTCGTGAGAGCATACCGATTTAT
*
36108105 AGTTCGTATGAGC
1 AGCTCGTATGAGC
36108118 ATACATGTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.04
50 51 0.96
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACTGATTCACAGCTCGTGAGAGCATACCGATTTAT
Found at i:36108980 original size:14 final size:14
Alignment explanation
Indices: 36108961--36108990 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36108951 TTATATCGAG
36108961 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
36108975 ACCAATCCAATTCA
1 ACCAATCCAAATCA
36108989 AC
1 AC
36108991 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:36112919 original size:28 final size:28
Alignment explanation
Indices: 36112886--36112947 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
36112876 AAACACAAGC
36112886 TTACATCATATACCAACATCCACTTATT
1 TTACATCATATACCAACATCCACTTATT
36112914 TTACATCATATACCAACATCCACTTATT
1 TTACATCATATACCAACATCCACTTATT
36112942 TTACAT
1 TTACAT
36112948 AGTTAACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.37
Consensus pattern (28 bp):
TTACATCATATACCAACATCCACTTATT
Found at i:36113761 original size:19 final size:19
Alignment explanation
Indices: 36113737--36113776 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
36113727 GTATCAATAC
36113737 ATCCTTCCACCACACCAAT
1 ATCCTTCCACCACACCAAT
36113756 ATCCTTCCACCACACCAAT
1 ATCCTTCCACCACACCAAT
36113775 AT
1 AT
36113777 AACTCAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (19 bp):
ATCCTTCCACCACACCAAT
Found at i:36115858 original size:42 final size:42
Alignment explanation
Indices: 36115799--36115882 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
36115789 ACTACACGTG
36115799 ATAGAAGCAAGCTTTCATTTACCCCTCCATCCTTTTTTCTAT
1 ATAGAAGCAAGCTTTCATTTACCCCTCCATCCTTTTTTCTAT
*
36115841 ATAGAAGCAAGCTTTCATTTATCCCTCCATCCTTTTTTCTAT
1 ATAGAAGCAAGCTTTCATTTACCCCTCCATCCTTTTTTCTAT
36115883 CATCTTCTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (42 bp):
ATAGAAGCAAGCTTTCATTTACCCCTCCATCCTTTTTTCTAT
Found at i:36119759 original size:20 final size:20
Alignment explanation
Indices: 36119731--36119771 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36119721 AATTTCATTG
*
36119731 AAAAAGAATTTAAAAATAAC
1 AAAAAGAATTTAAAAAGAAC
* *
36119751 AAAATGAATTTCAAAAGAAC
1 AAAAAGAATTTAAAAAGAAC
36119771 A
1 A
36119772 TAATACATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAAAGAATTTAAAAAGAAC
Found at i:36124217 original size:2 final size:2
Alignment explanation
Indices: 36124210--36124250 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
36124200 TAATTCTGGT
* * *
36124210 TC TC TC TC TC TC CC TT TC CC 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 TC TC TC TC TC TC T
36124251 GAGCATTCAT
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:36127298 original size:345 final size:345
Alignment explanation
Indices: 36126667--36127357 Score: 1382
Period size: 345 Copynumber: 2.0 Consensus size: 345
36126657 CACGCAACAC
36126667 TGAGATATGGGCCTATTGGGAGCAGATCTATTGATGGGCACAGTCCAACAAAAAGAGATGGTCCA
1 TGAGATATGGGCCTATTGGGAGCAGATCTATTGATGGGCACAGTCCAACAAAAAGAGATGGTCCA
36126732 GAGTTATTGATGACTCAGCTATTAGCTATTTTATTTTCTGTTATGCCAGCTGTATAAAAATAACC
66 GAGTTATTGATGACTCAGCTATTAGCTATTTTATTTTCTGTTATGCCAGCTGTATAAAAATAACC
36126797 GTCCTGGTACGACAGCAATTTCCTTGTAAGGACAAGTAGAATTATGAAATGAAATCAGGAATTCT
131 GTCCTGGTACGACAGCAATTTCCTTGTAAGGACAAGTAGAATTATGAAATGAAATCAGGAATTCT
36126862 CTTCACAATCTTTTCACCTCTCGAACCCTATTTACTCTCTCTAAATACTCCAATTGATCAGTGTC
196 CTTCACAATCTTTTCACCTCTCGAACCCTATTTACTCTCTCTAAATACTCCAATTGATCAGTGTC
36126927 ATACCACACTGCATTTCTCTACCGCATAAGCTGAGAATCACTTTATGTGCCCCAGCAATGACAAC
261 ATACCACACTGCATTTCTCTACCGCATAAGCTGAGAATCACTTTATGTGCCCCAGCAATGACAAC
36126992 TTTTCATTTACTTTTTAATT
326 TTTTCATTTACTTTTTAATT
36127012 TGAGATATGGGCCTATTGGGAGCAGATCTATTGATGGGCACAGTCCAACAAAAAGAGATGGTCCA
1 TGAGATATGGGCCTATTGGGAGCAGATCTATTGATGGGCACAGTCCAACAAAAAGAGATGGTCCA
36127077 GAGTTATTGATGACTCAGCTATTAGCTATTTTATTTTCTGTTATGCCAGCTGTATAAAAATAACC
66 GAGTTATTGATGACTCAGCTATTAGCTATTTTATTTTCTGTTATGCCAGCTGTATAAAAATAACC
36127142 GTCCTGGTACGACAGCAATTTCCTTGTAAGGACAAGTAGAATTATGAAATGAAATCAGGAATTCT
131 GTCCTGGTACGACAGCAATTTCCTTGTAAGGACAAGTAGAATTATGAAATGAAATCAGGAATTCT
36127207 CTTCACAATCTTTTCACCTCTCGAACCCTATTTACTCTCTCTAAATACTCCAATTGATCAGTGTC
196 CTTCACAATCTTTTCACCTCTCGAACCCTATTTACTCTCTCTAAATACTCCAATTGATCAGTGTC
36127272 ATACCACACTGCATTTCTCTACCGCATAAGCTGAGAATCACTTTATGTGCCCCAGCAATGACAAC
261 ATACCACACTGCATTTCTCTACCGCATAAGCTGAGAATCACTTTATGTGCCCCAGCAATGACAAC
36127337 TTTTCATTTACTTTTTAATT
326 TTTTCATTTACTTTTTAATT
36127357 T
1 T
36127358 CTCCTTTGTT
Statistics
Matches: 346, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 346 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (345 bp):
TGAGATATGGGCCTATTGGGAGCAGATCTATTGATGGGCACAGTCCAACAAAAAGAGATGGTCCA
GAGTTATTGATGACTCAGCTATTAGCTATTTTATTTTCTGTTATGCCAGCTGTATAAAAATAACC
GTCCTGGTACGACAGCAATTTCCTTGTAAGGACAAGTAGAATTATGAAATGAAATCAGGAATTCT
CTTCACAATCTTTTCACCTCTCGAACCCTATTTACTCTCTCTAAATACTCCAATTGATCAGTGTC
ATACCACACTGCATTTCTCTACCGCATAAGCTGAGAATCACTTTATGTGCCCCAGCAATGACAAC
TTTTCATTTACTTTTTAATT
Found at i:36140665 original size:52 final size:52
Alignment explanation
Indices: 36140608--36140714 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
36140598 AATTAGATCA
*
36140608 CTTTTAATTTGGACAAACTTATCATAATAATAAATAATAATATGTAATTATC
1 CTTTTAATTTGGACAAACTTATCATAATAATAAATAATAATATATAATTATC
36140660 CTTTTAATTTGGACAAACTTATCATAATAATAAATAATAATATATAATTATC
1 CTTTTAATTTGGACAAACTTATCATAATAATAAATAATAATATATAATTATC
36140712 CTT
1 CTT
36140715 ATTATATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (52 bp):
CTTTTAATTTGGACAAACTTATCATAATAATAAATAATAATATATAATTATC
Found at i:36140726 original size:39 final size:39
Alignment explanation
Indices: 36140683--36140762 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
36140673 CAAACTTATC
*
36140683 ATAATAATAAATAATAATATATAATTATCCTTATTATAT
1 ATAATAATAAATAATAATATATAATTACCCTTATTATAT
* *
36140722 ATAATAGTAAATAATAATATGTAATTACCCTTATTATAT
1 ATAATAATAAATAATAATATATAATTACCCTTATTATAT
36140761 AT
1 AT
36140763 GTAATGTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (39 bp):
ATAATAATAAATAATAATATATAATTACCCTTATTATAT
Found at i:36141765 original size:24 final size:24
Alignment explanation
Indices: 36141737--36141816 Score: 160
Period size: 24 Copynumber: 3.3 Consensus size: 24
36141727 AGTCTTGTTT
36141737 CCACCTTCTTGTGTCTTACTCTTG
1 CCACCTTCTTGTGTCTTACTCTTG
36141761 CCACCTTCTTGTGTCTTACTCTTG
1 CCACCTTCTTGTGTCTTACTCTTG
36141785 CCACCTTCTTGTGTCTTACTCTTG
1 CCACCTTCTTGTGTCTTACTCTTG
36141809 CCACCTTC
1 CCACCTTC
36141817 CTGTTCTCTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.09, C:0.36, G:0.11, T:0.44
Consensus pattern (24 bp):
CCACCTTCTTGTGTCTTACTCTTG
Found at i:36142698 original size:19 final size:20
Alignment explanation
Indices: 36142669--36142743 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 20
36142659 TGATCCGCAG
36142669 ATTTCTTAAATATATTTTTA
1 ATTTCTTAAATATATTTTTA
*
36142689 ATTT-TTAAATATTAATTAATTA
1 ATTTCTTAAATA-T-ATT-TTTA
*
36142711 TATTTGTTAAATATATTTTTA
1 -ATTTCTTAAATATATTTTTA
36142732 ATTT-TTAAATAT
1 ATTTCTTAAATAT
36142744 TAAGTAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 15 0.31
20 9 0.19
21 6 0.12
22 6 0.12
23 5 0.10
24 7 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
ATTTCTTAAATATATTTTTA
Found at i:36145124 original size:53 final size:53
Alignment explanation
Indices: 36145041--36145145 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
36145031 ACATTGCTTT
* *
36145041 ACTTAGAATAACTACAAGTATAACTGCCAATATTGCAATATGCAAATAAATAG
1 ACTTAGAATAACTACAAGTACAACTACCAATATTGCAATATGCAAATAAATAG
*
36145094 ACTTAGAATAACTACAAGTACAACTACCAATATTGCATTATGCAAATAAATA
1 ACTTAGAATAACTACAAGTACAACTACCAATATTGCAATATGCAAATAAATA
36145146 AACTCAAACA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.27
Consensus pattern (53 bp):
ACTTAGAATAACTACAAGTACAACTACCAATATTGCAATATGCAAATAAATAG
Found at i:36153855 original size:18 final size:18
Alignment explanation
Indices: 36153828--36153866 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
36153818 AAAACCCTAG
36153828 TTTTTCC-TTTCTTTTTC
1 TTTTTCCTTTTCTTTTTC
*
36153845 TTTTCTCCTTTTTTTTTTC
1 TTTT-TCCTTTTCTTTTTC
36153864 TTT
1 TTT
36153867 CTTTCCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 3 0.16
19 12 0.63
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTCTTTTTC
Found at i:36156195 original size:102 final size:101
Alignment explanation
Indices: 36156041--36156265 Score: 290
Period size: 102 Copynumber: 2.2 Consensus size: 101
36156031 CATGTATTGC
* * * * *
36156041 CATGGCCCAGCCATAGTTTTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATG
1 CATGGTCCAACCATGGTCTTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
* *
36156106 CCATAGCTCAACTATGTTCTTACTTATAAATACTACT
66 CCATAGCCCAACTATGGTCTTACTTATAAATA-TACT
* * * *
36156143 -ATGGTCCAACCATGGTCTTACGTTCATAAGTGTCATAACCCAGTTATGGTCTTTTCATTAAAAT
1 CATGGTCCAACCATGGTCTTACATTCAT-AGTGCCATAACCCAGTTATGGTCTTATCATCAAAAT
* * **
36156207 GGCATAGCCCAGCTATGGTCTTACTTATAAATATTGT
65 GCCATAGCCCAACTATGGTCTTACTTATAAATATACT
36156244 CATGGTCCAACCATGGTCTTAC
1 CATGGTCCAACCATGGTCTTAC
36156266 CCGTCAATTC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
101 24 0.23
102 82 0.77
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (101 bp):
CATGGTCCAACCATGGTCTTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
CCATAGCCCAACTATGGTCTTACTTATAAATATACT
Found at i:36157161 original size:27 final size:27
Alignment explanation
Indices: 36157131--36157183 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
36157121 TACTTAAATA
36157131 TTAA-GTAAGCATATTATAATATATATT
1 TTAACGTAAG-ATATTATAATATATATT
* * *
36157158 TTAACTTTAGTTATTATAATATATAT
1 TTAACGTAAGATATTATAATATATAT
36157184 AATAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (27 bp):
TTAACGTAAGATATTATAATATATATT
Found at i:36157193 original size:27 final size:27
Alignment explanation
Indices: 36157142--36157193 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
36157132 TAAGTAAGCA
** *
36157142 TATTATAATATATATTTTAACTTTAGT
1 TATTATAATATATATAATAAATTTAGT
36157169 TATTATAATATATATAATAAATTTA
1 TATTATAATATATATAATAAATTTA
36157194 CACCTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTATAATATATATAATAAATTTAGT
Found at i:36159161 original size:208 final size:208
Alignment explanation
Indices: 36158793--36159219 Score: 741
Period size: 208 Copynumber: 2.1 Consensus size: 208
36158783 GCCAAAACAA
*
36158793 ATGACTA--AAATTCAACAAGACATATAGGCCATATTAGCCAAAATACCAATACATGCCATTTAA
1 ATGACTATTAAATTCAACAAGACATATACGCCATATTAGCCAAAATACCAATACATGCCATTTAA
*
36158856 CCCAAAATGTAAAGTCCAAAATACCAAAATAAGAGTTTGATAGTGTGGCATGATCTCTGACGGCT
66 CCCAAAATGTAAAGTCCAAAATACCAAAATAAGAGTTTGATAGTGTGGCACGATCTCTGACGGCT
* * *
36158921 TCCGAACCGAGCGCTTCCAAAATACTATAAAACACAGAAAACATAAACAAAGTAAGCAATTAAGC
131 TCCGAAACAAGCGCTTCCAAAATACAATAAAACACAGAAAACATAAACAAAGTAAGCAATTAAGC
*
36158986 TTAGTCAGTTCGT
196 TTAGTAAGTTCGT
*
36158999 ATGACTATTAAATTCAACAAGACATATACGCCATATTAGCCAAAATACCTATACATGCCATTTAA
1 ATGACTATTAAATTCAACAAGACATATACGCCATATTAGCCAAAATACCAATACATGCCATTTAA
* *
36159064 CCCAAAATGTAAAGTCTAAAATGCCAAAATAAGAGTTTGATAGTGTGGCACGATCTCTGACGGCT
66 CCCAAAATGTAAAGTCCAAAATACCAAAATAAGAGTTTGATAGTGTGGCACGATCTCTGACGGCT
* *
36159129 TCCGAAACAAGTGCTTCCAAAATACAATAAAACACAGAAAACATAAACAAAGTAAGTAATTAAGC
131 TCCGAAACAAGCGCTTCCAAAATACAATAAAACACAGAAAACATAAACAAAGTAAGCAATTAAGC
36159194 TTAGTAAGTTCGT
196 TTAGTAAGTTCGT
36159207 ATGACTATTAAAT
1 ATGACTATTAAAT
36159220 ACATCTTACC
Statistics
Matches: 208, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
206 7 0.03
208 201 0.97
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (208 bp):
ATGACTATTAAATTCAACAAGACATATACGCCATATTAGCCAAAATACCAATACATGCCATTTAA
CCCAAAATGTAAAGTCCAAAATACCAAAATAAGAGTTTGATAGTGTGGCACGATCTCTGACGGCT
TCCGAAACAAGCGCTTCCAAAATACAATAAAACACAGAAAACATAAACAAAGTAAGCAATTAAGC
TTAGTAAGTTCGT
Found at i:36163455 original size:18 final size:18
Alignment explanation
Indices: 36163434--36163698 Score: 149
Period size: 18 Copynumber: 14.3 Consensus size: 18
36163424 GAACAATTAT
36163434 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
36163452 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
36163470 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
**
36163488 TTATTCAGTATCGATCAATTGATTGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
36163514 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
36163532 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
36163549 ATATTCATTAACAATTAGG
1 TTATTCAGTAACAGTCA-G
*
36163568 TTATTCAGTAACAGTTA-
1 TTATTCAGTAACAGTCAG
* *
36163585 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
36163604 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
36163622 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
36163640 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
36163658 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
36163676 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
36163694 TTATT
1 TTATT
36163699 TTATACCTTT
Statistics
Matches: 189, Mismatches: 44, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
17 16 0.08
18 139 0.74
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:36163877 original size:59 final size:53
Alignment explanation
Indices: 36163809--36163929 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
36163799 CCGGAACAGT
** * *
36163809 AACAGTAACAGTAGTAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCCGA
* *
36163862 AACAGTAACATTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCTGA
1 AACAGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCCGA
36163915 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
36163930 GGTAACAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:36164621 original size:20 final size:18
Alignment explanation
Indices: 36164585--36164629 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
36164575 AAACCTTTAA
36164585 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
36164603 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
36164623 -TTTCCCT
1 TTTTCCCT
36164630 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:36167480 original size:42 final size:42
Alignment explanation
Indices: 36167417--36167619 Score: 221
Period size: 42 Copynumber: 4.7 Consensus size: 42
36167407 CTTCGTTTTC
** *
36167417 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
36167460 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
36167501 TCGATGCCATAGCCCAGCTATAGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
* ***
36167550 TCGATGTCATAGCCCAGCTATGGTCTTACAC-GGATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
36167591 TCGATGCCATAGCCCAACTATGGTCTTAC
1 TCGATGCCATAGCCCAGCTATGGTCTTAC
36167620 TCGAATCACC
Statistics
Matches: 137, Mismatches: 15, Indels: 18
0.81 0.09 0.11
Matches are distributed among these distances:
41 36 0.26
42 62 0.45
43 1 0.01
45 2 0.01
48 1 0.01
49 35 0.26
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:36167561 original size:49 final size:48
Alignment explanation
Indices: 36167487--36167664 Score: 158
Period size: 41 Copynumber: 3.9 Consensus size: 48
36167477 TATGGTCTTA
*
36167487 CACATATTCATATATCGATGCCATAGCCCAGCTATAGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATAGTCTTACACG-AAT
* *
36167537 CACATATCACATATCGATGTCATAGCCCAGCTATGGTCTTACACG---
1 CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACACGAAT
* * * *
36167582 ----GATCACATATCGATGCCATAGCCCAACTATGGTCTTACTCGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACACGAAT
* * * * * *
36167626 CACCTATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTA
36167665 TATAGTAGCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 37 0.34
46 23 0.21
47 1 0.01
48 5 0.05
49 36 0.33
50 6 0.06
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACACGAAT
Found at i:36167566 original size:91 final size:88
Alignment explanation
Indices: 36167452--36167664 Score: 275
Period size: 90 Copynumber: 2.4 Consensus size: 88
36167442 TTACACATCT
* *
36167452 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGCCCA
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACAGA-TCACATATCGATGCCATAGCCCA
*
36167517 GCTATAGTCTTACACGTAATCACATA
64 ACTATAGTCTTACACG-AATCACATA
* *
36167543 TCACATATCGATGTCATAGCCCAGCTATGGTCTTACACGGATCACATATCGATGCCATAGCCCAA
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACAGATCACATATCGATGCCATAGCCCAA
* * *
36167608 CTATGGTCTTACTCGAATCACCTA
65 CTATAGTCTTACACGAATCACATA
* * * *
36167632 TCTCA-CTGATGCCATATCCCAGATATGGTCTTA
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTA
36167665 TATAGTAGCA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 23 0.21
88 1 0.01
89 12 0.11
90 37 0.34
91 35 0.32
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (88 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACAGATCACATATCGATGCCATAGCCCAAC
TATAGTCTTACACGAATCACATA
Found at i:36167778 original size:31 final size:31
Alignment explanation
Indices: 36167733--36167850 Score: 166
Period size: 31 Copynumber: 3.8 Consensus size: 31
36167723 CTTGTCACTT
* *
36167733 GTAGTCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
36167764 GTACCCAGAA-CTACCATTTTTCACTAATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
36167795 GTAGTCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
36167826 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
36167851 TGTCATTTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
30 3 0.04
31 69 0.92
32 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:36167840 original size:62 final size:62
Alignment explanation
Indices: 36167733--36167850 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
36167723 CTTGTCACTT
*
36167733 GTAGTCGAAGCTACCACTATTCACTGATCAGGTACCCAGAACTACCATTTTTCACTAATCAG
1 GTAGTCGAAGCTACCACTATTCACTGATCAGGTACCCAGAACTACCACTTTTCACTAATCAG
* *
36167795 GTAGTCGAAGCTACCACTTTTCACTGATCAGGTAGCC-GAAGCTACCACTTTTCACT
1 GTAGTCGAAGCTACCACTATTCACTGATCAGGTACCCAGAA-CTACCACTTTTCACT
36167851 TGTCATTTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 3 0.06
62 49 0.94
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (62 bp):
GTAGTCGAAGCTACCACTATTCACTGATCAGGTACCCAGAACTACCACTTTTCACTAATCAG
Found at i:36167938 original size:50 final size:50
Alignment explanation
Indices: 36167826--36168001 Score: 253
Period size: 50 Copynumber: 3.5 Consensus size: 50
36167816 CACTGATCAG
* * * * * *
36167826 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCTGATAAGC
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
*
36167877 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
* **
36167927 GTAGCTGAAGCTATTGCTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
36167977 GTAGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
36168002 GGTTGCCATA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
Found at i:36172181 original size:5 final size:5
Alignment explanation
Indices: 36172171--36172217 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
36172161 CCAATTTATG
36172171 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36172218 GAACACACAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:36179903 original size:13 final size:13
Alignment explanation
Indices: 36179885--36179913 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36179875 CTTCTTTAGT
36179885 TACTAATATCTTG
1 TACTAATATCTTG
36179898 TACTAATATCTTG
1 TACTAATATCTTG
36179911 TAC
1 TAC
36179914 GTTTAGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (13 bp):
TACTAATATCTTG
Found at i:36181101 original size:12 final size:12
Alignment explanation
Indices: 36181084--36181108 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36181074 CATCTAAAAT
36181084 TCAAACTTAAAC
1 TCAAACTTAAAC
36181096 TCAAACTTAAAC
1 TCAAACTTAAAC
36181108 T
1 T
36181109 TGGCATAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (12 bp):
TCAAACTTAAAC
Found at i:36185043 original size:16 final size:18
Alignment explanation
Indices: 36185003--36185044 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36184993 AATGCTTGGA
*
36185003 GAATGATTTAATGTGATT
1 GAATGGTTTAATGTGATT
36185021 GAATGGTTTAAT-TG-TT
1 GAATGGTTTAATGTGATT
*
36185037 GAGTGGTT
1 GAATGGTT
36185045 GAAATTGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 2 0.09
18 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (18 bp):
GAATGGTTTAATGTGATT
Found at i:36188060 original size:34 final size:34
Alignment explanation
Indices: 36188022--36188098 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
36188012 TATGTGAAAG
*
36188022 TTTCGTAAAGAAATTTTACCGTTTAAATGCTTAA
1 TTTCGTAAAGAAATTTCACCGTTTAAATGCTTAA
36188056 TTTCGTAAAGAAATTTCACCGTTTAAATGCTTAA
1 TTTCGTAAAGAAATTTCACCGTTTAAATGCTTAA
*
36188090 TTTGGTAAA
1 TTTCGTAAA
36188099 AATAACGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (34 bp):
TTTCGTAAAGAAATTTCACCGTTTAAATGCTTAA
Found at i:36191833 original size:10 final size:10
Alignment explanation
Indices: 36191818--36191851 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
36191808 TAATTTTAGG
36191818 ATTTAT-TTT
1 ATTTATCTTT
36191827 CATTTATCTTT
1 -ATTTATCTTT
36191838 ATTTATCTTT
1 ATTTATCTTT
36191848 ATTT
1 ATTT
36191852 TTTTTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 20 0.87
11 3 0.13
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:36191859 original size:15 final size:16
Alignment explanation
Indices: 36191819--36191862 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
36191809 AATTTTAGGA
36191819 TTTATTT-TCATTTATC
1 TTTATTTATC-TTTATC
36191835 TTTATTTATCTTTAT-
1 TTTATTTATCTTTATC
*
36191850 TTTTTTTATCTTT
1 TTTATTTATCTTT
36191863 TAGAATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.46
16 12 0.46
17 2 0.08
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTATCTTTATC
Found at i:36192656 original size:17 final size:18
Alignment explanation
Indices: 36192625--36192658 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36192615 TTTTCCTCAT
36192625 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
36192643 TTTAATTT-TGCAATTT
1 TTTAATTTCTGCAATTT
36192659 CAATTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:36192665 original size:18 final size:18
Alignment explanation
Indices: 36192626--36192665 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
36192616 TTTCCTCATT
*
36192626 TTAATTTCTGCAATTTAT
1 TTAATTTCTGCAATTTAA
36192644 TTAATTT-TGCAATTTCAA
1 TTAATTTCTGCAATTT-AA
36192662 TTAA
1 TTAA
36192666 CTTTAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (18 bp):
TTAATTTCTGCAATTTAA
Found at i:36195636 original size:5 final size:5
Alignment explanation
Indices: 36195622--36195682 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
36195612 GCGACCCAAT
* * *
36195622 TTTTA TTTTTA TTTTA TTTTA GTTTA TTTTA TTTTTA TTTATT TTTTC
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT-TA TTTTA
36195670 TTATTA TTTTA TT
1 TT-TTA TTTTA TT
36195683 ATTTATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
5 29 0.62
6 18 0.38
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:36195638 original size:11 final size:11
Alignment explanation
Indices: 36195622--36195689 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
36195612 GCGACCCAAT
36195622 TTTTATTTTTA
1 TTTTATTTTTA
36195633 TTTTA-TTTTA
1 TTTTATTTTTA
*
36195643 GTTTA-TTTTA
1 TTTTATTTTTA
36195653 TTTTTATTTATT-
1 -TTTTATTT-TTA
* *
36195665 TTTTCTTATTA
1 TTTTATTTTTA
36195676 TTTTATTATTTA
1 TTTTATT-TTTA
36195688 TT
1 TT
36195690 ATTTTCAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 16 0.35
11 21 0.46
12 7 0.15
13 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:36195673 original size:25 final size:25
Alignment explanation
Indices: 36195622--36195695 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
36195612 GCGACCCAAT
*
36195622 TTTTATTTTTATTTTATTTTAGT-TTA
1 TTTTATTTTTA-TTTATTTT-TTCTTA
36195648 TTTTATTTTTATTTATTTTTTCTTA
1 TTTTATTTTTATTTATTTTTTCTTA
*
36195673 TTATT-TTATTATTTATTATTTTC
1 TT-TTATTTTTATTTATT-TTTTC
36195696 AGATATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.02
25 24 0.56
26 18 0.42
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (25 bp):
TTTTATTTTTATTTATTTTTTCTTA
Found at i:36195690 original size:15 final size:14
Alignment explanation
Indices: 36195630--36195694 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
36195620 ATTTTTATTT
36195630 TTATTTTA-TTTTA
1 TTATTTTATTTTTA
36195643 GTTTATTTTATTTTTA
1 --TTATTTTATTTTTA
*
36195659 TTTATTTT-TTCTTA
1 -TTATTTTATTTTTA
36195673 TTATTTTATTATTTA
1 TTATTTTATT-TTTA
36195688 TTATTTT
1 TTATTTT
36195695 CAGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.16
14 7 0.16
15 26 0.58
16 5 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:36197292 original size:20 final size:20
Alignment explanation
Indices: 36197267--36197306 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36197257 TAATTTTAGG
36197267 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
36197287 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
36197307 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:36198055 original size:17 final size:18
Alignment explanation
Indices: 36198023--36198056 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36198013 TTTTCCTCAT
36198023 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
36198041 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
36198057 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:36198790 original size:22 final size:22
Alignment explanation
Indices: 36198764--36198961 Score: 351
Period size: 22 Copynumber: 9.0 Consensus size: 22
36198754 CAACTCGTAT
36198764 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
36198786 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
36198808 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
36198830 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
36198852 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
36198874 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
36198896 TCAGCTCGATAGAGCTTACTGG
1 TCAGCTCGATAGAGCTTACTGG
* *
36198918 TCAGCTCGATAGAGCTTACCGTT
1 TCAGCTCGATAGAGCTTACTG-G
**
36198941 TCAGCTTAATAGAGCTTACTG
1 TCAGCTCGATAGAGCTTACTG
36198962 TTCATCAGCT
Statistics
Matches: 170, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
22 152 0.89
23 18 0.11
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (22 bp):
TCAGCTCGATAGAGCTTACTGG
Found at i:36211347 original size:31 final size:31
Alignment explanation
Indices: 36211309--36211370 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
36211299 GCATGTGGTT
*
36211309 AGGCCGTGTG-TCCCCTGCACCTTAATTTTGA
1 AGGCCGTGTGAT-CCCTACACCTTAATTTTGA
36211340 AGGCCGTGTGATCCCTACACCTTAATTTTGA
1 AGGCCGTGTGATCCCTACACCTTAATTTTGA
36211371 GAAACAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.32
Consensus pattern (31 bp):
AGGCCGTGTGATCCCTACACCTTAATTTTGA
Found at i:36211640 original size:19 final size:21
Alignment explanation
Indices: 36211605--36211646 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
36211595 CTGCATCTTG
36211605 GAAAAATTTTAATAAG-TCGC
1 GAAAAATTTTAATAAGTTCGC
36211625 GAAAAATTCTT-A-AAGTTCGC
1 GAAAAATT-TTAATAAGTTCGC
36211645 GA
1 GA
36211647 TTAAGCACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.15
20 15 0.75
21 2 0.10
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
GAAAAATTTTAATAAGTTCGC
Found at i:36215794 original size:27 final size:30
Alignment explanation
Indices: 36215738--36215796 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 30
36215728 AAAAGTGGTG
**
36215738 GGGTCAAAGTGTGAATATTCAAAATTTGAA
1 GGGTCAAAGTGTGAATATTCAAAAAATGAA
36215768 GGGT-AAAGTGT-AA-ATTCAAAAAATGAA
1 GGGTCAAAGTGTGAATATTCAAAAAATGAA
36215795 GG
1 GG
36215797 AGCTAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 2 0.07
29 7 0.26
30 4 0.15
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.25
Consensus pattern (30 bp):
GGGTCAAAGTGTGAATATTCAAAAAATGAA
Found at i:36216968 original size:18 final size:18
Alignment explanation
Indices: 36216941--36216975 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36216931 TTGAAATAAC
* *
36216941 ATATTTAAGTGTAGTGAT
1 ATATTGAAGTGAAGTGAT
36216959 ATATTGAAGTGAAGTGA
1 ATATTGAAGTGAAGTGA
36216976 ATTTCAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (18 bp):
ATATTGAAGTGAAGTGAT
Found at i:36219430 original size:17 final size:17
Alignment explanation
Indices: 36219404--36219540 Score: 52
Period size: 17 Copynumber: 7.9 Consensus size: 17
36219394 GTTTAAGTTC
*
36219404 ATATTTATATTATTAAA
1 ATATTAATATTATTAAA
*
36219421 ATATTAATATT-TTTAA
1 ATATTAATATTATTAAA
* * *
36219437 CTATAAACCATTTATTACTAA
1 ATATTAA-TA-TTATTA--AA
* * *
36219458 ATATTTATA-AATTATA
1 ATATTAATATTATTAAA
* *
36219474 ATATATATTTATTATTTAA
1 ATAT-TA-ATATTATTAAA
36219493 ATA-T--TATTA-TAAA
1 ATATTAATATTATTAAA
36219506 ATATTAAAAATATTATTAAA
1 ATATT---AATATTATTAAA
*
36219526 ATTTTAATATTATTA
1 ATATTAATATTATTA
36219541 TTACTGTTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 30
0.64 0.14 0.22
Matches are distributed among these distances:
13 6 0.07
14 6 0.07
16 14 0.16
17 23 0.27
18 8 0.09
19 14 0.16
20 9 0.10
21 6 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAATATTATTAAA
Found at i:36219525 original size:20 final size:20
Alignment explanation
Indices: 36219491--36219543 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
36219481 TTTATTATTT
36219491 AAATATTATTATAAAATATTAA
1 AAATATTA-T-TAAAATATTAA
*
36219513 AAATATTATTAAAATTTTAA
1 AAATATTATTAAAATATTAA
* *
36219533 TATTATTATTA
1 AAATATTATTA
36219544 CTGTTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 19 0.68
21 1 0.04
22 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTATTAAAATATTAA
Found at i:36219614 original size:18 final size:17
Alignment explanation
Indices: 36219557--36219622 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 17
36219547 TTAAAATTTA
*
36219557 TTATTAAAATAATAATT
1 TTATTAAAATAATTATT
*
36219574 TTATTGAAATAATTAATT
1 TTATTAAAATAATT-ATT
* *
36219592 ATATTAAAATTTATTATT
1 TTATTAAAA-TAATTATT
36219610 TTATTAAATATAA
1 TTATTAAA-ATAA
36219623 ATAGGTATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 12 0.31
18 22 0.56
19 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTATTAAAATAATTATT
Found at i:36225730 original size:31 final size:31
Alignment explanation
Indices: 36225695--36225760 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
36225685 TTTGAAAAGC
* * * * *
36225695 CCTTACTTGAGTATTTTTAAAAAAGTTTTGT
1 CCTTACTTGAGCACTTTAAAAAAAGATTTGG
*
36225726 CCTTATTTGAGCACTTTAAAAAAAGATTTGG
1 CCTTACTTGAGCACTTTAAAAAAAGATTTGG
36225757 CCTT
1 CCTT
36225761 TATTTGACCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (31 bp):
CCTTACTTGAGCACTTTAAAAAAAGATTTGG
Found at i:36225849 original size:29 final size:29
Alignment explanation
Indices: 36225747--36225851 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 29
36225737 CACTTTAAAA
*
36225747 AAAGATTTGGCCTTTATTTGACCATTTTG
1 AAAGATTTGACCTTTATTTGACCATTTTG
* * *
36225776 AAATG-TTTTACCTTTATTTGAGCATTTTAT
1 AAA-GATTTGACCTTTATTTGACCATTTT-G
* ** *
36225806 AAAGA-TTAAGTTTTTATATGACCATTTTG
1 AAAGATTTGA-CCTTTATTTGACCATTTTG
*
36225835 AAAGATTTGACTTTTAT
1 AAAGATTTGACCTTTAT
36225852 GTGAGCAACC
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
29 38 0.64
30 21 0.36
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.48
Consensus pattern (29 bp):
AAAGATTTGACCTTTATTTGACCATTTTG
Found at i:36235953 original size:4 final size:4
Alignment explanation
Indices: 36235944--36235968 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36235934 TGACTTAACC
36235944 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
36235969 AATACCTAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:36238550 original size:87 final size:87
Alignment explanation
Indices: 36238441--36238622 Score: 319
Period size: 87 Copynumber: 2.1 Consensus size: 87
36238431 CAGTTCGGAA
* *
36238441 GATGAAGTCGAAGAGACGCCAAGCCATGGCATTGCCAAAAGAAAGGCTACTGAGGTCGAGTTCGT
1 GATGAAGTCGAAGAGACGCCAAGCCATGACATTGCCAAAAGAAAGGCTACTGAGGTCGAGTTCCT
36238506 TGGGGAGAATGGTTCCACTGTC
66 TGGGGAGAATGGTTCCACTGTC
* *
36238528 GATGAAGTCGAAGATACGCCAAGCCATGACATTGCCAAAAGAAAGGCTACTGAGGTTGAGTTCCT
1 GATGAAGTCGAAGAGACGCCAAGCCATGACATTGCCAAAAGAAAGGCTACTGAGGTCGAGTTCCT
36238593 TGGGGAGAATGGTTCCACTGTC
66 TGGGGAGAATGGTTCCACTGTC
*
36238615 GACGAAGT
1 GATGAAGT
36238623 TGTAATGAAG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.30, C:0.19, G:0.31, T:0.20
Consensus pattern (87 bp):
GATGAAGTCGAAGAGACGCCAAGCCATGACATTGCCAAAAGAAAGGCTACTGAGGTCGAGTTCCT
TGGGGAGAATGGTTCCACTGTC
Found at i:36244354 original size:33 final size:33
Alignment explanation
Indices: 36244317--36244379 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
36244307 GTCTTCATCT
*
36244317 TCAAATCTAAACCCTTTACTAGTGTCTTTGCCA
1 TCAAATCTAAACCCTTTACCAGTGTCTTTGCCA
*
36244350 TCAAATCTAAACCCTTTACCAGTGTTTTTG
1 TCAAATCTAAACCCTTTACCAGTGTCTTTG
36244380 TCTTCTGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (33 bp):
TCAAATCTAAACCCTTTACCAGTGTCTTTGCCA
Found at i:36270640 original size:33 final size:32
Alignment explanation
Indices: 36270549--36270646 Score: 115
Period size: 33 Copynumber: 3.0 Consensus size: 32
36270539 ATGTGACAAT
* * *
36270549 GTAACTTAAAAAGCATATCATACAAAATAAAAG
1 GTAACTTAAAAAGCATACCATAC-AGATCAAAG
* *
36270582 ATAACTTAAAAAGCATACCAGACAGATCCAAAG
1 GTAACTTAAAAAGCATACCATACAGAT-CAAAG
*
36270615 GTAACTTAAAAAGTATACCATACAGATGCAAA
1 GTAACTTAAAAAGCATACCATACAGAT-CAAA
36270647 CAACATTCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 3 0.05
33 52 0.95
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.19
Consensus pattern (32 bp):
GTAACTTAAAAAGCATACCATACAGATCAAAG
Found at i:36277994 original size:63 final size:61
Alignment explanation
Indices: 36277897--36278013 Score: 139
Period size: 63 Copynumber: 1.9 Consensus size: 61
36277887 AAATTTTTAA
*
36277897 ATATTAAAAAAATATAAAAATAGTTAAAATTTATATATATATTTT-A-AATATTAGCAAAAG
1 ATATTAAAAAAATATAAAAATAGCTAAAATTTATAT-TATATTTTCAGAATATTAGCAAAAG
* * * *
36277957 ATATTAAATTAAAATTATAATATTAGCTAAATTTTATATTTTATTTTCAGAATATTA
1 ATATTAAA--AAAA-TATAAAAATAGCTAAAATTTATATTATATTTTCAGAATATTA
36278014 AATTAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 8 0.17
62 11 0.23
63 21 0.45
64 7 0.15
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (61 bp):
ATATTAAAAAAATATAAAAATAGCTAAAATTTATATTATATTTTCAGAATATTAGCAAAAG
Found at i:36279198 original size:63 final size:61
Alignment explanation
Indices: 36279101--36279217 Score: 139
Period size: 63 Copynumber: 1.9 Consensus size: 61
36279091 AAATTTTTAA
*
36279101 ATATTAAAAAAATATAAAAATAGTTAAAATTTATATATATATTTT-A-AATATTAGCAAAAG
1 ATATTAAAAAAATATAAAAATAGCTAAAATTTATAT-TATATTTTCAGAATATTAGCAAAAG
* * * *
36279161 ATATTAAATTAAAATTATAATATTAGCTAAATTTTATATTTTATTTTCAGAATATTA
1 ATATTAAA--AAAA-TATAAAAATAGCTAAAATTTATATTATATTTTCAGAATATTA
36279218 AATTAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 8 0.17
62 11 0.23
63 21 0.45
64 7 0.15
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (61 bp):
ATATTAAAAAAATATAAAAATAGCTAAAATTTATATTATATTTTCAGAATATTAGCAAAAG
Found at i:36281577 original size:42 final size:42
Alignment explanation
Indices: 36281511--36281594 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
36281501 TGCTGAGTTA
* *
36281511 GGTAAAGATGAGAAATTTGAGGCAGATGGTGGTCAGGAACCG
1 GGTAAAGATGAGAAATTTGAGGCAGATGGTAGCCAGGAACCG
* * *
36281553 GGTAAAGTTGAGAATTTTGGGGCAGATGGTAGCCAGGAACCG
1 GGTAAAGATGAGAAATTTGAGGCAGATGGTAGCCAGGAACCG
36281595 CCTACTAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.38, T:0.20
Consensus pattern (42 bp):
GGTAAAGATGAGAAATTTGAGGCAGATGGTAGCCAGGAACCG
Found at i:36288233 original size:6 final size:6
Alignment explanation
Indices: 36288217--36288255 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
36288207 TTCATGGATT
*
36288217 TATATC CATATC TATATC TATATC TATATC TATATC TAT
1 TATATC TATATC TATATC TATATC TATATC TATATC TAT
36288256 TTATCGGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (6 bp):
TATATC
Found at i:36296138 original size:14 final size:14
Alignment explanation
Indices: 36296119--36296150 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
36296109 GGTAGCCATT
*
36296119 AAATCCATTAATTA
1 AAATCCATTAACTA
36296133 AAATCCATTAACTA
1 AAATCCATTAACTA
36296147 AAAT
1 AAAT
36296151 AACATGCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCCATTAACTA
Found at i:36309433 original size:13 final size:14
Alignment explanation
Indices: 36309417--36309449 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36309407 TTATATACAT
36309417 TTATTTATTT-ATG
1 TTATTTATTTCATG
*
36309430 TTATTTATTTCATT
1 TTATTTATTTCATG
36309444 TTATTT
1 TTATTT
36309450 TTGGAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTATTTCATG
Found at i:36313111 original size:21 final size:21
Alignment explanation
Indices: 36313072--36313111 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36313062 TTTTTTATTT
*
36313072 TCACACGGGCGTTTACCTTGG
1 TCACACGGGCGTGTACCTTGG
* *
36313093 TCACACGGTCGTGTCCCTT
1 TCACACGGGCGTGTACCTT
36313112 AGCCACATAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.33, G:0.25, T:0.30
Consensus pattern (21 bp):
TCACACGGGCGTGTACCTTGG
Found at i:36316695 original size:21 final size:21
Alignment explanation
Indices: 36316671--36316713 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36316661 TTGAGGGGAC
* **
36316671 TTAATTAAAAATTTAAAAATT
1 TTAATAAAAAATAAAAAAATT
36316692 TTAATAAAAAATAAAAAAATT
1 TTAATAAAAAATAAAAAAATT
36316713 T
1 T
36316714 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAATAAAAAATAAAAAAATT
Found at i:36316708 original size:20 final size:21
Alignment explanation
Indices: 36316671--36316714 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
36316661 TTGAGGGGAC
* * *
36316671 TTAATTAAAAATTTAAAAATT
1 TTAATTAAAAAATAAAAAAAT
36316692 TTAA-TAAAAAATAAAAAAAT
1 TTAATTAAAAAATAAAAAAAT
36316712 TTA
1 TTA
36316715 CAAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATTAAAAAATAAAAAAAT
Found at i:36319230 original size:14 final size:14
Alignment explanation
Indices: 36319211--36319242 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
36319201 AAACCATGAT
36319211 TTTTACAACATTCA
1 TTTTACAACATTCA
*
36319225 TTTTACAATATTCA
1 TTTTACAACATTCA
36319239 TTTT
1 TTTT
36319243 TCTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTACAACATTCA
Found at i:36322573 original size:43 final size:43
Alignment explanation
Indices: 36322526--36322611 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
36322516 TGACGATGAG
36322526 ATTAAATAATATAGCGTGAGACAAAAAATAAATTAAACACACC
1 ATTAAATAATATAGCGTGAGACAAAAAATAAATTAAACACACC
*
36322569 ATTAAATATTATAGCGTGAGACAAAAAATAAATTAAACACACC
1 ATTAAATAATATAGCGTGAGACAAAAAATAAATTAAACACACC
36322612 CCAACTCATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (43 bp):
ATTAAATAATATAGCGTGAGACAAAAAATAAATTAAACACACC
Found at i:36326152 original size:24 final size:24
Alignment explanation
Indices: 36326125--36326190 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
36326115 ACCTTAGGAT
*
36326125 TAAGCAAAAGTTACGCAGTTAGAA
1 TAAGCAAAAGTTACGCACTTAGAA
36326149 TAAGCAAAAGTTACGCACTTAGAA
1 TAAGCAAAAGTTACGCACTTAGAA
*
36326173 -AATGCAAAAATTAC-CACT
1 TAA-GCAAAAGTTACGCACT
36326191 CCTTTCTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
23 6 0.15
24 33 0.85
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
TAAGCAAAAGTTACGCACTTAGAA
Found at i:36328725 original size:29 final size:28
Alignment explanation
Indices: 36328660--36328729 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
36328650 ACACAAATTG
* **
36328660 AAAATATAAT-AAAAAGTAGTTATATTA
1 AAAATAAAATAAAAAAGTAAATATATTA
*
36328687 AAATTGAAAATAAAAAAGTAAATATGATTA
1 AAAAT-AAAATAAAAAAGTAAATAT-ATTA
36328717 AAAATAAAA-AAAA
1 AAAATAAAATAAAA
36328730 TTATTTAGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.11
28 8 0.23
29 15 0.43
30 8 0.23
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (28 bp):
AAAATAAAATAAAAAAGTAAATATATTA
Found at i:36329128 original size:13 final size:13
Alignment explanation
Indices: 36329110--36329138 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36329100 GTAACATTTT
36329110 ATTTTTATTTTAA
1 ATTTTTATTTTAA
36329123 ATTTTTATTTTAA
1 ATTTTTATTTTAA
36329136 ATT
1 ATT
36329139 ATTTCACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTATTTTAA
Found at i:36337932 original size:5 final size:5
Alignment explanation
Indices: 36337922--36337950 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
36337912 ATTTGTGAAA
36337922 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
36337951 AACACAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:36349600 original size:13 final size:13
Alignment explanation
Indices: 36349582--36349607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36349572 CGGGTTATCC
36349582 GGCCCGCCCCAAA
1 GGCCCGCCCCAAA
36349595 GGCCCGCCCCAAA
1 GGCCCGCCCCAAA
36349608 TGTGGAAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.54, G:0.23, T:0.00
Consensus pattern (13 bp):
GGCCCGCCCCAAA
Found at i:36351920 original size:12 final size:12
Alignment explanation
Indices: 36351898--36351922 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36351888 TGGGAAAAGA
36351898 AAGGAAAAAATC
1 AAGGAAAAAATC
36351910 AAGGAAAAAATC
1 AAGGAAAAAATC
36351922 A
1 A
36351923 GCCATTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
AAGGAAAAAATC
Found at i:36363632 original size:125 final size:125
Alignment explanation
Indices: 36363410--36363660 Score: 493
Period size: 125 Copynumber: 2.0 Consensus size: 125
36363400 TTACGAAGTT
36363410 AGTTATGGGTTGAATTAGATTTTAATTAGGTGAATTTATTTTTAATTAGAAGTAATTAGTAGAAA
1 AGTTATGGGTTGAATTAGATTTTAATTAGGTGAATTTATTTTTAATTAGAAGTAATTAGTAGAAA
36363475 GGATTAAATTGAGTAGAGCATAAAAGCTTAATCATAGAATACAGAAAGGGATAAAGGATG
66 GGATTAAATTGAGTAGAGCATAAAAGCTTAATCATAGAATACAGAAAGGGATAAAGGATG
36363535 AGTTATGGGTTGAATTAGATTTTAATTAGGTGAATTTATTTTTAATTAGAAGTAATTAGTAGAAA
1 AGTTATGGGTTGAATTAGATTTTAATTAGGTGAATTTATTTTTAATTAGAAGTAATTAGTAGAAA
*
36363600 GGATTAAATTGAGTAGAGCATAAAAGCTTAATCATAGAATAGAGAAAGGGATAAAGGATG
66 GGATTAAATTGAGTAGAGCATAAAAGCTTAATCATAGAATACAGAAAGGGATAAAGGATG
36363660 A
1 A
36363661 AATTAGTAAT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (125 bp):
AGTTATGGGTTGAATTAGATTTTAATTAGGTGAATTTATTTTTAATTAGAAGTAATTAGTAGAAA
GGATTAAATTGAGTAGAGCATAAAAGCTTAATCATAGAATACAGAAAGGGATAAAGGATG
Found at i:36366017 original size:392 final size:390
Alignment explanation
Indices: 36365312--36366099 Score: 1452
Period size: 392 Copynumber: 2.0 Consensus size: 390
36365302 AATCAAAGGT
36365312 TAATGAGTTATTTGAAATCTCATTGATGATTTATTGGATCTATCATTGGAAATAATATAATGGAA
1 TAATGAGTTATTTGAAATCTCATTGATGATTTATTGGATCTATCATTGGAAATAATATAATGGAA
**
36365377 ATATGATAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATTTATGTA
66 ATATGATAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCCATGTA
36365442 TGTTTATGATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATAC
131 TGTTTATGATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATAC
*
36365507 TCAGCGTACGATTGTTTCCCGTGCGCAGGTTAGGTAAAGTTGAAGTTCAGTCAAGCATCCGAGTC
196 TCAGCGTACGATTGTTTCCCGTGCACAGGTTAGGTAAAGTTGAAGTTCAGTCAAGCATCCGAGTC
*
36365572 AATCCCGACCTCAGCTCAATTTTGGTGATGCATCTATCTTTTAGAAATGTGGCATGTACTAGGTT
261 AATCCCGACCTCAGCTCAATTTTGGTGATGCATCTATCTCTTAGAAATGTGGCATGTACTAGGTT
*
36365637 TAGTGTTTGTCACTTGTAAATGTTTTATATTTTGAATGTAAATGTGGTGCATAATCCATAAGAGG
326 TAGTGTTTGTCACTTGTAAATGTTTTATATTTTGAATGTAAATGTAGTGCATAATCCATAAGAGG
36365702 TAATGAGTTATTTGAAATCTCATTGATGATTTATTGGATCTATCATTGGAAATGATATATAATGG
1 TAATGAGTTATTTGAAATCTCATTGATGATTTATTGGATCTATCATTGGAAAT-A-ATATAATGG
36365767 AAATATGATAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCCATG
64 AAATATGATAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCCATG
36365832 TATGTTTATGATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAAT
129 TATGTTTATGATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAAT
* *
36365897 ACTCAGTGTAC-AGTTGTTTTCCGTGCACAGGTTAGGTAAAGTTGAAGTTCAGTCAAGCATCCGA
194 ACTCAGCGTACGA-TTGTTTCCCGTGCACAGGTTAGGTAAAGTTGAAGTTCAGTCAAGCATCCGA
*
36365961 GTCAATCCCGACCTCAGCTCAATTTTGGTGATGCATCTATCTCTTAGAACTGTGGCATGTACTAG
258 GTCAATCCCGACCTCAGCTCAATTTTGGTGATGCATCTATCTCTTAGAAATGTGGCATGTACTAG
* *
36366026 GTTTAGTGTTTGTCACTTGTAAATGTTTTATATTTTGAATGTAAATGTAGTGTATAATCCTTAAG
323 GTTTAGTGTTTGTCACTTGTAAATGTTTTATATTTTGAATGTAAATGTAGTGCATAATCCATAAG
36366091 AGG
388 AGG
36366094 TAATGA
1 TAATGA
36366100 AATGAATGAA
Statistics
Matches: 385, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
390 53 0.14
391 2 0.01
392 330 0.86
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (390 bp):
TAATGAGTTATTTGAAATCTCATTGATGATTTATTGGATCTATCATTGGAAATAATATAATGGAA
ATATGATAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCCATGTA
TGTTTATGATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATAC
TCAGCGTACGATTGTTTCCCGTGCACAGGTTAGGTAAAGTTGAAGTTCAGTCAAGCATCCGAGTC
AATCCCGACCTCAGCTCAATTTTGGTGATGCATCTATCTCTTAGAAATGTGGCATGTACTAGGTT
TAGTGTTTGTCACTTGTAAATGTTTTATATTTTGAATGTAAATGTAGTGCATAATCCATAAGAGG
Found at i:36373939 original size:42 final size:42
Alignment explanation
Indices: 36373854--36373939 Score: 95
Period size: 42 Copynumber: 2.0 Consensus size: 42
36373844 CCTGTGCCTA
** *
36373854 GGCCGTGTGACAAAGTCAGACTTGCCCACAGGTTAGTCCCAC
1 GGCCGTGTGACAAAGTCAGACTTGCCCACAGGGCAGGCCCAC
**
36373896 GGCCGTGTGAGTAAGTCAGA-TCTGCCCAC-GGGCAGGCCACAC
1 GGCCGTGTGACAAAGTCAGACT-TGCCCACAGGGCAGGCC-CAC
36373938 GG
1 GG
36373940 GCATGTTCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 7 0.19
42 30 0.81
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.16
Consensus pattern (42 bp):
GGCCGTGTGACAAAGTCAGACTTGCCCACAGGGCAGGCCCAC
Found at i:36373953 original size:20 final size:20
Alignment explanation
Indices: 36373928--36373965 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
36373918 TGCCCACGGG
36373928 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
36373948 CAGGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
36373966 GCCCCTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Done.