Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 106 of 284
Found at i:34805648 original size:10 final size:11
Alignment explanation
Indices: 34805616--34805650 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
34805606 ATTTGCAGAC
34805616 AATGAAAGGAA
1 AATGAAAGGAA
34805627 AATGACAAGGAA
1 AATGA-AAGGAA
34805639 AATG-AAGGAA
1 AATGAAAGGAA
34805649 AA
1 AA
34805651 CTTGTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 5 0.22
12 10 0.43
ACGTcount: A:0.63, C:0.03, G:0.26, T:0.09
Consensus pattern (11 bp):
AATGAAAGGAA
Found at i:34820770 original size:18 final size:17
Alignment explanation
Indices: 34820749--34820782 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34820739 AAAGTTTTGT
*
34820749 TTTAGTGTTTATTTTTAG
1 TTTAGT-TTGATTTTTAG
34820767 TTTAGTTTGATTTTTA
1 TTTAGTTTGATTTTTA
34820783 CAAGCTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (17 bp):
TTTAGTTTGATTTTTAG
Found at i:34822266 original size:6 final size:6
Alignment explanation
Indices: 34822255--34822298 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
34822245 AGTCCATTTG
*
34822255 TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
34822299 CTTAGACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:34822281 original size:17 final size:17
Alignment explanation
Indices: 34822255--34822298 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
34822245 AGTCCATTTG
*
34822255 TTTTATTTTTATTTTTAT
1 TTTTA-TTTTATGTTTAT
34822273 TTTTATTTTATGTTTAT
1 TTTTATTTTATGTTTAT
34822290 TTTTATTTT
1 TTTTATTTT
34822299 CTTAGACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTATTTTATGTTTAT
Found at i:34822281 original size:23 final size:23
Alignment explanation
Indices: 34822255--34822298 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
34822245 AGTCCATTTG
*
34822255 TTTTATTTTTATTTTTATTTTTA
1 TTTTATGTTTATTTTTATTTTTA
34822278 TTTTATGTTTATTTTTATTTT
1 TTTTATGTTTATTTTTATTTT
34822299 CTTAGACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTATGTTTATTTTTATTTTTA
Found at i:34837501 original size:40 final size:40
Alignment explanation
Indices: 34837439--34837522 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
34837429 ATATTTTAAT
* *
34837439 CGAATCACGAGCTTGGAAAGTAATCATGTCATCCCCTACA
1 CGAATCACAAGCTTAGAAAGTAATCATGTCATCCCCTACA
* *
34837479 CGAATCACAAGCTTAGAGAGTAATCATGTCATCTCCTACA
1 CGAATCACAAGCTTAGAAAGTAATCATGTCATCCCCTACA
34837519 CGAA
1 CGAA
34837523 GTATTAGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
CGAATCACAAGCTTAGAAAGTAATCATGTCATCCCCTACA
Found at i:34847092 original size:30 final size:31
Alignment explanation
Indices: 34847056--34847115 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
34847046 AGGAAATATG
34847056 AATTAGTATAATTAATACGTTAAT-TCATTT
1 AATTAGTATAATTAATACGTTAATATCATTT
*
34847086 AATTAGTATAATTAATACTTTAATATCATT
1 AATTAGTATAATTAATACGTTAATATCATT
34847116 CACACTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
AATTAGTATAATTAATACGTTAATATCATTT
Found at i:34848649 original size:43 final size:43
Alignment explanation
Indices: 34848586--34848747 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
34848576 AGCTCGTACA
* * * *
34848586 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
34848628 ATGCCAATATCCCAAACATGGTCTTACACG-AACTCATATAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAA-TCACATATCG
* * * *
34848671 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACA-ATACA
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
34848714 ATGCCAATGTCCCAGACATGGTCTTACATGTAAT
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAT
34848748 TACTTCTCGG
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 7 0.07
43 90 0.91
44 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:34856178 original size:43 final size:42
Alignment explanation
Indices: 34856126--34856248 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
34856116 AGCTCATACA
* * * *
34856126 ATGCC-ATATCTCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATC-CAGAAATGGTCTTACACGTAATCACATAACG
*
34856168 ATGCCAATATCCCAGAAATGGTCTTACACG-AACTCATATAACG
1 ATGCCAATAT-CCAGAAATGGTCTTACACGTAA-TCACATAACG
* *
34856211 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
1 ATGCCAATATCC-AGAAATGGTCTTACACGTAATCACA
34856249 ATACAATGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
42 8 0.12
43 57 0.84
44 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCAATATCCAGAAATGGTCTTACACGTAATCACATAACG
Found at i:34859405 original size:14 final size:14
Alignment explanation
Indices: 34859381--34859414 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34859371 GTAGAGATTA
34859381 AAAACTATATTTGTT
1 AAAA-TATATTTGTT
*
34859396 CAAATATATTTGTT
1 AAAATATATTTGTT
34859410 AAAAT
1 AAAAT
34859415 GAGAATAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (14 bp):
AAAATATATTTGTT
Found at i:34860225 original size:172 final size:172
Alignment explanation
Indices: 34859939--34860283 Score: 460
Period size: 172 Copynumber: 2.0 Consensus size: 172
34859929 ATTTTTTTAA
* **
34859939 AGCTTAAAACTTGTATTACAATGTTAAAAGGGAAAAAAAGGGAAATATTGTGTAACACCTTAAAT
1 AGCTTAAAACTTGTATTACAATGTTAAAAGGAAAAAAAAGGGAAATATTGTGTAACACCCCAAAT
* * * * * * * *
34860004 CTAACCCGATTGTTTGATCGGAATATGTGATACCACATTTGTAACAACCCTTGTTTCGCAGGCAC
66 CCAACCCGATTGCTGGATCGAAATATGTGATACCACATTTGTAACAACCCTCGATCCGCAGCCAC
* *
34860069 CTTAAATTTCACGAGTTTTAGCAACCAACTTAAATGGACAAG
131 CTTAAAGTTCACAAGTTTTAGCAACCAACTTAAATGGACAAG
*
34860111 AGCTTAAAACTTGTATTATAATGTTAAAA-GAAAAAAAATGGGAAATATTGTGTAACACCCCAAA
1 AGCTTAAAACTTGTATTACAATGTTAAAAGGAAAAAAAA-GGGAAATATTGTGTAACACCCCAAA
* * * * *
34860175 TCCGACTCGGTTGCTGGATTC-AAATGTGTTATACCACATTTGTAACAACCCTCGATCCGCAGCC
65 TCCAACCCGATTGCTGGA-TCGAAATATGTGATACCACATTTGTAACAACCCTCGATCCGCAGCC
** *
34860239 ACCTTAAAGTTCACAAGTTTTAGCAGTCACCTTAAATGGACAAG
129 ACCTTAAAGTTCACAAGTTTTAGCAACCAACTTAAATGGACAAG
34860283 A
1 A
34860284 TTTCGTGATT
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
171 8 0.05
172 139 0.93
173 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (172 bp):
AGCTTAAAACTTGTATTACAATGTTAAAAGGAAAAAAAAGGGAAATATTGTGTAACACCCCAAAT
CCAACCCGATTGCTGGATCGAAATATGTGATACCACATTTGTAACAACCCTCGATCCGCAGCCAC
CTTAAAGTTCACAAGTTTTAGCAACCAACTTAAATGGACAAG
Found at i:34865878 original size:17 final size:18
Alignment explanation
Indices: 34865843--34865889 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
34865833 AAAAAAAATT
*
34865843 ATATAAACAATTAAAAAA
1 ATATAAATAATTAAAAAA
*
34865861 ATTTAAATAATT-AAAAA
1 ATATAAATAATTAAAAAA
*
34865878 ATACAAATAATT
1 ATATAAATAATT
34865890 TTAAATACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATATAAATAATTAAAAAA
Found at i:34867539 original size:14 final size:15
Alignment explanation
Indices: 34867512--34867540 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34867502 TCAAGACCTA
34867512 CTCTTTTCATTTTTC
1 CTCTTTTCATTTTTC
34867527 CTCTTTT-ATTTTTC
1 CTCTTTTCATTTTTC
34867541 AGCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (15 bp):
CTCTTTTCATTTTTC
Found at i:34868345 original size:279 final size:276
Alignment explanation
Indices: 34867683--34868516 Score: 1174
Period size: 277 Copynumber: 3.0 Consensus size: 276
34867673 CTCCCCCATT
* ** *
34867683 TTTTATTTTTCAATGTCGGCAAAAATGAGTATTTTACC-ATTTAGCTCCTTAAATTTTTTTTAAA
1 TTTT-TTTTTCAATGTCGACAAAAATGAGTATTTTACCAATCAAGC-CCTTAAA--TTTCTTAAA
* * *
34867747 CCCTAACTATTTAATCCATTTTCCTAATTACATGTGCATTTTTACTTCTTTTTAACCTTAATTAG
62 CCCTAACTATTTAATCCATTTTCCTAATTACATGTGGATTTTTACTTCTTTTCAACCCTAATTAG
* * *
34867812 AATTTCTCTTTTCTCTTCTTTAAA-ATATCTTTTTCTATTATTCACTCATTTCTTTTCATAAAAA
127 AATTTCTCTTTTCTCTTCTTTAAATACATCTTTTTCTGTTATTCCCTCATTTCTTTTCATAAAAA
* *
34867876 TCTTCATCTTCTTTTGCTGGAAAATTTAAATTTGATCCCGAGTTTGAAACCGAGTCCCGTTCACT
192 TCTTCATCTTCTTTTGCT-GAAAATTTTAATTTGATCCCGAGTTTGAAACC-AGTCCCGTTCAAT
* * * *
34867941 CCGTTTCTCCTATTGATTTCTC
255 CTGTTCCTCGTATCGATTTCTC
* * * * * *
34867963 TTATTTTTTTCAATCTCAACCAAAA-GGGTAATTTTACCATTCAACCCCTTAAATTTCTTAAACC
1 TT-TTTTTTTCAATGTCGACAAAAATGAGT-ATTTTACCAATCAAGCCCTTAAATTTCTTAAACC
*
34868027 CTAA-TATTTAATCCATTTTCCTAATTACATGTGGATTTTTACTTCTTTTCAACCCAAATTAGAA
64 CTAACTATTTAATCCATTTTCCTAATTACATGTGGATTTTTACTTCTTTTCAACCCTAATTAGAA
34868091 TTTCTCTTTTCTCTTCTTTAAATACATCTTTTTCTGTTATTCCCTCATTTCCTTTTCATAAAAAA
129 TTTCTCTTTTCTCTTCTTTAAATACATCTTTTTCTGTTATTCCCTCATTT-CTTTTCAT--AAAA
34868156 ATCTTCATCTTCTTTTGCTGAAAATTTTAATTTGATCCCGAGTTTGAAACCACGTCCCGTTCAAT
191 ATCTTCATCTTCTTTTGCTGAAAATTTTAATTTGATCCCGAGTTTGAAACCA-GTCCCGTTCAAT
* *
34868221 TTGTTCCTCGTATCAATTTCTC
255 CTGTTCCTCGTATCGATTTCTC
*
34868243 TTTTTTTTT-AATGTCGACAAAAATGAGTATTTTACCAATCAAGCCCTTAAATTTCTGAAACCCT
1 TTTTTTTTTCAATGTCGACAAAAATGAGTATTTTACCAATCAAGCCCTTAAATTTCTTAAACCCT
*
34868307 AACTATTTAATCCATTTTCCTAATTACATGTGGATTTTTACTTCTTTTCAACCCTAATTAAAATT
66 AACTATTTAATCCATTTTCCTAATTACATGTGGATTTTTACTTCTTTTCAACCCTAATTAGAATT
* * *
34868372 TCTCTTTTCTCTTATTTAAATACATCTTTTTTTGTTATTCCCTTATTTTCTTTTCATAAAAATCT
131 TCTCTTTTCTCTTCTTTAAATACATCTTTTTCTGTTATTCCCTCA-TTTCTTTTCATAAAAATCT
* * * * ** *
34868437 TCATCTTCTGTTGTTGGAAATTTTAATTTGATCCTGAGTTTGAAATTGAGTCTCGTTCAATCTGT
195 TCATCTTCTTTTGCTGAAAATTTTAATTTGATCCCGAGTTTGAAA-CCAGTCCCGTTCAATCTGT
34868502 TCCTCGTATCGATTT
259 TCCTCGTATCGATTT
34868517 ATAGTAACAT
Statistics
Matches: 496, Mismatches: 46, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
277 155 0.31
278 85 0.17
279 132 0.27
280 96 0.19
281 28 0.06
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.47
Consensus pattern (276 bp):
TTTTTTTTTCAATGTCGACAAAAATGAGTATTTTACCAATCAAGCCCTTAAATTTCTTAAACCCT
AACTATTTAATCCATTTTCCTAATTACATGTGGATTTTTACTTCTTTTCAACCCTAATTAGAATT
TCTCTTTTCTCTTCTTTAAATACATCTTTTTCTGTTATTCCCTCATTTCTTTTCATAAAAATCTT
CATCTTCTTTTGCTGAAAATTTTAATTTGATCCCGAGTTTGAAACCAGTCCCGTTCAATCTGTTC
CTCGTATCGATTTCTC
Found at i:34873997 original size:36 final size:34
Alignment explanation
Indices: 34873956--34874055 Score: 94
Period size: 39 Copynumber: 2.7 Consensus size: 34
34873946 ATTTATCTAC
34873956 AAGATAAACATTAAATTAAATTTAAAATTTGA-TATT
1 AAGATAAACATTAAATTAAATTTAAAA--T-ACTATT
*
34873992 AAGATAATCACTTTAATATTAAATTAATAAAATACTATT
1 AAGATAA--ACATTAA-ATTAAATT--TAAAATACTATT
* *
34874031 AAGATAAATATTCAATTAAATTTAA
1 AAGATAAACATTAAATTAAATTTAA
34874056 TATTAAACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
34 3 0.06
36 15 0.28
37 4 0.07
38 7 0.13
39 20 0.37
41 5 0.09
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (34 bp):
AAGATAAACATTAAATTAAATTTAAAATACTATT
Found at i:34874471 original size:26 final size:26
Alignment explanation
Indices: 34874442--34874549 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34874432 TGGTACAAAT
34874442 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34874468 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34874494 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34874520 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34874546 TGAT
1 TGAT
34874550 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34875296 original size:38 final size:37
Alignment explanation
Indices: 34875242--34875316 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 37
34875232 ATATTTTGAA
*
34875242 TTCTGTCCAATAAGAAATTTGATTCGTAATGAAGAGCG
1 TTCTGTACAATAAGAAATTTGATTCGTAAT-AAGAGCG
*
34875280 TTCTGTACAATGAGAAATTTGATTCGTAATAAGAGCG
1 TTCTGTACAATAAGAAATTTGATTCGTAATAAGAGCG
34875317 GTCAGATTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 7 0.20
38 28 0.80
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (37 bp):
TTCTGTACAATAAGAAATTTGATTCGTAATAAGAGCG
Found at i:34879721 original size:26 final size:26
Alignment explanation
Indices: 34879653--34879722 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
34879643 ACAGCTCTTA
* *
34879653 TGAGCATCCTGATATATATGGCTCTTCG
1 TGAGCTTCCTGAT-TA-AAGGCTCTTCG
**
34879681 TGAGCTTCCCT-ATTAAAGGCTCTTTT
1 TGAGCTT-CCTGATTAAAGGCTCTTCG
34879707 TGAGCTTCCTGATTAA
1 TGAGCTTCCTGATTAA
34879723 TAGCTCTCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.08
26 20 0.56
27 2 0.06
28 8 0.22
29 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (26 bp):
TGAGCTTCCTGATTAAAGGCTCTTCG
Found at i:34879728 original size:26 final size:26
Alignment explanation
Indices: 34879645--34879729 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
34879635 GACACACCAC
*
34879645 AGCTC-TTATGAGCATCCTGATATATAT
1 AGCTCTTTATGAGCTTCCTGAT-TA-AT
* **
34879672 GGCTCTTCGTGAGCTTCCCT-ATTAA-
1 AGCTCTTTATGAGCTT-CCTGATTAAT
*
34879697 AGGCTCTTTTTGAGCTTCCTGATTAAT
1 A-GCTCTTTATGAGCTTCCTGATTAAT
34879724 AGCTCT
1 AGCTCT
34879730 CAGGAGCTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
25 3 0.07
26 24 0.52
27 7 0.15
28 9 0.20
29 3 0.07
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (26 bp):
AGCTCTTTATGAGCTTCCTGATTAAT
Found at i:34881352 original size:7 final size:7
Alignment explanation
Indices: 34881340--34881367 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34881330 ACTCCGATAT
34881340 GAAATGA
1 GAAATGA
34881347 GAAATGA
1 GAAATGA
34881354 GAAATGA
1 GAAATGA
34881361 GAAATGA
1 GAAATGA
34881368 TATGAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (7 bp):
GAAATGA
Found at i:34885735 original size:6 final size:6
Alignment explanation
Indices: 34885724--34885749 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34885714 GGTCGTAACC
34885724 TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TT
34885750 ACATCGTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCCT
Found at i:34890906 original size:29 final size:30
Alignment explanation
Indices: 34890860--34890938 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
34890850 TTTGAAGTAC
* * *
34890860 AATTAAAATTTTACGTATATAATT-ACATTA
1 AATT-AAATTTAATGTATAGAATTAACATTA
*
34890890 AATTAAATTTCATGTATAGAATTACACATTA
1 AATTAAATTTAATGTATAGAATTA-ACATTA
*
34890921 AATTAAAATTAATGTATA
1 AATTAAATTTAATGTATA
34890939 ATTTTGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.38
30 4 0.10
31 22 0.52
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (30 bp):
AATTAAATTTAATGTATAGAATTAACATTA
Found at i:34891723 original size:9 final size:9
Alignment explanation
Indices: 34891705--34891746 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
34891695 TTAAATTTTA
34891705 TTTATAATT
1 TTTATAATT
*
34891714 TTTATGATT
1 TTTATAATT
34891723 TTTAATAATT
1 TTT-ATAATT
34891733 TTTA-AA-T
1 TTTATAATT
34891740 TTTATAA
1 TTTATAA
34891747 GATATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 5 0.17
8 4 0.14
9 12 0.41
10 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:34892532 original size:21 final size:21
Alignment explanation
Indices: 34892483--34892573 Score: 62
Period size: 21 Copynumber: 4.4 Consensus size: 21
34892473 GAATAAAAAA
34892483 ATAATTTTAAAAATTTTATAG
1 ATAATTTTAAAAATTTTATAG
* ** **
34892504 CTTTTTTTAAAAATTTTATTT
1 ATAATTTTAAAAATTTTATAG
* **
34892525 ATAATTTTTATGATTTT-TA-
1 ATAATTTTAAAAATTTTATAG
*
34892544 ATAATTTT-TAAATTTTATAAG
1 ATAATTTTAAAAATTTTAT-AG
*
34892565 ATATTTTTA
1 ATAATTTTA
34892574 GTTGCTGATT
Statistics
Matches: 50, Mismatches: 16, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
18 5 0.10
19 9 0.18
20 2 0.04
21 34 0.68
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (21 bp):
ATAATTTTAAAAATTTTATAG
Found at i:34892534 original size:9 final size:9
Alignment explanation
Indices: 34892522--34892563 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
34892512 AAAAATTTTA
34892522 TTTATAATT
1 TTTATAATT
*
34892531 TTTATGATT
1 TTTATAATT
34892540 TTTAATAATT
1 TTT-ATAATT
34892550 TTTA-AA-T
1 TTTATAATT
34892557 TTTATAA
1 TTTATAA
34892564 GATATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 5 0.17
8 4 0.14
9 12 0.41
10 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:34893270 original size:817 final size:817
Alignment explanation
Indices: 34891697--34893377 Score: 3362
Period size: 817 Copynumber: 2.1 Consensus size: 817
34891687 GTAATATTTT
34891697 AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTATAAGATATTTTTAGTTGC
1 AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTATAAGATATTTTTAGTTGC
34891762 TGATTAGACTCAAATCAGCCAATAAAGAAACAAGTTAAATTAATCAAGTTCTAAAATTTGTCAAG
66 TGATTAGACTCAAATCAGCCAATAAAGAAACAAGTTAAATTAATCAAGTTCTAAAATTTGTCAAG
34891827 TTGTAATATTTTATTATTATTTTCAACTTATTTAAACATAGATGTTTATGTAAATTGATATGTTG
131 TTGTAATATTTTATTATTATTTTCAACTTATTTAAACATAGATGTTTATGTAAATTGATATGTTG
34891892 GAATGAAAAATTAGAAGTTTATAATTCATATATTTTGTATCTCAGTACATTCCTTCATTAAAAAA
196 GAATGAAAAATTAGAAGTTTATAATTCATATATTTTGTATCTCAGTACATTCCTTCATTAAAAAA
34891957 TCCAACATTTTCTTGCTTTGCTTTGTGGGTTTTGATCTTTGAAGTTGTTTAATGAAAGAAGTAGT
261 TCCAACATTTTCTTGCTTTGCTTTGTGGGTTTTGATCTTTGAAGTTGTTTAATGAAAGAAGTAGT
34892022 AGTAAGCACACCACCATCCTTTGGTTTCAGCTGAATTCCATCATGGTTTTGCACAAGATTTTGGG
326 AGTAAGCACACCACCATCCTTTGGTTTCAGCTGAATTCCATCATGGTTTTGCACAAGATTTTGGG
34892087 ATGTTATGGAGAAATTAAAATAGAGGATGGAGGGTTTAGGGTTAGATAAGTTGAGATGGATATAG
391 ATGTTATGGAGAAATTAAAATAGAGGATGGAGGGTTTAGGGTTAGATAAGTTGAGATGGATATAG
34892152 TAAGACAAATAGAAATGCACCAAGATTTTGACTAAAGTAAAACTCAAAATTGATTAGTATTGAAA
456 TAAGACAAATAGAAATGCACCAAGATTTTGACTAAAGTAAAACTCAAAATTGATTAGTATTGAAA
34892217 TTATACAAATAGATGGATATACCTAATATGGTAAAAGTACCATAAAATCCTATTTTTCTATTGAA
521 TTATACAAATAGATGGATATACCTAATATGGTAAAAGTACCATAAAATCCTATTTTTCTATTGAA
34892282 AAAATTAAGTACATTATTCTTGTTAAAATTTGATGTATATAATAATAAATTTAATTCTCAATTTT
586 AAAATTAAGTACATTATTCTTGTTAAAATTTGATGTATATAATAATAAATTTAATTCTCAATTTT
34892347 TACATATTTATTCAATTTGACCTCTACTATTTTATTGGAAATAAATTAAAAAAATTTTGAAACTA
651 TACATATTTATTCAATTTGACCTCTACTATTTTATTGGAAATAAATTAAAAAAATTTTGAAACTA
34892412 ATACGGCTAAAGGGTCAAAAAGGCCTTAGTATAATTTTATTGGGTTGGTGCTGTTATTTTTGAAT
716 ATACGGCTAAAGGGTCAAAAAGGCCTTAGTATAATTTTATTGGGTTGGTGCTGTTATTTTTGAAT
34892477 AAAAAAATAATTTTAAAAATTTTATAGCTTTTTTTAA
781 AAAAAAATAATTTTAAAAATTTTATAGCTTTTTTTAA
34892514 AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTATAAGATATTTTTAGTTGC
1 AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTATAAGATATTTTTAGTTGC
34892579 TGATTAGACTCAAATCAGCCAATAAAGAAACAAGTTAAATTAATCAAGTTCTAAAATTTGTCAAG
66 TGATTAGACTCAAATCAGCCAATAAAGAAACAAGTTAAATTAATCAAGTTCTAAAATTTGTCAAG
34892644 TTGTAATATTTTATTATTATTTTCAACTTATTTAAACATAGATGTTTATGTAAATTGATATGTTG
131 TTGTAATATTTTATTATTATTTTCAACTTATTTAAACATAGATGTTTATGTAAATTGATATGTTG
34892709 GAATGAAAAATTAGAAGTTTATAATTCATATATTTTGTATCTCAGTACATTCCTTCATTAAAAAA
196 GAATGAAAAATTAGAAGTTTATAATTCATATATTTTGTATCTCAGTACATTCCTTCATTAAAAAA
34892774 TCCAACATTTTCTTGCTTTGCTTTGTGGGTTTTGATCTTTGAAGTTGTTTAATGAAAGAAGTAGT
261 TCCAACATTTTCTTGCTTTGCTTTGTGGGTTTTGATCTTTGAAGTTGTTTAATGAAAGAAGTAGT
34892839 AGTAAGCACACCACCATCCTTTGGTTTCAGCTGAATTCCATCATGGTTTTGCACAAGATTTTGGG
326 AGTAAGCACACCACCATCCTTTGGTTTCAGCTGAATTCCATCATGGTTTTGCACAAGATTTTGGG
34892904 ATGTTATGGAGAAATTAAAATAGAGGATGGAGGGTTTAGGGTTAGATAAGTTGAGATGGATATAG
391 ATGTTATGGAGAAATTAAAATAGAGGATGGAGGGTTTAGGGTTAGATAAGTTGAGATGGATATAG
34892969 TAAGACAAATAGAAATGCACCAAGATTTTGACTAAAGTAAAACTCAAAATTGATTAGTATTGAAA
456 TAAGACAAATAGAAATGCACCAAGATTTTGACTAAAGTAAAACTCAAAATTGATTAGTATTGAAA
34893034 TTATACAAATAGATGGATATACCTAATATGGTAAAAGTACCATAAAATCCTATTTTTCTATTGAA
521 TTATACAAATAGATGGATATACCTAATATGGTAAAAGTACCATAAAATCCTATTTTTCTATTGAA
34893099 AAAATTAAGTACATTATTCTTGTTAAAATTTGATGTATATAATAATAAATTTAATTCTCAATTTT
586 AAAATTAAGTACATTATTCTTGTTAAAATTTGATGTATATAATAATAAATTTAATTCTCAATTTT
34893164 TACATATTTATTCAATTTGACCTCTACTATTTTATTGGAAATAAATTAAAAAAATTTTGAAACTA
651 TACATATTTATTCAATTTGACCTCTACTATTTTATTGGAAATAAATTAAAAAAATTTTGAAACTA
34893229 ATACGGCTAAAGGGTCAAAAAGGCCTTAGTATAATTTTATTGGGTTGGTGCTGTTATTTTTGAAT
716 ATACGGCTAAAGGGTCAAAAAGGCCTTAGTATAATTTTATTGGGTTGGTGCTGTTATTTTTGAAT
34893294 AAAAAAATAATTTTAAAAATTTTATAGCTTTTTTTAA
781 AAAAAAATAATTTTAAAAATTTTATAGCTTTTTTTAA
34893331 AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTA
1 AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTA
34893378 AAAAGGATTA
Statistics
Matches: 864, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
817 864 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (817 bp):
AAATTTTATTTATAATTTTTATGATTTTTAATAATTTTTAAATTTTATAAGATATTTTTAGTTGC
TGATTAGACTCAAATCAGCCAATAAAGAAACAAGTTAAATTAATCAAGTTCTAAAATTTGTCAAG
TTGTAATATTTTATTATTATTTTCAACTTATTTAAACATAGATGTTTATGTAAATTGATATGTTG
GAATGAAAAATTAGAAGTTTATAATTCATATATTTTGTATCTCAGTACATTCCTTCATTAAAAAA
TCCAACATTTTCTTGCTTTGCTTTGTGGGTTTTGATCTTTGAAGTTGTTTAATGAAAGAAGTAGT
AGTAAGCACACCACCATCCTTTGGTTTCAGCTGAATTCCATCATGGTTTTGCACAAGATTTTGGG
ATGTTATGGAGAAATTAAAATAGAGGATGGAGGGTTTAGGGTTAGATAAGTTGAGATGGATATAG
TAAGACAAATAGAAATGCACCAAGATTTTGACTAAAGTAAAACTCAAAATTGATTAGTATTGAAA
TTATACAAATAGATGGATATACCTAATATGGTAAAAGTACCATAAAATCCTATTTTTCTATTGAA
AAAATTAAGTACATTATTCTTGTTAAAATTTGATGTATATAATAATAAATTTAATTCTCAATTTT
TACATATTTATTCAATTTGACCTCTACTATTTTATTGGAAATAAATTAAAAAAATTTTGAAACTA
ATACGGCTAAAGGGTCAAAAAGGCCTTAGTATAATTTTATTGGGTTGGTGCTGTTATTTTTGAAT
AAAAAAATAATTTTAAAAATTTTATAGCTTTTTTTAA
Found at i:34893349 original size:21 final size:21
Alignment explanation
Indices: 34893300--34893349 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
34893290 GAATAAAAAA
34893300 ATAATTTTAAAAATTTTATAG
1 ATAATTTTAAAAATTTTATAG
* ** **
34893321 CTTTTTTTAAAAATTTTATTT
1 ATAATTTTAAAAATTTTATAG
34893342 ATAATTTT
1 ATAATTTT
34893350 TATGATTTTT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATAATTTTAAAAATTTTATAG
Found at i:34893351 original size:9 final size:9
Alignment explanation
Indices: 34893339--34893376 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
34893329 AAAAATTTTA
34893339 TTTATAATT
1 TTTATAATT
*
34893348 TTTATGATT
1 TTTATAATT
34893357 TTTAATAATT
1 TTT-ATAATT
34893367 TTTA-AATT
1 TTTATAATT
34893375 TT
1 TT
34893377 AAAAAGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 6 0.23
9 12 0.46
10 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTATAATT
Found at i:34898143 original size:36 final size:35
Alignment explanation
Indices: 34898096--34898166 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
34898086 CTAATAACAC
*
34898096 GACGCTTTGTTGGAAGGGTAGGCTCTACATTCATA
1 GACGCTTTGTTGGAAGGATAGGCTCTACATTCATA
34898131 NGACGCTTTGTTGGAAGGATAGGCTCTACATTCATA
1 -GACGCTTTGTTGGAAGGATAGGCTCTACATTCATA
34898167 TCAAGTGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (35 bp):
GACGCTTTGTTGGAAGGATAGGCTCTACATTCATA
Found at i:34901740 original size:14 final size:15
Alignment explanation
Indices: 34901726--34901770 Score: 58
Period size: 14 Copynumber: 3.0 Consensus size: 15
34901716 AATATTATTT
34901726 ATTAAATTAATTTTA
1 ATTAAATTAATTTTA
34901741 ATT-AATTAATTTTCCA
1 ATTAAATTAATTTT--A
34901757 ATTAAA-TAATTTTA
1 ATTAAATTAATTTTA
34901771 TCAACCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 11 0.41
17 2 0.07
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTAAATTAATTTTA
Found at i:34901761 original size:16 final size:14
Alignment explanation
Indices: 34901730--34901770 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
34901720 TTATTTATTA
34901730 AATTAATTTTAATT
1 AATTAATTTTAATT
34901744 AATTAATTTTCCAATT
1 AATTAATTTT--AATT
*
34901760 AAATAATTTTA
1 AATTAATTTTA
34901771 TCAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTAATTTTAATT
Found at i:34903894 original size:38 final size:38
Alignment explanation
Indices: 34903793--34903894 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 38
34903783 ATACTGTATA
* * * *
34903793 CACGGTGCCGCCCTAAAGGACTAGCAGATAACCATTGT
1 CACGGTGTCGCCCTAAAGGACCAGTAGATAACCATCGT
* * * * *
34903831 CATGGTGTCACCCTGAAA-GATCAGTAGATAGCCGTCGT
1 CACGGTGTCGCCCT-AAAGGACCAGTAGATAACCATCGT
34903869 CACGGTGTCGCCCTAAAGGACCAGTA
1 CACGGTGTCGCCCTAAAGGACCAGTA
34903895 AATATCTCTT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 3 0.06
38 44 0.88
39 3 0.06
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (38 bp):
CACGGTGTCGCCCTAAAGGACCAGTAGATAACCATCGT
Found at i:34908637 original size:221 final size:221
Alignment explanation
Indices: 34908254--34908704 Score: 724
Period size: 221 Copynumber: 2.0 Consensus size: 221
34908244 AAATAGGCAA
34908254 TGTTATGCTCATATATGATTACTTGGATATGGTAGCTTCGATATTTGGATAATGATTGTATTTTG
1 TGTTATGCTCATATATGATTACTTGGATATGGTAGCTTCGATATTTGGATAATGATTGTATTTTG
*
34908319 ATAGCCTGATGTGGTGAGCTTGTATGTGCATTAATGGAATTGTGGTAAAATATGTTTGAAACAAT
66 ATAGCCTGATGTGATGAGCTTGTATGTGCATTAATGGAATTGTGGTAAAATATGTTTGAAACAAT
* * * * *
34908384 TGAATGGTATGTTTTAAATATGTTTTGATTGAGTTTGGAATGTTAAATGTGAATAAAGAACCATA
131 TGAATGGAATATTTTAAATATGTTTTGATTGAGATTAGAATATTAAATGTGAATAAAGAACCATA
*
34908449 TTTGAATAGTTTATGAATACATAGGT
196 TTTGAATAGTTGATGAATACATAGGT
* * * * *
34908475 TGTTATGCTCATATATGATTACTTGGATGTGGTAGCTTTGATCTTTTGATAATGCTTGTATTTTG
1 TGTTATGCTCATATATGATTACTTGGATATGGTAGCTTCGATATTTGGATAATGATTGTATTTTG
* * *
34908540 ATAGTCCT-ATGTGATGAGCTTGTATGTGCATTAATGGCATTGTGGTAAGATATGTTTGAAGCAA
66 ATAG-CCTGATGTGATGAGCTTGTATGTGCATTAATGGAATTGTGGTAAAATATGTTTGAAACAA
* *
34908604 TTGAATGGAATATTTTAAATATGTTTTGATTGAGATTAGAATATTAAATGTGAATGAATAACCAT
130 TTGAATGGAATATTTTAAATATGTTTTGATTGAGATTAGAATATTAAATGTGAATAAAGAACCAT
*
34908669 GTTTGAATAGTTGATGAATACATAGGT
195 ATTTGAATAGTTGATGAATACATAGGT
34908696 TGTTATGCT
1 TGTTATGCT
34908705 TAACAAAGTG
Statistics
Matches: 211, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
221 208 0.99
222 3 0.01
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.41
Consensus pattern (221 bp):
TGTTATGCTCATATATGATTACTTGGATATGGTAGCTTCGATATTTGGATAATGATTGTATTTTG
ATAGCCTGATGTGATGAGCTTGTATGTGCATTAATGGAATTGTGGTAAAATATGTTTGAAACAAT
TGAATGGAATATTTTAAATATGTTTTGATTGAGATTAGAATATTAAATGTGAATAAAGAACCATA
TTTGAATAGTTGATGAATACATAGGT
Found at i:34910359 original size:43 final size:43
Alignment explanation
Indices: 34910239--34910359 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
34910229 AGCTCGTATA
* * * **
34910239 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCAAATATTG
1 ATGCCAATATCCCAGACATGGCCTTACATGTAATCAAATAACG
* * ***
34910281 ATGCCACTATCCCAGACAGGGTCC-TACACAAAATCAAATAACG
1 ATGCCAATATCCCAGACATGG-CCTTACATGTAATCAAATAACG
*
34910324 ATGCCAATGTCCCAGACATGGCCTTACATGTAATCA
1 ATGCCAATATCCCAGACATGGCCTTACATGTAATCA
34910360 TATCTCGATA
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
42 7 0.12
43 52 0.87
44 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGCCTTACATGTAATCAAATAACG
Found at i:34910654 original size:16 final size:16
Alignment explanation
Indices: 34910633--34910663 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34910623 TTCTTGATCT
34910633 ATATGAATTCAAAATA
1 ATATGAATTCAAAATA
34910649 ATATGAATTCAAAAT
1 ATATGAATTCAAAAT
34910664 TAACTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
ATATGAATTCAAAATA
Found at i:34918524 original size:19 final size:20
Alignment explanation
Indices: 34918502--34918542 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34918492 CAAAATAGTG
*
34918502 AAAAAAACAA-AAAAAATAA
1 AAAAAAACAAGAAAAAAGAA
*
34918521 AAAAAAATAAGAAAAAAGAA
1 AAAAAAACAAGAAAAAAGAA
34918541 AA
1 AA
34918543 TAGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.88, C:0.02, G:0.05, T:0.05
Consensus pattern (20 bp):
AAAAAAACAAGAAAAAAGAA
Found at i:34925727 original size:139 final size:139
Alignment explanation
Indices: 34925532--34926645 Score: 2120
Period size: 139 Copynumber: 8.0 Consensus size: 139
34925522 TCTACTTAAA
* * *
34925532 GATATTGTGATATCCTCGTACTGATAATATGATATATTATTGACTTATTTGATTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
* *
34925597 ACGGTTTCTTATCATTTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34925662 TAATTTTAT
131 TAATTTTAT
34925671 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
34925736 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34925801 TAATTTTAT
131 TAATTTTAT
34925810 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
34925875 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34925940 TAATTTTAT
131 TAATTTTAT
34925949 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
34926014 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34926079 TAATTTTAT
131 TAATTTTAT
34926088 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
34926153 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34926218 TAATTTTAT
131 TAATTTTAT
34926227 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
34926292 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34926357 TAATTTTAT
131 TAATTTTAT
34926366 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
34926431 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34926496 TAATTTTAT
131 TAATTTTAT
** * * *
34926505 GATATTACGATATCCTCGTACTGATAATATGATATATTATTGACTAATTTGGTTCTTTGTTGACA
1 GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
* *
34926570 ACCGTTTTTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGATTGTGACTTATAAG
66 ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
34926635 TAATTTTAT
131 TAATTTTAT
34926644 GA
1 GA
34926646 ATATAATTTT
Statistics
Matches: 963, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 963 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.47
Consensus pattern (139 bp):
GATATTGTGATATCCTTGTACTGATAATATGATATGTTATTGACTTATTTGGTTCTTTGTTGACA
ACCGTTTCTTATCATGTAGTTTTTAAATTTCTTTACATTAGCAAAGTATGGTTGTGACTTATAAG
TAATTTTAT
Found at i:34935829 original size:26 final size:26
Alignment explanation
Indices: 34935799--34935868 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
34935789 CATTATATAC
34935799 TATTTTAAATTATTTTACAT-ATTATT
1 TATTTTAAATT-TTTTACATAATTATT
*
34935825 TATTTT-AATTTTTTATATACATTATT
1 TATTTTAAATTTTTTACATA-ATTATT
*
34935851 TATTTTAAA-CTTTTACAT
1 TATTTTAAATTTTTTACAT
34935869 GTTGTTTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 7 0.18
25 4 0.11
26 25 0.66
27 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (26 bp):
TATTTTAAATTTTTTACATAATTATT
Found at i:34935986 original size:24 final size:24
Alignment explanation
Indices: 34935941--34935986 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
34935931 TATTTTATGT
***
34935941 ATATTATTTATTTAATTTTTTTAC
1 ATATTATTTATTTAAGACTTTTAC
*
34935965 ATATTATTTATTTTAGACTTTT
1 ATATTATTTATTTAAGACTTTT
34935987 TATTAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (24 bp):
ATATTATTTATTTAAGACTTTTAC
Found at i:34936024 original size:24 final size:25
Alignment explanation
Indices: 34935997--34936051 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
34935987 TATTAATGAT
* *
34935997 TTTAAATTG-TTTTGTATTATTTAC
1 TTTAAATTGCTTTTATAGTATTTAC
* *
34936021 TTTAGATTGCTTTTATAGTATTTAT
1 TTTAAATTGCTTTTATAGTATTTAC
34936046 TTTAAA
1 TTTAAA
34936052 ACTTTTATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.60
Consensus pattern (25 bp):
TTTAAATTGCTTTTATAGTATTTAC
Found at i:34937673 original size:15 final size:15
Alignment explanation
Indices: 34937653--34937700 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
34937643 TGAGTGACTT
34937653 AATTTATGTATTGGA
1 AATTTATGTATTGGA
*
34937668 AATTTAT-TCTT---
1 AATTTATGTATTGGA
34937679 AATTTATGTATTGGA
1 AATTTATGTATTGGA
34937694 AATTTAT
1 AATTTAT
34937701 TTGAGTGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 7 0.26
12 3 0.11
14 3 0.11
15 14 0.52
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (15 bp):
AATTTATGTATTGGA
Found at i:34937681 original size:26 final size:26
Alignment explanation
Indices: 34937650--34937701 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34937640 GTTTGAGTGA
34937650 CTTAATTTATGTATTGGAAATTTATT
1 CTTAATTTATGTATTGGAAATTTATT
34937676 CTTAATTTATGTATTGGAAATTTATT
1 CTTAATTTATGTATTGGAAATTTATT
34937702 TGAGTGATCA
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:0.31, C:0.04, G:0.12, T:0.54
Consensus pattern (26 bp):
CTTAATTTATGTATTGGAAATTTATT
Found at i:34938460 original size:24 final size:24
Alignment explanation
Indices: 34938433--34938494 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
34938423 AAGGCTATGC
**
34938433 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACAT
*
34938457 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACAT
34938481 GGCACTATGTGTGC
1 GGCACTATGTGTGC
34938495 AAATAAGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:34942603 original size:15 final size:15
Alignment explanation
Indices: 34942585--34942693 Score: 92
Period size: 15 Copynumber: 7.5 Consensus size: 15
34942575 ATTGCTATTA
34942585 TTATTATGTT-TCTAT
1 TTATTAT-TTATCTAT
34942600 TTA-TATTTAT-T-T
1 TTATTATTTATCTAT
34942612 TT-TTATTCTAATACTA-
1 TTATTATT-T-AT-CTAT
*
34942628 TTATTATTTATCTAA
1 TTATTATTTATCTAT
34942643 TTATTATTTATCTAT
1 TTATTATTTATCTAT
34942658 TTA-TATTTATACTA-
1 TTATTATTTAT-CTAT
34942672 TTATTATATT-TCTAT
1 TTATTAT-TTATCTAT
34942687 TTATTAT
1 TTATTAT
34942694 ATTTTTATTT
Statistics
Matches: 80, Mismatches: 1, Indels: 26
0.75 0.01 0.24
Matches are distributed among these distances:
12 7 0.09
13 4 0.05
14 22 0.28
15 36 0.45
16 6 0.08
17 5 0.06
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (15 bp):
TTATTATTTATCTAT
Found at i:34942661 original size:44 final size:43
Alignment explanation
Indices: 34942583--34942738 Score: 144
Period size: 44 Copynumber: 3.6 Consensus size: 43
34942573 TTATTGCTAT
* * *
34942583 TATTATTATGTTTCTATTTA-TATTTATTTTTTTATTCTAATAC
1 TATTATTATATTTCTAATTATTATTTATTTATTTATT-TAATAC
* *
34942626 TATTATTAT-TTATCTAATTATTATTTATCTATTTATATTTATAC
1 TATTATTATATT-TCTAATTATTATTTATTTATTTAT-TTAATAC
*
34942670 TATTATTATATTTCTATTTATTATATT-TTTATTTCTATTTATATAC
1 TATTATTATATTTCTAATTATTAT-TTATTTA-TT-TATTTA-ATAC
*
34942716 TAATATTAT-TTTC--ATTATTATTT
1 TATTATTATATTTCTAATTATTATTT
34942739 TTCTTATATA
Statistics
Matches: 96, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
43 23 0.24
44 41 0.43
45 13 0.14
46 15 0.16
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (43 bp):
TATTATTATATTTCTAATTATTATTTATTTATTTATTTAATAC
Found at i:34942702 original size:29 final size:30
Alignment explanation
Indices: 34942571--34942693 Score: 110
Period size: 29 Copynumber: 4.2 Consensus size: 30
34942561 TAATTTAATA
** *
34942571 TATTATTGCTATTATTATTATGTTTCTATT
1 TATTATTTATATTATTATTATATTTCTATT
* * * * *
34942601 TA-TATTTATTTTTTTATTCTAATACTA-T
1 TATTATTTATATTATTATTATATTTCTATT
* *
34942629 TATTATTTATCTAATTATTAT-TTATCTATT
1 TATTATTTATATTATTATTATATT-TCTATT
*
34942659 TA-TATTTATACTATTATTATATTTCTATT
1 TATTATTTATATTATTATTATATTTCTATT
34942688 TATTAT
1 TATTAT
34942694 ATTTTTATTT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
28 4 0.06
29 57 0.80
30 10 0.14
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTATTTATATTATTATTATATTTCTATT
Found at i:34943516 original size:12 final size:13
Alignment explanation
Indices: 34943499--34943536 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
34943489 ATCCTGGAAT
34943499 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
34943511 ATTAAGAACACATA
1 ATTAAGAACA-AGA
34943525 ATTAAGAACAAG
1 ATTAAGAACAAG
34943537 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:34943827 original size:15 final size:15
Alignment explanation
Indices: 34943807--34943836 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34943797 TTCTAAATGC
34943807 CTCCTCAGATATTTA
1 CTCCTCAGATATTTA
34943822 CTCCTCAGATATTTA
1 CTCCTCAGATATTTA
34943837 AATAGGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
CTCCTCAGATATTTA
Found at i:34947514 original size:30 final size:30
Alignment explanation
Indices: 34947465--34947599 Score: 96
Period size: 30 Copynumber: 4.8 Consensus size: 30
34947455 NNNNNTGGAG
34947465 TAGGTAATGGATG-AAGTGTGGCTAGGGGAA
1 TAGGTAATGGA-GCAAGTGTGGCTAGGGGAA
** * * *
34947495 -ATGGTGGTGGAGCAAGTGTGGTTAGTGGAG
1 TA-GGTAATGGAGCAAGTGTGGCTAGGGGAA
34947525 TAGGTAATGGAGCAAGTGTGGCTA---G--
1 TAGGTAATGGAGCAAGTGTGGCTAGGGGAA
* * *
34947550 T--G---TGGAGCAAGTGTGGTTAGTGGAG
1 TAGGTAATGGAGCAAGTGTGGCTAGGGGAA
34947575 TAGGTAATGGAGCAAGTGTGGCTAG
1 TAGGTAATGGAGCAAGTGTGGCTAG
34947600 TGGATTTGGT
Statistics
Matches: 82, Mismatches: 10, Indels: 26
0.69 0.08 0.22
Matches are distributed among these distances:
20 16 0.20
23 2 0.02
25 2 0.02
27 2 0.02
29 2 0.02
30 57 0.70
31 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.44, T:0.25
Consensus pattern (30 bp):
TAGGTAATGGAGCAAGTGTGGCTAGGGGAA
Found at i:34947557 original size:20 final size:20
Alignment explanation
Indices: 34947532--34947571 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
34947522 GAGTAGGTAA
34947532 TGGAGCAAGTGTGGCTAGTG
1 TGGAGCAAGTGTGGCTAGTG
*
34947552 TGGAGCAAGTGTGGTTAGTG
1 TGGAGCAAGTGTGGCTAGTG
34947572 GAGTAGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.45, T:0.28
Consensus pattern (20 bp):
TGGAGCAAGTGTGGCTAGTG
Found at i:34947576 original size:50 final size:50
Alignment explanation
Indices: 34947501--34947601 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
34947491 GGAAATGGTG
34947501 GTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGT
1 GTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGT
34947551 GTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGT
1 GTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGT
34947601 G
1 G
34947602 GATTTGGTGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.24, C:0.06, G:0.45, T:0.26
Consensus pattern (50 bp):
GTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGT
Found at i:34947601 original size:30 final size:30
Alignment explanation
Indices: 34947590--34947678 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
34947580 AATGGAGCAA
* *
34947590 GTGTGGCTAGTGGATTTGGTGGTGGAAAAT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
34947620 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
34947650 GTGTGGCTAGTGGAGTTGGTGGTGGAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAA
34947679 AGCTAAGATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.20, C:0.03, G:0.47, T:0.29
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:34947624 original size:60 final size:60
Alignment explanation
Indices: 34947560--34947678 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
34947550 TGTGGAGCAA
* * *
34947560 GTGTGGTTAGTGGAGTAGGTAATGGAGCAA-GTGTGGCTAGTGGATTTGGTGGTGGAAAAT
1 GTGTGGCTAGTGGAGTAGGTAATGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAT
* **
34947620 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAA
1 GTGTGGCTAGTGGAGTAGGTAATGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAA
34947679 AGCTAAGATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 2 0.04
60 50 0.96
ACGTcount: A:0.22, C:0.03, G:0.46, T:0.29
Consensus pattern (60 bp):
GTGTGGCTAGTGGAGTAGGTAATGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAT
Found at i:34947654 original size:110 final size:110
Alignment explanation
Indices: 34947460--34947661 Score: 275
Period size: 110 Copynumber: 1.8 Consensus size: 110
34947450 NNNNNNNNNN
* *
34947460 TGGAGTAGGTAATGGATGAAGTGTGGCTAGGGGAAATGGTGGTGGAGCAAGTGTGGTTAGTGGAG
1 TGGAGTAGGTAATGGATGAAGTGTGGCTAGGGGAAATGGTGGTGGAGAAAGTGTGGCTAGTGGAG
*
34947525 TAGGTAATGGAGCAAGTGTGGCTAGTGTGGAGCAAGTGTGGTTAG
66 TAGGTAATGGAGAAAGTGTGGCTAGTGTGGAGCAAGTGTGGTTAG
* **
34947570 TGGAGTAGGTAATGGA-GCAAGTGTGGCTAGTGGATTTGGTGGTGGA-AAATGTGTGGCTAGTGG
1 TGGAGTAGGTAATGGATG-AAGTGTGGCTAGGGGAAATGGTGGTGGAGAAA-GTGTGGCTAGTGG
* **
34947633 AGTTGGTGGTGGA-AAAGGTGTGGCTAGTG
64 AGTAGGTAATGGAGAAA-GTGTGGCTAGTG
34947662 GAGTTGGTGG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
109 5 0.06
110 75 0.94
ACGTcount: A:0.23, C:0.04, G:0.46, T:0.27
Consensus pattern (110 bp):
TGGAGTAGGTAATGGATGAAGTGTGGCTAGGGGAAATGGTGGTGGAGAAAGTGTGGCTAGTGGAG
TAGGTAATGGAGAAAGTGTGGCTAGTGTGGAGCAAGTGTGGTTAG
Found at i:34948577 original size:15 final size:15
Alignment explanation
Indices: 34948544--34948591 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
34948534 GATTTTTTTA
* *
34948544 AAAAAGCAGAATTTG
1 AAAAAGCAAAAATTG
*
34948559 -AAAAGCATAAATTG
1 AAAAAGCAAAAATTG
*
34948573 AAAAAACAAAAATTG
1 AAAAAGCAAAAATTG
34948588 AAAA
1 AAAA
34948592 TACCTCAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.17
Consensus pattern (15 bp):
AAAAAGCAAAAATTG
Found at i:34948707 original size:89 final size:89
Alignment explanation
Indices: 34948555--34949021 Score: 713
Period size: 89 Copynumber: 5.2 Consensus size: 89
34948545 AAAAGCAGAA
* * * *
34948555 TTTGAAAAGCATAAATTGAAAAAACAAAAATTGAAAATACCTCAGGGTGCCCTGAGGCTCAACTC
1 TTTGAAGAGCAGAAATTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
*
34948620 ACCTCTCGCAATATAAGTTGATTTT
65 ACCTCTCGCAATATGAGTTGATTTT
* * *
34948645 TTTGAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
1 TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
* *
34948710 CCTTTCGCAATATGAGTTGACTTT
66 CCTCTCGCAATATGAGTTGATTTT
* * *
34948734 TTTGAAGATCAGAAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGTCTCAACTCA
1 TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
34948799 CCTCTCGCAATATGAGTTGATTTTT
66 CCTCTCGCAATATGAGTTGA-TTTT
* *
34948824 TTTGAAGAGCAGAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCA
1 TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
34948889 CCTCTCGCAATATGAGTTGATTTT
66 CCTCTCGCAATATGAGTTGATTTT
* * * * *
34948913 TTTGAAGAGTAGAAATTGAAAAATAGAAATTGAAAACATCTCAGCGTGCCCTGAGGCTTAACTCA
1 TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
34948978 CCTCTCGCAATATGAGTTGATTTT
66 CCTCTCGCAATATGAGTTGATTTT
34949002 TTTGACA-A-CAGAAATTGAAA
1 TTTGA-AGAGCAGAAATTGAAA
34949022 TTACCTCAGC
Statistics
Matches: 344, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
88 11 0.03
89 233 0.68
90 100 0.29
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (89 bp):
TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTT
Found at i:34948866 original size:268 final size:252
Alignment explanation
Indices: 34948555--34949097 Score: 737
Period size: 268 Copynumber: 2.1 Consensus size: 252
34948545 AAAAGCAGAA
* *
34948555 TTTGAAAAGCATAAATTGAAAAAACAAAAATTGAAAATACCTCAGGGTGCCCTGAGGCTCAACTC
1 TTTGAAAAGCAGAAATTG-AAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
* * *
34948620 ACCTCTCGCAATATAAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACC
65 ACCTCTCGCAATATAAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATCGAAAACACC
*
34948685 TCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGACTTTTTTGA-AGATCAGAAA
130 TCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGACA-A-CAGAAA
*
34948749 TTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGTCTCAACTCACCTCTCGCAATATGA
193 -T------T-GAAA-T-----TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
34948814 GTTGATTTTT
244 GTTGA-TTTT
* * *
34948824 TTTGAAGAGCAGAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCA
1 TTTGAAAAGCAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
* * * * *
34948889 CCTCTCGCAATATGAGTTGATTTTTTTGAAGAGTAGAAATTGAAAAATAGAAATTGAAAACATCT
66 CCTCTCGCAATATAAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATCGAAAACACCT
* *
34948954 CAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTG
131 CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGACAACAGAAATTG
* *
34949019 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
196 AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
34949076 TTTGAAAAACAGAAATTGAAAA
1 TTTGAAAAGCAGAAATTGAAAA
34949098 TACCTCAGCA
Statistics
Matches: 252, Mismatches: 21, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
252 24 0.10
253 46 0.18
258 1 0.00
259 4 0.02
260 1 0.00
266 1 0.00
267 6 0.02
268 152 0.60
269 17 0.07
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (252 bp):
TTTGAAAAGCAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
CCTCTCGCAATATAAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATCGAAAACACCT
CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGACAACAGAAATTG
AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:34948876 original size:179 final size:177
Alignment explanation
Indices: 34948567--34949097 Score: 750
Period size: 179 Copynumber: 3.1 Consensus size: 177
34948557 TGAAAAGCAT
* * *
34948567 AAATTGAAAAAACAAAAATTGAAAATACCTCAGGGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTG-AAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
34948632 ATAAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCT
65 ATGAGTTGATTTTTTTGAAGAGCAGAAATT-GAAAACAGAAATTGAAATTACCTCAGCGTGCCCT
* *
34948697 GAGGCTCAACTCACCTTTCGCAATATGAGTTGACTTTTTTGAAGATCAG
129 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGATCAG
*
34948746 AAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGTCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
34948811 TGAGTTGATTTTTTTTGAAGAGCAGAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCT
66 TGAGTTGA-TTTTTTTGAAGAGCAGAAATTG-AAAACAGAAATTGAAATTACCTCAGCGTGCCCT
34948876 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGT-AG
129 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGA-TCAG
* * *
34948925 AAATTGAAAAATAGAAATTGAAAACATCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATA
1 AAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
34948990 TGAGTTGATTTTTTT---GA-C----------AACAGAAATTGAAATTACCTCAGCGTGTCCTGA
66 TGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAACAGAAATTGAAATTACCTCAGCGTGCCCTGA
* * *
34949041 GGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACAG
131 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGATCAG
34949088 AAATTGAAAA
1 AAATTGAAAA
34949098 TACCTCAGCA
Statistics
Matches: 328, Mismatches: 20, Indels: 24
0.88 0.05 0.06
Matches are distributed among these distances:
163 84 0.26
174 1 0.00
175 2 0.01
178 70 0.21
179 170 0.52
180 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (177 bp):
AAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAACAGAAATTGAAATTACCTCAGCGTGCCCTGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGATCAG
Found at i:34948939 original size:14 final size:14
Alignment explanation
Indices: 34948922--34948948 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34948912 TTTTGAAGAG
34948922 TAGAAATTGAAAAA
1 TAGAAATTGAAAAA
34948936 TAGAAATTGAAAA
1 TAGAAATTGAAAA
34948949 CATCTCAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (14 bp):
TAGAAATTGAAAAA
Found at i:34949181 original size:76 final size:75
Alignment explanation
Indices: 34948928--34949379 Score: 534
Period size: 76 Copynumber: 6.0 Consensus size: 75
34948918 AGAGTAGAAA
* * * * * * *
34948928 TTGAAAAATAGAAATTGAAAACATCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34948993 GTTGATTTTT
66 GTTGATTTTT
* * * * *
34949003 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34949067 GTTGATTTTT
66 GTTGATTTTT
** **
34949077 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCATAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34949142 GTTGATTTTTT
66 GTTGA-TTTTT
* * **
34949153 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGACTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
34949218 GTTGA--ATT
66 GTTGATTTTT
* * * **
34949226 TTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34949290 GTTGAATTTTTTTT
66 GTTG-A---TTTTT
* * * *
34949304 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAATCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
*
34949369 GAGCTGATTTT
64 GAGTTGATTTT
34949380 GAAAAAGTAG
Statistics
Matches: 330, Mismatches: 36, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
72 60 0.18
73 6 0.02
74 66 0.20
75 62 0.19
76 71 0.22
77 4 0.01
78 5 0.02
79 26 0.08
80 1 0.00
81 29 0.09
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:34949316 original size:151 final size:149
Alignment explanation
Indices: 34948928--34949398 Score: 549
Period size: 151 Copynumber: 3.1 Consensus size: 149
34948918 AGAGTAGAAA
* * * * * * **
34948928 TTGAAAAATAGAAATTGAAAACATCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * * *
34948993 GTTGA-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGACTCAACTAACCTCT
* *
34949057 CGTAATATGAGTTGATTTTT
131 CGCAATATGAGTTGA-TATT
* **
34949077 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCATAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* **
34949142 GTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGACTCAACTAATTTC
66 GTTGATTTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGACTCAACTAACCTC
34949207 TCGCAATATGAGTTGA-ATT
130 TCGCAATATGAGTTGATATT
* *
34949226 TTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
** * *
34949290 GTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAATCGAGGCTCAACTC
66 GTTG-A--TTTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCATGT-CCT-GAGACTCAACTA
* *
34949355 ACCTCTCACAATATGAGCTG--ATT
125 ACCTCTCGCAATATGAGTTGATATT
*
34949378 TTGAAAAAGTAGAAATT-AAAA
1 TTGAAAAA-CAGAAATTGAAAA
34949399 GGTTCAACCC
Statistics
Matches: 276, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
148 60 0.22
149 65 0.24
150 11 0.04
151 93 0.34
152 7 0.03
153 33 0.12
154 7 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (149 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGACTCAACTAACCTCT
CGCAATATGAGTTGATATT
Found at i:34949448 original size:54 final size:55
Alignment explanation
Indices: 34949348--34949453 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
34949338 GAATCGAGGC
* *
34949348 TCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCACAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
34949402 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCACAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
34949454 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCACAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:34949460 original size:13 final size:13
Alignment explanation
Indices: 34949433--34949466 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34949423 GAGTTGATTC
*
34949433 TTGAACAACATAAA
1 TTGAA-AACAGAAA
34949447 TTGAAAACAGAAA
1 TTGAAAACAGAAA
34949460 TTGAAAA
1 TTGAAAA
34949467 TACCTTAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:34949588 original size:54 final size:54
Alignment explanation
Indices: 34949488--34949593 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
34949478 GACCTGAGGC
*
34949488 TCAACTCACCTCTCGCAATATGAGCTGATTTTAAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTAAAAAAGTA-AAATTGAAAAGGT
* * * *
34949542 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TT-AAAAAAGTAAAATTGAAAA
34949594 TAGAAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 32 0.73
55 6 0.14
56 6 0.14
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTAAAAAAGTAAAATTGAAAAGGT
Found at i:34949602 original size:13 final size:13
Alignment explanation
Indices: 34949584--34949608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34949574 TGAACAACGT
34949584 AAATTGAAAATAG
1 AAATTGAAAATAG
34949597 AAATTGAAAATA
1 AAATTGAAAATA
34949609 CCTTAGCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:34949663 original size:140 final size:140
Alignment explanation
Indices: 34949304--34949651 Score: 590
Period size: 140 Copynumber: 2.5 Consensus size: 140
34949294 AATTTTTTTT
* * *
34949304 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGA-ATCGAGGCTCAACTCACCTCTCACAATA
1 TTGAAA-ACAGAAATTGAAAATACCTTAGC--GTGACCT-GAGGCTCAACTCACCTCTCGCAATA
*
34949368 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
34949433 TTGAACAACATAAA
127 TTGAACAACATAAA
34949447 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
34949512 CTGATTTTAAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
34949577 ACAACGTAAA
131 ACAACATAAA
*
34949587 TTGAAAATAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
34949652 TTGAAATTAA
Statistics
Matches: 197, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
140 168 0.85
141 1 0.01
142 22 0.11
143 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACATAAA
Found at i:34949718 original size:72 final size:72
Alignment explanation
Indices: 34949584--34949749 Score: 201
Period size: 72 Copynumber: 2.3 Consensus size: 72
34949574 TGAACAACGT
* * * * * * * *
34949584 AAATTG-AAAATAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAAAAATTAAAAATACCTCAACGTGACCCGAGACTCAACTCACCTCTAGCAATA
34949648 TGAGTTG
66 TGAGTTG
*
34949655 AAATT-AAAACACAAAAATTAAAAATACCTCAACGTGCCCCGAGACTCAACTCACCTCTAGCAAT
1 AAATTGAAAA-ACAAAAATTAAAAATACCTCAACGTGACCCGAGACTCAACTCACCTCTAGCAAT
34949719 ATGAGTTG
65 ATGAGTTG
** *
34949727 ATTTTGAAAAATAAAAATTAAAA
1 AAATTGAAAAACAAAAATTAAAA
34949750 GGCTTAACTC
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
71 8 0.10
72 68 0.85
73 4 0.05
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (72 bp):
AAATTGAAAAACAAAAATTAAAAATACCTCAACGTGACCCGAGACTCAACTCACCTCTAGCAATA
TGAGTTG
Found at i:34950152 original size:79 final size:78
Alignment explanation
Indices: 34949933--34950155 Score: 319
Period size: 76 Copynumber: 2.9 Consensus size: 78
34949923 CAGAAATTGA
* * *
34949933 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTTGCCACTCGCAATACGAGT
1 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
34949998 TGA--TTTTTTTG
66 TGATTTTTTTTTG
* * * * **
34950009 ACAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
34950072 TGATTTTTTTTTG
66 TGATTTTTTTTTG
*
34950085 AAAGACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAG
1 AAA-ACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
34950150 TTGATT
65 TTGATT
34950156 CTTTCAAAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
74 31 0.25
76 36 0.29
77 25 0.20
79 34 0.27
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (78 bp):
AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
TGATTTTTTTTTG
Found at i:34950244 original size:88 final size:88
Alignment explanation
Indices: 34950083--34950331 Score: 390
Period size: 88 Copynumber: 2.8 Consensus size: 88
34950073 GATTTTTTTT
** *
34950083 TGAAAGACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACG
1 TGAAA-ACAGAAATTGAAAATACCTC-G-GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
*
34950148 AGTTGATTCTTTCAAAAACATAATAA
63 AGCTGATTCTTTCAAAAACATAATAA
*
34950174 TGAAAACAAAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
34950239 TGATTCTTTCAAAAACATAATAA
66 TGATTCTTTCAAAAACATAATAA
* * * *
34950262 TGAAGACAGAAATTGAAAATACATTGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
34950327 TGATT
66 TGATT
34950332 TTGAAAAAGT
Statistics
Matches: 148, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
88 123 0.83
89 1 0.01
90 19 0.13
91 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (88 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
TGATTCTTTCAAAAACATAATAA
Found at i:34950506 original size:72 final size:72
Alignment explanation
Indices: 34950356--34950550 Score: 232
Period size: 72 Copynumber: 2.7 Consensus size: 72
34950346 ATTAAAAGGT
* * * * * * * * * *
34950356 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTTATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAGCATGC
*
34950421 CCTGAGGC
65 CCCGAGGC
*
34950429 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCATGC
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAGCATGC
34950493 CCCGAGGC
65 CCCGAGGC
* *
34950501 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAA
34950551 GGCTTAACTC
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
71 7 0.07
72 67 0.64
73 31 0.30
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAGCATGCC
CCGAGGC
Found at i:34951699 original size:35 final size:36
Alignment explanation
Indices: 34951624--34951699 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 36
34951614 AGCATAATAT
* **
34951624 TTCTTCACAGCATCTGAGTTCACTGGATTTGACAAC
1 TTCTTTACAGCATCTGAGTTCACTGGATTCAACAAC
34951660 -TCTTTACAGCATCTGAGTTCACTGGATTCAAC-AC
1 TTCTTTACAGCATCTGAGTTCACTGGATTCAACAAC
34951694 TTCTTT
1 TTCTTT
34951700 CCCATCCATC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (36 bp):
TTCTTTACAGCATCTGAGTTCACTGGATTCAACAAC
Found at i:34959085 original size:12 final size:12
Alignment explanation
Indices: 34959065--34959130 Score: 81
Period size: 12 Copynumber: 6.0 Consensus size: 12
34959055 TGGGATATGC
*
34959065 AATGTATGAATG
1 AATGCATGAATG
34959077 AATGCATGAATG
1 AATGCATGAATG
34959089 AATGCATGAATG
1 AATGCATGAATG
34959101 --T-C---AATG
1 AATGCATGAATG
34959107 AATGCATGAATG
1 AATGCATGAATG
34959119 AATGCATGAATG
1 AATGCATGAATG
34959131 TCAAATGAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
6 4 0.09
8 1 0.02
9 2 0.04
10 1 0.02
12 39 0.83
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:34959107 original size:30 final size:31
Alignment explanation
Indices: 34959073--34959141 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 31
34959063 GCAATGTATG
34959073 AATGAATGCATGAATGAATGCATGAATGTC-
1 AATGAATGCATGAATGAATGCATGAATGTCA
34959103 AATGAATGCATGAATGAATGCATGAATGTCA
1 AATGAATGCATGAATGAATGCATGAATGTCA
34959134 AATGAATG
1 AATGAATG
34959142 TCAGTCATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.79
31 8 0.21
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (31 bp):
AATGAATGCATGAATGAATGCATGAATGTCA
Found at i:34959141 original size:4 final size:4
Alignment explanation
Indices: 34959065--34959130 Score: 69
Period size: 4 Copynumber: 16.0 Consensus size: 4
34959055 TGGGATATGC
* * * *
34959065 AATG TATG AATG AATG CATG AATG AATG CATG AATG TCAATG AATG CATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG --AATG AATG AATG
*
34959115 AATG AATG CATG AATG
1 AATG AATG AATG AATG
34959131 TCAAATGAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
4 46 0.92
6 4 0.08
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (4 bp):
AATG
Found at i:34961488 original size:3 final size:3
Alignment explanation
Indices: 34961480--34961513 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
34961470 ATATAAAAGC
*
34961480 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34961514 TGAAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:34961880 original size:72 final size:72
Alignment explanation
Indices: 34961763--34961902 Score: 253
Period size: 72 Copynumber: 1.9 Consensus size: 72
34961753 AAAAATAATT
34961763 AAAAAGCGGAAGGGCTAAACGTGAAATTAGCCCTTCCGTCAAAACACGCAGATCCCCTGGGGTAG
1 AAAAAGCGGAAGGGCTAAACGTGAAATTAGCCCTTCCGTCAAAACACGCAGATCCCCTGGGGTAG
34961828 GCGGGTC
66 GCGGGTC
* * *
34961835 AAAAAGCGGAAGGGCTAAACGTGCAATTAGCCCTTCCGTCAAAACACGCGGATCCCTTGGGGTAG
1 AAAAAGCGGAAGGGCTAAACGTGAAATTAGCCCTTCCGTCAAAACACGCAGATCCCCTGGGGTAG
34961900 GCG
66 GCG
34961903 AGTCGGGTCT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.30, C:0.25, G:0.29, T:0.16
Consensus pattern (72 bp):
AAAAAGCGGAAGGGCTAAACGTGAAATTAGCCCTTCCGTCAAAACACGCAGATCCCCTGGGGTAG
GCGGGTC
Found at i:34962731 original size:23 final size:23
Alignment explanation
Indices: 34962705--34962755 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
34962695 ACCTACTTTC
* *
34962705 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
34962728 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
34962751 TTACA
1 TTACA
34962756 TGTTCCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:34968056 original size:21 final size:21
Alignment explanation
Indices: 34968030--34968070 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34968020 AGACGAGCAA
* *
34968030 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
34968051 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
34968071 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:34970009 original size:16 final size:16
Alignment explanation
Indices: 34969976--34970009 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34969966 GGAGATTGTT
* *
34969976 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
34969992 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
34970008 AA
1 AA
34970010 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:34974069 original size:22 final size:22
Alignment explanation
Indices: 34974041--34974097 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
34974031 AAAGAAGGCC
* *
34974041 CAGGGAATGTTAGCACTAGGGA
1 CAGGGAATGTCAGCACCAGGGA
34974063 CAGGGAATGTCAGCACCAGGGA
1 CAGGGAATGTCAGCACCAGGGA
34974085 CAGGGAATGTCAG
1 CAGGGAATGTCAG
34974098 TGCCCTCGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.37, T:0.14
Consensus pattern (22 bp):
CAGGGAATGTCAGCACCAGGGA
Found at i:34976486 original size:24 final size:24
Alignment explanation
Indices: 34976423--34976474 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34976413 TTTCTAAAAG
* * *
34976423 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34976447 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34976471 ATTT
1 ATTT
34976475 TACTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:35002828 original size:51 final size:51
Alignment explanation
Indices: 35002752--35002854 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
35002742 GTTCATTAGA
* *
35002752 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGGAATGGAGTTGTAATT
1 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGGAATAGAGCTGTAATT
* *
35002803 ATTGAGTAGGGTTGTAATAGTAAAGAGCTATAGTGGAATAGAGCTGTAATT
1 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGGAATAGAGCTGTAATT
35002854 A
1 A
35002855 ATAATTTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (51 bp):
ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGGAATAGAGCTGTAATT
Found at i:35004619 original size:20 final size:20
Alignment explanation
Indices: 35004560--35004620 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
35004550 ACTTTCCTTC
35004560 TAAATATGTTGATGGACAAT
1 TAAATATGTTGATGGACAAT
* *
35004580 T-TATATTTTGTTAT-GA-AAT
1 TAAATATGTTG--ATGGACAAT
35004599 TAAATATGTTGATGGACAAT
1 TAAATATGTTGATGGACAAT
35004619 TA
1 TA
35004621 CTTGTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 15 0.47
21 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (20 bp):
TAAATATGTTGATGGACAAT
Found at i:35009534 original size:33 final size:32
Alignment explanation
Indices: 35009498--35009574 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
35009488 AAAATTTTAA
35009498 AAAAATTAAAAAAA-GTATTTTAAAAATATTTT
1 AAAAA-TAAAAAAATGTATTTTAAAAATATTTT
35009530 AAAAATAAAAAAATGTATTTTAAAAATATTTTT
1 AAAAATAAAAAAATGTATTTTAAAAATA-TTTT
35009563 AAAAATAAAAAA
1 AAAAATAAAAAA
35009575 TATATTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
31 8 0.19
32 19 0.44
33 16 0.37
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
AAAAATAAAAAAATGTATTTTAAAAATATTTT
Found at i:35009535 original size:11 final size:11
Alignment explanation
Indices: 35009485--35009569 Score: 68
Period size: 11 Copynumber: 7.6 Consensus size: 11
35009475 ATAAATACCA
*
35009485 AAAAAAATTTT
1 AAAAATATTTT
* **
35009496 AAAAAAATTAA
1 AAAAATATTTT
35009507 AAAAAGTATTTT
1 AAAAA-TATTTT
35009519 AAAAATATTTT
1 AAAAATATTTT
*
35009530 AAAAATA---A
1 AAAAATATTTT
35009538 AAAAATGTATTTT
1 AAAAA--TATTTT
35009551 AAAAATATTTTT
1 AAAAATA-TTTT
35009563 AAAAATA
1 AAAAATA
35009570 AAAAATATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.08
10 2 0.03
11 29 0.48
12 19 0.32
13 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:35010583 original size:25 final size:25
Alignment explanation
Indices: 35010549--35010601 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
35010539 AAATAGAGCG
35010549 TTTAAGATTATTTGAATCATAAATA
1 TTTAAGATTATTTGAATCATAAATA
35010574 TTTAAGATTATTTGAATCATAAATA
1 TTTAAGATTATTTGAATCATAAATA
35010599 TTT
1 TTT
35010602 CAGGTCGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (25 bp):
TTTAAGATTATTTGAATCATAAATA
Found at i:35018156 original size:21 final size:20
Alignment explanation
Indices: 35018115--35018219 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 20
35018105 AAAAAGCCCG
*
35018115 AAGGCTAAACA-AAAGCACAT
1 AAGGCTAAACAGAAA-CTCAT
35018135 AAGTGCTAAACAGAAACTCAT
1 AAG-GCTAAACAGAAACTCAT
* * * *
35018156 AAGGATTGAACGGAAGCTCAT
1 AAGG-CTAAACAGAAACTCAT
*
35018177 AAGAGCTAAACGGAAAC-CTAT
1 AAG-GCTAAACAGAAACTC-AT
*
35018198 AAGGGTTAAACAGAAACTCAT
1 AA-GGCTAAACAGAAACTCAT
35018219 A
1 A
35018220 TGAGTTGAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.07
21 57 0.84
22 6 0.09
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (20 bp):
AAGGCTAAACAGAAACTCAT
Found at i:35018179 original size:42 final size:42
Alignment explanation
Indices: 35018120--35018219 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
35018110 GCCCGAAGGC
* * *
35018120 TAAACAAAAGCACATAAGTGCTAAACAGAAA-CTCATAAGGAT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCT-ATAAGGAT
* * * *
35018162 TGAACGGAAGCTCATAAGAGCTAAACGGAAACCTATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCTATAAGGAT
*
35018204 TAAACAGAAACTCATA
1 TAAACAGAAGCTCATA
35018220 TGAGTTGAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCTATAAGGAT
Found at i:35025251 original size:13 final size:13
Alignment explanation
Indices: 35025233--35025259 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35025223 AATCGTGGGT
35025233 AAAAAGAAAAAGG
1 AAAAAGAAAAAGG
35025246 AAAAAGAAAAAGG
1 AAAAAGAAAAAGG
35025259 A
1 A
35025260 GGTTCTTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:35025882 original size:3 final size:3
Alignment explanation
Indices: 35025813--35025866 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
35025803 TTCTAATTGT
* * *
35025813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTG TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35025861 TTA TTA
1 TTA TTA
35025867 CCGCTTCGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:35032051 original size:44 final size:44
Alignment explanation
Indices: 35032002--35032233 Score: 123
Period size: 44 Copynumber: 5.3 Consensus size: 44
35031992 GATAGCAGAT
*
35032002 CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
** * * * * * *
35032046 CTTGCCTCCCT-CGGTTG-CAGCGGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCTGC-ACTGACAGCGAAGCAGATTGAAGACACCAG-C
* * * *
35032090 CTTGCCTTCCTGCA-TCGACGGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTCCCTGCACT-GACAGCGAAGCAGATTGAAGACACCAGC
* ** * * * * * * *
35032134 CTTACCTCCCT-CGGTTG-TAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTGC-ACTGACAGCGAAGCAGATTGAAGACACCAG-C
* ** * *
35032178 CTTGCCTTCCTGCACCAACACCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
*
35032222 TTTGCCTCCCTG
1 CTTGCCTCCCTG
35032234 GGTTACAGCG
Statistics
Matches: 128, Mismatches: 50, Indels: 20
0.65 0.25 0.10
Matches are distributed among these distances:
43 39 0.30
44 52 0.41
45 37 0.29
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
Found at i:35032142 original size:88 final size:88
Alignment explanation
Indices: 35031988--35032926 Score: 1254
Period size: 88 Copynumber: 10.6 Consensus size: 88
35031978 AACAGATCAG
* *
35031988 TGAAGATAGCAGATCTTGCCTTCCTGCA-CTGACAGCGAAGCAGATTGAAGACACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGACACAAGCCTTGCC
* *
35032052 TCCCTCGGTTGCAGCGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * *
35032076 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGCAGATCGAAGACACAAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
35032141 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
35032164 TGAAGATAGCAGATCTTGCCTTCCTGCACCAACACCGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* ** * *
35032229 CCCTGGGTTACAGCGGAGCAAGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * * *
35032252 TAAAGATAGCAGATCTTGCCTTCTTGTATTGACAGTGAAGCAAATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
**
35032317 CATTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
35032340 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGTAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
35032405 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
35032428 TGAAGATAGCAGATATCGCCTTCCTGCATCGACGGCAAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
35032493 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* **
35032516 TAAAGATAGCAGGTCTTGCCGATCTTGCCTTCCTGCATTAAC-GACGAAGCAGATCGAAGACACA
1 TGAAGATAGCA---------GATCTTGCCTTCCTGCATCGACAG-CGAAGCAGATCGAAGACACA
*
35032580 AGCCTTACCTCCCTCGGTTGTAGTGGA-CTAGGT
56 AGCCTTGCCTCCCTCGGTTGTAGTGGAGC-AGGT
* * * *
35032613 TGAAGATAACAGGTTTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
35032678 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
35032701 TGAAGGTAGCAGATTTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
35032766 CCCTCGATTGTAGTGGAGCAAGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
35032789 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACGGCGAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
35032854 CCCTCGGTTGTAGTGGAACAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
35032877 TGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAACAGATCGAAG
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAG
35032927 CCAATGGTCC
Statistics
Matches: 744, Mismatches: 93, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
88 664 0.89
89 3 0.00
96 2 0.00
97 75 0.10
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:35032720 original size:44 final size:44
Alignment explanation
Indices: 35032671--35032897 Score: 146
Period size: 44 Copynumber: 5.2 Consensus size: 44
35032661 AGACACAAGC
* *
35032671 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGGTAGCAGAT
1 CTTGCCTCCCTCGATTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * *
35032715 TTTGCCTTCCT-GCATCGACAGTGAAGCAGATTGAAGACA-CA-AGC
1 CTTGCCTCCCTCG-ATTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
*
35032759 CTTGCCTCCCTCGATTGTAGTGGAGCAAGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGATTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * *
35032803 CTTGCCTTCCT-GCATTG-ACG-GCGAAGTAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCTCG-ATTGTA-GTG-G-AGCAGGTTGAAGATAGCAGA-T
* * *
35032847 CTTGCCTCCCTCGGTTGTAGTGGAACAGGTTGAAGATAGCAGGT
1 CTTGCCTCCCTCGATTGTAGTGGAGCAGGTTGAAGATAGCAGAT
35032891 CTTGCCT
1 CTTGCCT
35032898 TCCTGCATCG
Statistics
Matches: 132, Mismatches: 35, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
43 32 0.24
44 69 0.52
45 31 0.23
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (44 bp):
CTTGCCTCCCTCGATTGTAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:35032733 original size:361 final size:361
Alignment explanation
Indices: 35031988--35032896 Score: 1365
Period size: 361 Copynumber: 2.5 Consensus size: 361
35031978 AACAGATCAG
* * *
35031988 TGAAGATAGCAGATCTTGCCTTCCTGCA-CTGACAGCGAAGCAGATTGAAGACACCAGCCTTGCC
1 TGAAGGTAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATTGAAGACACAAGCCTTGCC
* * * *
35032052 TCCCTCGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGC
65 TCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGT
*
35032117 AGATCGAAGACACAAGCCTTACCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCA-------
130 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTG
* * * *
35032175 --GATCTTGCCTTCCTGCACCAACACCGAAGCAGATCGAAGACACCAGCTTTGCCTCCCTGGGTT
195 CCGATCTTGCCTTCCTGCACCAACACCGAAGCAGATCGAAGACACAAGCCTTACCTCCCTCGGTT
* * * *
35032238 ACAGCGGAGCAAGTTAAAGATAGCAGATCTTGCCTTCTTGTATTGACAGTGAAGCAAATCGAAGA
260 ACAGCGGAGCAAGTTAAAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAAATCGAAGA
*
35032303 CACAAGCCTTGCCTCATTCGGTTGTAGTGGAGCAGGT
325 CACAAGCCTTGCCTCACTCGGTTGTAGTGGAGCAGGT
*
35032340 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGTAGATTGAAGACACAAGCCTTGCCT
1 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
* * *
35032405 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATATCGCCTTCCTGCATCGACGGCAAAGTA
66 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGTA
*
35032470 GATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATAGCAGGTCTTGC
131 GATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTGC
**
35032535 CGATCTTGCCTTCCTGCATTAACGA-CGAAGCAGATCGAAGACACAAGCCTTACCTCCCTCGGTT
196 CGATCTTGCCTTCCTGCACCAAC-ACCGAAGCAGATCGAAGACACAAGCCTTACCTCCCTCGGTT
** * * * * * *
35032599 GTAGTGGA-CTAGGTTGAAGATAACAGGTTTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
260 ACAGCGGAGC-AAGTTAAAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAAATCGAAG
*
35032663 ACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGT
324 ACACAAGCCTTGCCTCACTCGGTTGTAGTGGAGCAGGT
*
35032701 TGAAGGTAGCAGATTTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
* * *
35032766 CCCTCGATTGTAGTGGAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACGGCGAAGTA
66 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGTA
*
35032831 GATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAACAGGTTGAAGATAGCAGGTCTTGC
131 GATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTGC
35032896 C
196 C
35032897 TTCCTGCATC
Statistics
Matches: 502, Mismatches: 43, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
352 172 0.34
353 1 0.00
360 1 0.00
361 327 0.65
362 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (361 bp):
TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGTA
GATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTGC
CGATCTTGCCTTCCTGCACCAACACCGAAGCAGATCGAAGACACAAGCCTTACCTCCCTCGGTTA
CAGCGGAGCAAGTTAAAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAAATCGAAGAC
ACAAGCCTTGCCTCACTCGGTTGTAGTGGAGCAGGT
Found at i:35032749 original size:45 final size:44
Alignment explanation
Indices: 35032612--35032751 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
35032602 GTGGACTAGG
*
35032612 TTGAAGATAACAGGTTTTGCCTTCCTGCATCGACAGTGAAGCAGA
1 TTGAAGAT-ACAGATTTTGCCTTCCTGCATCGACAGTGAAGCAGA
* * ** * * * * * *
35032657 TCGAAGACACA-AGCCTTGCCTCCCT-CGGTTG-TAGTGGAGCAGG
1 TTGAAGATACAGA-TTTTGCCTTCCTGC-ATCGACAGTGAAGCAGA
*
35032700 TTGAAGGTAGCAGATTTTGCCTTCCTGCATCGACAGTGAAGCAGA
1 TTGAAGATA-CAGATTTTGCCTTCCTGCATCGACAGTGAAGCAGA
35032745 TTGAAGA
1 TTGAAGA
35032752 CACAAGCCTT
Statistics
Matches: 66, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
43 16 0.24
44 27 0.41
45 23 0.35
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (44 bp):
TTGAAGATACAGATTTTGCCTTCCTGCATCGACAGTGAAGCAGA
Found at i:35034352 original size:21 final size:21
Alignment explanation
Indices: 35034326--35034380 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
35034316 TTCTGATTGT
35034326 TTATTATTATTATTATTGTTA
1 TTATTATTATTATTATTGTTA
*
35034347 TTATTATTATCATTATTGTTA
1 TTATTATTATTATTATTGTTA
*
35034368 CTATTATTATTAT
1 TTATTATTATTAT
35034381 CGCTTCGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (21 bp):
TTATTATTATTATTATTGTTA
Found at i:35034395 original size:3 final size:3
Alignment explanation
Indices: 35034326--35034380 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
35034316 TTCTGATTGT
* * * *
35034326 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TCA TTA TTG TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35034374 TTA TTA T
1 TTA TTA T
35034381 CGCTTCGTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:35035846 original size:15 final size:16
Alignment explanation
Indices: 35035822--35035854 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35035812 ACTTATAACA
35035822 ATTTTATTTATTTAAT
1 ATTTTATTTATTTAAT
*
35035838 ATTTT-TTTATTTCAT
1 ATTTTATTTATTTAAT
35035853 AT
1 AT
35035855 AATTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTATTTAAT
Found at i:35038281 original size:24 final size:24
Alignment explanation
Indices: 35038253--35038304 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35038243 TTTCTAGAAG
* *
35038253 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
35038277 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
35038301 ATTT
1 ATTT
35038305 GACCTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:35041270 original size:22 final size:21
Alignment explanation
Indices: 35041223--35041263 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
35041213 TAAAATTCTT
*
35041223 AAAATCTAATAAAATTAACTA
1 AAAATCTAATAAAATAAACTA
*
35041244 AAAATCATACTAAAATAAAC
1 AAAATC-TAATAAAATAAAC
35041264 AAGAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATCTAATAAAATAAACTA
Found at i:35041531 original size:18 final size:18
Alignment explanation
Indices: 35041498--35041545 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
35041488 AATTTATTTA
*
35041498 TAAAATTA-TAATAAAAG
1 TAAAATTATTAATAAAAC
*
35041515 TAAAATTATTTATAAAAC
1 TAAAATTATTAATAAAAC
*
35041533 TATAATTA-TAATA
1 TAAAATTATTAATA
35041546 GTAATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAATTATTAATAAAAC
Found at i:35044199 original size:22 final size:22
Alignment explanation
Indices: 35044169--35044231 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
35044159 TACGAGGGCT
*
35044169 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
* *
35044191 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
35044213 GTGGAGGTATGGGGCTGCT
1 GTGGAGGTATGGGGCTGCT
35044232 TCATGGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGGCTGCTGTA
Found at i:35044687 original size:44 final size:44
Alignment explanation
Indices: 35044624--35044713 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
35044614 TTGTAGAGTT
35044624 AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
1 AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
* *
35044668 AATGGGGTTGACCTCCATATCTCCATTCAACAGTCTTAAGCAAA
1 AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
35044712 AA
1 AA
35044714 ATGTGACGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (44 bp):
AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
Found at i:35051376 original size:13 final size:13
Alignment explanation
Indices: 35051358--35051384 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35051348 AGTTTGAATG
35051358 ATAACACTAATCC
1 ATAACACTAATCC
35051371 ATAACACTAATCC
1 ATAACACTAATCC
35051384 A
1 A
35051385 AAATCGAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAACACTAATCC
Found at i:35054677 original size:23 final size:24
Alignment explanation
Indices: 35054651--35054697 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35054641 AAACATTAAC
35054651 TTAAACT-AAAAAAAACCAATCAA
1 TTAAACTAAAAAAAAACCAATCAA
*
35054674 TTAAACTAAAAAAAAACCAGTCAA
1 TTAAACTAAAAAAAAACCAATCAA
35054698 CCAACTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.64, C:0.17, G:0.02, T:0.17
Consensus pattern (24 bp):
TTAAACTAAAAAAAAACCAATCAA
Found at i:35054963 original size:5 final size:5
Alignment explanation
Indices: 35054955--35054988 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
35054945 AAAAAGTTGA
35054955 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
35054989 ACCCTAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:35057198 original size:29 final size:29
Alignment explanation
Indices: 35057138--35057230 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
35057128 GTGAGCATGA
* ** *
35057138 ATAT-AAGGTGATTTGGGCCTAACAGGCC
1 ATATAAAGGTGATTTGGGCCTGATGGGCT
35057166 ATATAAAGGTGATTTGGGCCTGATGGGCT
1 ATATAAAGGTGATTTGGGCCTGATGGGCT
* * *
35057195 ATATGAATGTGAATTGGGCCTGATGGGCT
1 ATATAAAGGTGATTTGGGCCTGATGGGCT
35057224 ATATAAA
1 ATATAAA
35057231 TGAGATTGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 4 0.07
29 52 0.93
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTGATGGGCT
Found at i:35057232 original size:29 final size:29
Alignment explanation
Indices: 35057166--35057242 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
35057156 CTAACAGGCC
* *
35057166 ATATAAAGGTGATTTGGGCCTGATGGGCT
1 ATATAAATGTGAATTGGGCCTGATGGGCT
*
35057195 ATATGAATGTGAATTGGGCCTGATGGGCT
1 ATATAAATGTGAATTGGGCCTGATGGGCT
*
35057224 ATATAAATGAG-ATTGGGCC
1 ATATAAATGTGAATTGGGCC
35057243 AAATGGGCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 8 0.19
29 35 0.81
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTGATGGGCT
Found at i:35057255 original size:28 final size:28
Alignment explanation
Indices: 35057162--35057255 Score: 107
Period size: 29 Copynumber: 3.3 Consensus size: 28
35057152 GGGCCTAACA
*
35057162 GGCCATATAAAGGTGATTTGGGCCTGATG
1 GGCCATATAAATGTGA-TTGGGCCTGATG
* *
35057191 GGCTATATGAATGTGAATTGGGCCTGATG
1 GGCCATATAAATGTG-ATTGGGCCTGATG
* * **
35057220 GGCTATATAAATGAGATTGGGCCAAATG
1 GGCCATATAAATGTGATTGGGCCTGATG
35057248 GGCCATAT
1 GGCCATAT
35057256 GCATGTATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 18 0.32
29 37 0.66
30 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.28
Consensus pattern (28 bp):
GGCCATATAAATGTGATTGGGCCTGATG
Found at i:35065114 original size:16 final size:15
Alignment explanation
Indices: 35065093--35065126 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
35065083 GAAGCCATTC
35065093 TAAAAAAATACAAACAA
1 TAAAAAAA-ACAAA-AA
35065110 TAAAAAAAACAAAAA
1 TAAAAAAAACAAAAA
35065125 TA
1 TA
35065127 CAACCCTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (15 bp):
TAAAAAAAACAAAAA
Found at i:35067989 original size:24 final size:24
Alignment explanation
Indices: 35067962--35068037 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
35067952 TATTCAATGA
*
35067962 CTTGACTACAACAATATATAGTAG
1 CTTGACTACAACAATATATAGTGG
* * * *
35067986 CTTGACCAAAACATTATTTAGTGG
1 CTTGACTACAACAATATATAGTGG
* *
35068010 CTTGACTACAACGATATACAGTGG
1 CTTGACTACAACAATATATAGTGG
35068034 CTTG
1 CTTG
35068038 TCCACAACGT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (24 bp):
CTTGACTACAACAATATATAGTGG
Found at i:35067989 original size:48 final size:48
Alignment explanation
Indices: 35067937--35068037 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
35067927 ATAGAAAGTG
** *
35067937 GCTTGACCAAAATGTTATTCAATGACTTGACTACAACAATATATAGTA
1 GCTTGACCAAAACATTATTCAATGACTTGACTACAACAATATACAGTA
* * * * *
35067985 GCTTGACCAAAACATTATTTAGTGGCTTGACTACAACGATATACAGTG
1 GCTTGACCAAAACATTATTCAATGACTTGACTACAACAATATACAGTA
35068033 GCTTG
1 GCTTG
35068038 TCCACAACGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (48 bp):
GCTTGACCAAAACATTATTCAATGACTTGACTACAACAATATACAGTA
Found at i:35081479 original size:17 final size:19
Alignment explanation
Indices: 35081447--35081485 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
35081437 ATGTGGTTTA
35081447 CCCGTGTGGACCCACAC-G
1 CCCGTGTGGACCCACACAG
35081465 CCCGTGTGG-CCCACACAG
1 CCCGTGTGGACCCACACAG
35081483 CCC
1 CCC
35081486 AAATCAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.49, G:0.26, T:0.10
Consensus pattern (19 bp):
CCCGTGTGGACCCACACAG
Found at i:35086599 original size:14 final size:15
Alignment explanation
Indices: 35086574--35086606 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
35086564 TATGATTTTT
35086574 ATATGCTGAAATGAA
1 ATATGCTGAAATGAA
35086589 ATATG-TGAAATGAA
1 ATATGCTGAAATGAA
35086603 ATAT
1 ATAT
35086607 TTGTTTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.30
Consensus pattern (15 bp):
ATATGCTGAAATGAA
Found at i:35086856 original size:41 final size:42
Alignment explanation
Indices: 35086752--35086907 Score: 170
Period size: 41 Copynumber: 3.7 Consensus size: 42
35086742 TGTGTTTTCG
* ** *
35086752 TGTAAGACCATTTCTGGGATGTTGGCATCGATATATGTGATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAT-T-TGATACA
* *
35086796 TGCAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATACA
* * **
35086837 TGTAAGACCCTGTCTGGGACAATGGCATCGATATGAGATAGCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATA-CA
* *
35086880 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
35086908 TGTTCGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
41 32 0.34
42 7 0.07
43 29 0.31
44 26 0.28
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATACA
Found at i:35090719 original size:42 final size:41
Alignment explanation
Indices: 35090566--35090719 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
35090556 AATCATACCA
* * **
35090566 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATACCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCATAATG
* *
35090608 ATGCCAATAGCCCA-ACTATGGTCTTACACGATTCTCAT-ATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGAATCTCATAAT-G
* * *
35090650 ATGCCATGTCCCAGACATGGTCCTACACGAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATAATG
* *
35090692 ATGCCATATTCCAGATTTGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
35090720 ATGAACTCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 18 0.20
42 51 0.57
43 21 0.23
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATAATG
Found at i:35090760 original size:14 final size:14
Alignment explanation
Indices: 35090743--35090769 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35090733 CCTAATGTCA
35090743 TGACATTTGTATCT
1 TGACATTTGTATCT
35090757 TGACATTTGTATC
1 TGACATTTGTATC
35090770 CTAACTATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (14 bp):
TGACATTTGTATCT
Found at i:35094149 original size:24 final size:24
Alignment explanation
Indices: 35094104--35094153 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
35094094 TAAACACATG
*
35094104 CAAAACATTAGTTTAGCTAACATAC
1 CAAAACATTAGTTTAACTAACA-AC
35094129 CAAAACA-TAGATTTAAC-AACAAC
1 CAAAACATTAG-TTTAACTAACAAC
35094152 CA
1 CA
35094154 TATGAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 7 0.30
25 12 0.52
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
CAAAACATTAGTTTAACTAACAAC
Found at i:35097607 original size:33 final size:33
Alignment explanation
Indices: 35097570--35097633 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
35097560 ATGCAGTAAC
* * *
35097570 AGTCTAGG-CTTGAGCCCTATTCAGTATCAGTAT
1 AGTCTAGGCCTT-AACCCTATACAGTAACAGTAT
*
35097603 AGTCTGGGCCTTAACCCTATACAGTAACAGT
1 AGTCTAGGCCTTAACCCTATACAGTAACAGT
35097634 GACAGTGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (33 bp):
AGTCTAGGCCTTAACCCTATACAGTAACAGTAT
Found at i:35098982 original size:24 final size:24
Alignment explanation
Indices: 35098954--35099001 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
35098944 GTGCTAATCA
35098954 ATTGTAGGACATCGGAAGAGATCT
1 ATTGTAGGACATCGGAAGAGATCT
35098978 ATTGTAGGACATCGGAAGAGATCT
1 ATTGTAGGACATCGGAAGAGATCT
35099002 CAGTAGCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (24 bp):
ATTGTAGGACATCGGAAGAGATCT
Done.