Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 23 of 235
Found at i:7152897 original size:158 final size:158
Alignment explanation
Indices: 7152601--7152919 Score: 611
Period size: 158 Copynumber: 2.0 Consensus size: 158
7152591 CCTGGTGCAT
7152601 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
1 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
*
7152666 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACGT
66 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
7152731 AAACATTTGAACATGAAGTTTCAAAAGA
131 AAACATTTGAACATGAAGTTTCAAAAGA
7152759 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
1 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
*
7152824 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTGACAT
66 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
*
7152889 AAAGATTTGAACATGAAGTTTCAAAAGA
131 AAACATTTGAACATGAAGTTTCAAAAGA
7152917 AGG
1 AGG
7152920 AATTAACAAA
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (158 bp):
AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
AAACATTTGAACATGAAGTTTCAAAAGA
Found at i:7155350 original size:28 final size:28
Alignment explanation
Indices: 7155319--7155372 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
7155309 AACAAAGAAT
* *
7155319 TTTCCCCTTTTTTCTTTCTCTTTTTTTA
1 TTTCCCCTTTTTTATTTCTCCTTTTTTA
* *
7155347 TTTCTCTTTTTTTATTTCTCCTTTTT
1 TTTCCCCTTTTTTATTTCTCCTTTTT
7155373 CACTCAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTCCCCTTTTTTATTTCTCCTTTTTTA
Found at i:7155357 original size:15 final size:14
Alignment explanation
Indices: 7155326--7155372 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
7155316 AATTTTCCCC
*
7155326 TTTTTTCTTTCTCT
1 TTTTTTATTTCTCT
7155340 TTTTTTATTTCTCT
1 TTTTTTATTTCTCT
7155354 TTTTTTATTTCTCCT
1 TTTTTTATTTCT-CT
7155369 TTTT
1 TTTT
7155373 CACTCAGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 25 0.81
15 6 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTCTCT
Found at i:7160220 original size:15 final size:15
Alignment explanation
Indices: 7160202--7160234 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7160192 TGGATTCTCG
7160202 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
7160217 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
7160232 TAT
1 TAT
7160235 TATTGGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:7163174 original size:50 final size:49
Alignment explanation
Indices: 7162997--7163241 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
7162987 GCTATTGTGA
* * *
7162997 GGTCATGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * ** * *
7163046 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGAAAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
7163096 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
7163146 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
7163196 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
7163242 GCTTCGGCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 80 0.49
50 48 0.29
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:7172264 original size:16 final size:15
Alignment explanation
Indices: 7172230--7172264 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7172220 TTTTATATAA
*
7172230 ATATAAATATTTTTT
1 ATATAAATATTTCTT
7172245 ATATAAATATTTGCTT
1 ATATAAATATTT-CTT
7172261 ATAT
1 ATAT
7172265 TAATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (15 bp):
ATATAAATATTTCTT
Found at i:7172512 original size:43 final size:43
Alignment explanation
Indices: 7172451--7172538 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
7172441 ATTGTAAACA
*
7172451 AAATCTACACTATAACTTGGCATTGTACGCTTGTGGTTGATAT
1 AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
*
7172494 AAATCTATACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
1 AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
7172537 AA
1 AA
7172539 TTTAAAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (43 bp):
AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
Found at i:7174400 original size:20 final size:20
Alignment explanation
Indices: 7174375--7174414 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7174365 TGTCAAGGAT
7174375 GAAACCAAAGCATAAATTTA
1 GAAACCAAAGCATAAATTTA
7174395 GAAACCAAAGCATAAATTTA
1 GAAACCAAAGCATAAATTTA
7174415 TACTTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
GAAACCAAAGCATAAATTTA
Found at i:7178587 original size:9 final size:9
Alignment explanation
Indices: 7178569--7178617 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
7178559 TTGATAAGAA
7178569 AATA-TTTT
1 AATATTTTT
7178577 AATATTTTT
1 AATATTTTT
7178586 AATATTTTT
1 AATATTTTT
* *
7178595 AAT-GTATT
1 AATATTTTT
7178603 AA-ATTTTT
1 AATATTTTT
7178611 AATATTT
1 AATATTT
7178618 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 14 0.41
9 20 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:7178645 original size:17 final size:17
Alignment explanation
Indices: 7178623--7178656 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7178613 TATTTATTTT
7178623 TATATAAAAAATTAATA
1 TATATAAAAAATTAATA
*
7178640 TATATATAAAATTAATA
1 TATATAAAAAATTAATA
7178657 CAAGCATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATAAAAAATTAATA
Found at i:7179507 original size:21 final size:21
Alignment explanation
Indices: 7179481--7179528 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
7179471 AATATTATAT
7179481 AATAATATAAATGTGTGAATC
1 AATAATATAAATGTGTGAATC
7179502 AATAATATAAATGTGTGAATC
1 AATAATATAAATGTGTGAATC
*
7179523 ATTAAT
1 AATAAT
7179529 CATTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (21 bp):
AATAATATAAATGTGTGAATC
Found at i:7181358 original size:29 final size:29
Alignment explanation
Indices: 7181316--7181373 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
7181306 CAATATAATG
7181316 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
1 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
7181345 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
1 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
7181374 TGAGAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (29 bp):
AATTGAGTAGTTTTTTGTAGTTTAAAGGT
Found at i:7187078 original size:27 final size:26
Alignment explanation
Indices: 7187047--7187146 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
7187037 TTTAGTTTAC
*
7187047 TAAAATTACCGAAATACCCTTAGTTG
1 TAAAATTACCGAAATACCCTTACTTG
* * * * *
7187073 TAAAAATACTGAAAAACCCTCGATTTG
1 TAAAATTACCGAAATACCCT-TACTTG
*
7187100 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTT--ACTTG
7187127 TAAAATTACC-AAAGTACCCT
1 TAAAATTACCGAAA-TACCCT
7187147 AAATTTACAG
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 23 0.39
27 33 0.56
28 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
TAAAATTACCGAAATACCCTTACTTG
Found at i:7187086 original size:26 final size:27
Alignment explanation
Indices: 7187047--7187135 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
7187037 TTTAGTTTAC
* *
7187047 TAAAATTACCGAAATACCCT-TAGTTG
1 TAAAATTACTGAAATACCCTCGAGTTG
* * *
7187073 TAAAAATACTGAAAAACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGAGTTG
* *
7187100 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGAGTTG
7187127 TAAAATTAC
1 TAAAATTAC
7187136 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 17 0.32
27 36 0.68
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGAGTTG
Found at i:7187171 original size:27 final size:27
Alignment explanation
Indices: 7187141--7187352 Score: 228
Period size: 27 Copynumber: 7.9 Consensus size: 27
7187131 ATTACCAAAG
*
7187141 TACCCTAAATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * * **
7187168 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCAATTTACAGAATTACTGTTT
* *
7187195 TACCCCCAATTTACATAATTA-TCGTTT
1 TACCCTCAATTTACAGAATTACT-GTTT
* *
7187222 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * **
7187249 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACTGTTT
*
7187276 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* ** *
7187303 TACTCTTGATTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACTGTTT
*
7187330 TACCCTCAATTTACAAAATTACT
1 TACCCTCAATTTACAGAATTACT
7187353 AAAATACCCT
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 153 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACTGTTT
Found at i:7187360 original size:27 final size:27
Alignment explanation
Indices: 7187311--7187362 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
7187301 TTTACTCTTG
* ***
7187311 ATTTACAGAATTACTATTTTACCCTCA
1 ATTTACAAAATTACTAAAATACCCTCA
7187338 ATTTACAAAATTACTAAAATACCCT
1 ATTTACAAAATTACTAAAATACCCT
7187363 TGGTTTGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTTACAAAATTACTAAAATACCCTCA
Found at i:7187362 original size:81 final size:81
Alignment explanation
Indices: 7187149--7187351 Score: 282
Period size: 81 Copynumber: 2.5 Consensus size: 81
7187139 AGTACCCTAA
* * * *
7187149 ATTTACAGAATTACTGTTTTACCCCCGATTTACATAATTACCATTTTACCCCCAATTTACATAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAAT
7187214 TATCGTTTTACCCTCG
66 TATCGTTTTACCCTCG
* * * *
7187230 ACTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAAT
* *
7187295 TA-CTGTTTTACTCTTG
66 TATC-GTTTTACCCTCG
* *
7187311 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTAC
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
7187352 TAAAATACCC
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 106 0.99
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (81 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAAT
TATCGTTTTACCCTCG
Found at i:7187374 original size:27 final size:27
Alignment explanation
Indices: 7187344--7187534 Score: 136
Period size: 27 Copynumber: 7.0 Consensus size: 27
7187334 CTCAATTTAC
7187344 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* *
7187371 AAAATTACCAAAATAACCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * ***
7187398 GAAATTA-TCGAAATACCCTCAATTTGT
1 AAAATTACT-AAAATACCCTTGGTTTGT
* * * **
7187425 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
7187452 AAAGTTAC-AGAAATACCCTTGACTTTCT
1 AAAATTACTA-AAATACCCTTG-GTTTGT
* **
7187480 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTGGTTTGT
* *
7187508 AAAATTACTGAAATACCTTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
7187535 TGATTTACCA
Statistics
Matches: 126, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 7 0.06
29 18 0.14
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTGT
Found at i:7187377 original size:54 final size:54
Alignment explanation
Indices: 7187203--7187380 Score: 131
Period size: 54 Copynumber: 3.3 Consensus size: 54
7187193 TTTACCCCCA
* * * * * * **** *
7187203 ATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* * * * **** *
7187257 ATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACTCTTG
1 ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* *
7187311 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* **
7187365 GTTTGTAAAATTACCA
1 ATTTACAAAATTACCA
7187381 AAATAACCTT
Statistics
Matches: 101, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (54 bp):
ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
Found at i:7187619 original size:27 final size:24
Alignment explanation
Indices: 7187575--7187648 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 24
7187565 ATGACTAAAA
*
7187575 TACCCCTATTAGGGTAAAGTGACCG
1 TACCCCT-GTAGGGTAAAGTGACCG
7187600 TAAAGCCCCTGTAGGGTAAAGTGACCG
1 T--A-CCCCTGTAGGGTAAAGTGACCG
* *
7187627 TACCCCTGTATGGTAAAATGAC
1 TACCCCTGTAGGGTAAAGTGAC
7187649 GAATATGCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 18 0.42
25 2 0.05
27 18 0.42
28 5 0.12
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (24 bp):
TACCCCTGTAGGGTAAAGTGACCG
Found at i:7187641 original size:24 final size:26
Alignment explanation
Indices: 7187584--7187648 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 26
7187574 ATACCCCTAT
7187584 TAGGGTAAAGTGACCGTAAAGCCCCTG
1 TAGGGTAAAGTGACCGT-AAGCCCCTG
7187611 TAGGGTAAAGTGACCGT-A-CCCCTG
1 TAGGGTAAAGTGACCGTAAGCCCCTG
* *
7187635 TATGGTAAAATGAC
1 TAGGGTAAAGTGAC
7187649 GAATATGCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 18 0.50
25 1 0.03
27 17 0.47
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (26 bp):
TAGGGTAAAGTGACCGTAAGCCCCTG
Found at i:7188480 original size:26 final size:26
Alignment explanation
Indices: 7188451--7188548 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
7188441 GAGGAAGTGC
7188451 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
7188477 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
7188503 AAAAGGGATTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
7188529 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
7188549 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 9 0.14
26 56 0.86
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:7188529 original size:52 final size:51
Alignment explanation
Indices: 7188451--7188548 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
7188441 GAGGAAGTGC
*
7188451 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
*
7188503 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTTCCCCAGTT
1 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
7188549 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:7188752 original size:42 final size:42
Alignment explanation
Indices: 7188693--7188784 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
7188683 TAGTCTCCCC
* ** *
7188693 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
7188735 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
7188777 AAATGGGC
1 AAATGGGC
7188785 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:7188885 original size:31 final size:31
Alignment explanation
Indices: 7188808--7188888 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
7188798 CGTTTACAGT
*
7188808 AAAGGCTTCGGCCCAATAAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTAAAATGATTTATGA
* * *
7188839 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAAAATGATTTATGA
7188870 AAAGGCTTCGGCCCAGTAA
1 AAAGGCTTCGGCCCAGTAA
7188889 TCGTTAAACG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAAAATGATTTATGA
Found at i:7191218 original size:68 final size:66
Alignment explanation
Indices: 7191002--7191223 Score: 186
Period size: 68 Copynumber: 3.4 Consensus size: 66
7190992 CATAATTTTG
* * **
7191002 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGC--CATTTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATATTCTCGT
7191064 A
66 A
** * * * * * * * * *
7191065 GCTCTCTTGTTTACAAGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATC-TA-TCT
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCATATTCT
7191128 CGTA
63 CGTA
*
7191132 GCTCTCTTGT-CTATATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCAT-AT-TCT
7191196 CGTA
63 CGTA
* *
7191200 GCTCCCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
7191224 TCCCGTATTA
Statistics
Matches: 122, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
63 17 0.14
64 27 0.22
65 1 0.01
66 22 0.18
67 25 0.20
68 29 0.24
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATATTCTCGT
A
Found at i:7194359 original size:41 final size:41
Alignment explanation
Indices: 7194299--7194395 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
7194289 CTATCTCGGT
* *
7194299 AGTGCCTTACATAGCCGAAGCTATCT-TGGTCTCGCACACTA
1 AGTGCCTTACATAGTCGAAGCTATCTCT-GTCTAGCACACTA
7194340 AGTGCCTTACATAGTCGAAGCTATCTCTGTCTAGCACACTA
1 AGTGCCTTACATAGTCGAAGCTATCTCTGTCTAGCACACTA
7194381 AGTGCCTTACATAGT
1 AGTGCCTTACATAGT
7194396 TGAATTGTCG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
AGTGCCTTACATAGTCGAAGCTATCTCTGTCTAGCACACTA
Found at i:7200563 original size:12 final size:12
Alignment explanation
Indices: 7200546--7200570 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7200536 CACACGCCTC
7200546 TGTGCTAGGCCG
1 TGTGCTAGGCCG
7200558 TGTGCTAGGCCG
1 TGTGCTAGGCCG
7200570 T
1 T
7200571 ACCAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:7213639 original size:40 final size:40
Alignment explanation
Indices: 7213591--7214497 Score: 1769
Period size: 40 Copynumber: 22.7 Consensus size: 40
7213581 GCAAACACAT
* * *
7213591 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213631 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213671 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213711 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213751 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213791 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213831 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213871 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213911 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213951 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7213991 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214031 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214071 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214111 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214151 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214191 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214231 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214271 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214311 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
7214351 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214391 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
7214431 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
7214471 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
7214498 ATCCAATGCT
Statistics
Matches: 861, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 861 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
Found at i:7221228 original size:15 final size:16
Alignment explanation
Indices: 7221197--7221234 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7221187 TAAATTATGA
7221197 ATATGTGTGTAATGTG
1 ATATGTGTGTAATGTG
*
7221213 ATATGTGT-TTATGTG
1 ATATGTGTGTAATGTG
*
7221228 ACATGTG
1 ATATGTG
7221235 ACCATTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.45
Consensus pattern (16 bp):
ATATGTGTGTAATGTG
Found at i:7224613 original size:20 final size:20
Alignment explanation
Indices: 7224588--7224625 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7224578 ATTGATAATG
*
7224588 AAAAGATATATTAGCTTTCT
1 AAAAGATATATTAACTTTCT
7224608 AAAAGATATATTAACTTT
1 AAAAGATATATTAACTTT
7224626 AGAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAAGATATATTAACTTTCT
Found at i:7225293 original size:74 final size:74
Alignment explanation
Indices: 7225208--7225504 Score: 585
Period size: 74 Copynumber: 4.0 Consensus size: 74
7225198 AAAGAGCTTG
7225208 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
7225273 TGTTTCTTT
66 TGTTTCTTT
7225282 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
7225347 TGTTTCTTT
66 TGTTTCTTT
7225356 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
7225421 TGTTTCTTT
66 TGTTTCTTT
*
7225430 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
7225495 TGTTTCTTT
66 TGTTTCTTT
7225504 T
1 T
7225505 ACTTTTGATA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 222 1.00
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.60
Consensus pattern (74 bp):
TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
TGTTTCTTT
Found at i:7230923 original size:46 final size:46
Alignment explanation
Indices: 7230853--7230944 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
7230843 AAGATGGATG
* *
7230853 GGAAAGAGTCCATATCTGGCAGCTGACTCAGAGATGTCTTGGTAGT
1 GGAAAGAGTCCATATCTGGAAGCTGACTCAGAGATGCCTTGGTAGT
*
7230899 GGAAAGAGTCCATATCTGGAAGCTGGCTCAGAGATGCCTTGGTAGT
1 GGAAAGAGTCCATATCTGGAAGCTGACTCAGAGATGCCTTGGTAGT
7230945 TCCTGAAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (46 bp):
GGAAAGAGTCCATATCTGGAAGCTGACTCAGAGATGCCTTGGTAGT
Found at i:7238920 original size:20 final size:20
Alignment explanation
Indices: 7238895--7238932 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7238885 CTAAATCGAG
7238895 AACTTAGGAA-ATTTTTACAA
1 AACTTA-GAAGATTTTTACAA
7238915 AACTTAGAAGATTTTTAC
1 AACTTAGAAGATTTTTAC
7238933 CATGTACAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
AACTTAGAAGATTTTTACAA
Found at i:7241041 original size:47 final size:46
Alignment explanation
Indices: 7240931--7241096 Score: 134
Period size: 47 Copynumber: 3.6 Consensus size: 46
7240921 ACTTGTGTAA
7240931 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT-ATGAGA--
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGA-GAGAGT
* *
7240977 GCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGA-GAGT
* * * *
7241025 GCTAGTGCAAGA-CATGTTTGGGGCATGCATCAGC--T-ACGAGATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGA-GAGA-GT
7241069 G-TCAGTGTAAGACCATGTCTGGGACATG
1 GCT-AGTGTAAGACCATGTCTGGGACATG
7241097 GCGTCGATGT
Statistics
Matches: 99, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
43 4 0.04
44 14 0.14
45 19 0.19
46 20 0.20
47 26 0.26
48 16 0.16
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGAGAGT
Found at i:7243479 original size:46 final size:46
Alignment explanation
Indices: 7243429--7243604 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
7243419 TGGTTGAGCA
7243429 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
7243475 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
7243520 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
7243568 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7243605 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.55
47 29 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:7243587 original size:93 final size:93
Alignment explanation
Indices: 7243428--7243597 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
7243418 ATGGTTGAGC
* * *
7243428 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTG
7243493 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTCCGAGTTCGTGAGATGTAACTAGGT
* *
7243521 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCATTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTG
7243586 AGTCCGAGTTCG
66 AGTCCGAGTTCG
7243598 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGT
Found at i:7250341 original size:17 final size:17
Alignment explanation
Indices: 7250315--7250357 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
7250305 ATTAGGGAGG
*
7250315 CTACTAACTTGGCCACA
1 CTACTGACTTGGCCACA
7250332 CTACTGACTTGGCCACA
1 CTACTGACTTGGCCACA
*
7250349 CTGCTGACT
1 CTACTGACT
7250358 ACACGCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (17 bp):
CTACTGACTTGGCCACA
Found at i:7251561 original size:43 final size:43
Alignment explanation
Indices: 7251436--7251594 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
7251426 CGGAAAGCTC
* * * *
7251436 ATACAATGCCAACGTCCCAAACGTGGTCTTACATGT-AATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAA
* * * *
7251478 ATATCAATGCC-ACTGTCCCAGATAGGGTCTTATACG-AAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAA
* *
7251521 ATACGATACCAACATCCCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-A
*
7251565 AGT-CGATGCCAACGTCCCAGACGTGGTCTT
1 A-TACGATGCCAACGTCCCAGACATGGTCTT
7251595 GCACAAAAAC
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 26 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAA
Found at i:7256224 original size:30 final size:30
Alignment explanation
Indices: 7256167--7256225 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7256157 CCTTTTGAAG
* *
7256167 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
7256197 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
7256226 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:7267117 original size:26 final size:26
Alignment explanation
Indices: 7267088--7267140 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
7267078 ATCCAGGAAG
*
7267088 CTCTTCCGAAAAACTATCCCGAAATT
1 CTCTTCCGAAAAAATATCCCGAAATT
7267114 CTCTTCCGAAAAAATATCCCGAAATT
1 CTCTTCCGAAAAAATATCCCGAAATT
7267140 C
1 C
7267141 CCTAACAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.30, G:0.08, T:0.26
Consensus pattern (26 bp):
CTCTTCCGAAAAAATATCCCGAAATT
Found at i:7287006 original size:50 final size:50
Alignment explanation
Indices: 7286931--7287032 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 50
7286921 CATATTTGTC
* *
7286931 ACCAAAATAGGGTTACGAAGTATTACCAAAAAACCATAACATAAAAACAT
1 ACCAAAATAGGGTTAAGAAGCATTACCAAAAAACCATAACATAAAAACAT
* *
7286981 ACCAAAATAGGGTTATAG-AGCATTACCATAAAACCGTAACATAAAAACAT
1 ACCAAAATAGGGTTA-AGAAGCATTACCAAAAAACCATAACATAAAAACAT
7287031 AC
1 AC
7287033 ATTTCCAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.52, C:0.19, G:0.11, T:0.19
Consensus pattern (50 bp):
ACCAAAATAGGGTTAAGAAGCATTACCAAAAAACCATAACATAAAAACAT
Found at i:7295080 original size:17 final size:17
Alignment explanation
Indices: 7295058--7295100 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
7295048 ATTTCATTTA
**
7295058 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
7295075 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
7295092 AAAT-TCAAT
1 AAATGTCAAT
7295101 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:7304951 original size:11 final size:11
Alignment explanation
Indices: 7304937--7304989 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
7304927 ATATATCATA
7304937 GCATATCATGT
1 GCATATCATGT
*
7304948 GCATATCAT-A
1 GCATATCATGT
*
7304958 ACATATCATGT
1 GCATATCATGT
7304969 GCATATCATGT
1 GCATATCATGT
7304980 -CATATCATGT
1 GCATATCATGT
7304990 ATATCAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
GCATATCATGT
Found at i:7304953 original size:21 final size:21
Alignment explanation
Indices: 7304929--7304989 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
7304919 TATAGAGAAT
7304929 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
7304950 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
7304971 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
7304990 ATATCAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:7304957 original size:5 final size:5
Alignment explanation
Indices: 7304929--7304987 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
7304919 TATAGAGAAT
* * * * *
7304929 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
7304981 ATATC AT
1 ATATC AT
7304988 GTATATCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 34 0.81
6 8 0.19
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:7304999 original size:10 final size:10
Alignment explanation
Indices: 7304929--7304995 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
7304919 TATAGAGAAT
7304929 ATATCATAG-C
1 ATATCAT-GTC
7304939 ATATCATGTGC
1 ATATCATGT-C
**
7304950 ATATCATAAC
1 ATATCATGTC
7304960 ATATCATGTGC
1 ATATCATGT-C
7304971 ATATCATGTC
1 ATATCATGTC
7304981 ATATCATGT-
1 ATATCATGTC
7304990 ATATCA
1 ATATCA
7304996 ATGTTTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:7312834 original size:11 final size:11
Alignment explanation
Indices: 7312820--7312851 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7312810 ATATATCATA
7312820 GCATATCATGT
1 GCATATCATGT
7312831 GCATATCATGT
1 GCATATCATGT
7312842 -CATATCATGT
1 GCATATCATGT
7312852 ATATCAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (11 bp):
GCATATCATGT
Found at i:7312836 original size:21 final size:21
Alignment explanation
Indices: 7312812--7312851 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7312802 TATAGAGAAT
7312812 ATATCATAG-CATATCATGTGC
1 ATATCAT-GTCATATCATGTGC
7312833 ATATCATGTCATATCATGT
1 ATATCATGTCATATCATGT
7312852 ATATCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATCATGTCATATCATGTGC
Found at i:7312861 original size:10 final size:10
Alignment explanation
Indices: 7312812--7312857 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
7312802 TATAGAGAAT
7312812 ATATCATAG-C
1 ATATCAT-GTC
7312822 ATATCATGTGC
1 ATATCATGT-C
7312833 ATATCATGTC
1 ATATCATGTC
7312843 ATATCATGT-
1 ATATCATGTC
7312852 ATATCA
1 ATATCA
7312858 ATGTTTCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.21
10 17 0.50
11 10 0.29
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:7332701 original size:17 final size:18
Alignment explanation
Indices: 7332643--7332701 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
7332633 TGAATGAAGT
7332643 ACATGAATTTAATTGAAA
1 ACATGAATTTAATTGAAA
** *
7332661 ACATG-A-TCGACTGAAA
1 ACATGAATTTAATTGAAA
7332677 ACATGAATTTAATTGAAA
1 ACATGAATTTAATTGAAA
7332695 A-ATGAAT
1 ACATGAAT
7332702 CCAATCATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 12 0.36
17 8 0.24
18 13 0.39
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (18 bp):
ACATGAATTTAATTGAAA
Found at i:7341655 original size:451 final size:451
Alignment explanation
Indices: 7340796--7341695 Score: 1563
Period size: 451 Copynumber: 2.0 Consensus size: 451
7340786 TAATAAAATG
* * *
7340796 TATAATATAAAAATAATAGGCAATAAGTATGTTCTATTATACTGTAGAATCGACACTGTTTAAAC
1 TATAATATAAAAATAATAGGCAATAAGTATGTTCTATTAGACTGTAGAATCGAAACTGCTTAAAC
** * *
7340861 TGGTAAACTAGTCATAAAACTTGAATTAAATGGGCTTAAATTTCTAATGGACACTGTAGGGCCCA
66 CAGTAAACTAGTCATAAAACTTGAATTAAATGGGCTTAAATTGCTAATGGACACTATAGGGCCCA
* *
7340926 TTAGGGGTTTTAGGGCCCAATGGCTAAACTTGTGAAATTGAGATAAATAAATTACTGCGATGACA
131 TTAGGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGATAAATAAATTACTACGATGACA
*
7340991 AATAGGCTAGTAAGGACCGTAACATTCATGAGAACCCTTAAAACTGATAAAATTACTGAAATACC
196 AATAGGCTAGTAAGGACCGTAAAATTCATGAGAACCCTTAAAACTGATAAAATTACTGAAATACC
7341056 TTTATAGGTGGAAAGTTTACAGCTTTACTCCTAGAAGCAAAATTACTGATATACCCCTAGGGTTA
261 TTTATAGGTGGAAAGTTTACAGCTTTACTCCTAGAAGCAAAATTACTGATATACCCCTAGGGTTA
* *
7341121 AGGTTGACCTGAATGCATGTTTGACTATTACTATTTGCTGCATGCCATGTTATTATTATCTAATG
326 AGGTTAACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTAATG
* *
7341186 CATGGGACTGGGTTATTGATGGAGGAAGTACTGAAAGTGGCTTGACCACGTACTGGAGGAA
391 CATGGGACTAGGTTATTGATGGAGGAAGTACTGAAAGTGGCTTGACCACGTACTAGAGGAA
*
7341247 TATATATATGAAAAA-AA-AGGCAATAAGTATGTTCTGTTAGACTGTAGAATCGAAACTGCTTAA
1 TATA-ATAT-AAAAATAATAGGCAATAAGTATGTTCTATTAGACTGTAGAATCGAAACTGCTTAA
*
7341310 ACCAGTAAACTGGTCATAAAACTTGAATTAAATGGGCTTAAATTGCTAATGGACACTATAGGGCC
64 ACCAGTAAACTAGTCATAAAACTTGAATTAAATGGGCTTAAATTGCTAATGGACACTATAGGGCC
7341375 CATTAGGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGATAAATAAATTACTACGATGA
129 CATTAGGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGATAAATAAATTACTACGATGA
*
7341440 CAAATGGGCTAGTAAGGACCGTAAAATTCATGAGAACCCTTAAAACTGATAAAATTACTGAAATA
194 CAAATAGGCTAGTAAGGACCGTAAAATTCATGAGAACCCTTAAAACTGATAAAATTACTGAAATA
*
7341505 CCTTTATAGGTGGAAAGTTTACAGTTTTACTCCTA-AGAGCAAAATTACTGATATACCCCTAGGG
259 CCTTTATAGGTGGAAAGTTTACAGCTTTACTCCTAGA-AGCAAAATTACTGATATACCCCTAGGG
* *
7341569 TTAAGGTTAACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTG
323 TTAAGGTTAACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTA
*
7341634 ATGCATGGGACTAGGTTATTGATGGGGGAAGTACTGAAAGTGGCTTGACCACGTACTAGAGG
388 ATGCATGGGACTAGGTTATTGATGGAGGAAGTACTGAAAGTGGCTTGACCACGTACTAGAGG
7341696 CTTTGCCTCA
Statistics
Matches: 425, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
450 1 0.00
451 413 0.97
452 6 0.01
453 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (451 bp):
TATAATATAAAAATAATAGGCAATAAGTATGTTCTATTAGACTGTAGAATCGAAACTGCTTAAAC
CAGTAAACTAGTCATAAAACTTGAATTAAATGGGCTTAAATTGCTAATGGACACTATAGGGCCCA
TTAGGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGATAAATAAATTACTACGATGACA
AATAGGCTAGTAAGGACCGTAAAATTCATGAGAACCCTTAAAACTGATAAAATTACTGAAATACC
TTTATAGGTGGAAAGTTTACAGCTTTACTCCTAGAAGCAAAATTACTGATATACCCCTAGGGTTA
AGGTTAACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTAATG
CATGGGACTAGGTTATTGATGGAGGAAGTACTGAAAGTGGCTTGACCACGTACTAGAGGAA
Found at i:7351469 original size:12 final size:12
Alignment explanation
Indices: 7351443--7351478 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7351433 ACAAAAATCA
*
7351443 TCAAAA-CATAC
1 TCAAAACCACAC
7351454 TCAAAACCACAC
1 TCAAAACCACAC
7351466 TCAAAACCACAC
1 TCAAAACCACAC
7351478 T
1 T
7351479 TATACATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (12 bp):
TCAAAACCACAC
Found at i:7353231 original size:46 final size:46
Alignment explanation
Indices: 7353080--7353295 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
7353070 TCACTTGCAT
* * * * *
7353080 GAGCTAGTGTAAGAGATGTCTGGAACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* * *
7353126 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* * *
7353174 GAGCTATTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
* *
7353221 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-TTATGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
* * *
7353266 TAGTCAGTGTAAGACCATGTTTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
7353296 GCATTGACAC
Statistics
Matches: 142, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 76 0.54
47 39 0.27
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:7356851 original size:43 final size:43
Alignment explanation
Indices: 7356791--7356918 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
7356781 CATAAAGCTC
* * * *
7356791 ATACAATGCC-ATATCCCAGATACGGTCTTACATGTTATCTCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
** *
7356833 CAT-CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACA
1 -ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
7356876 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
7356919 TCGCGGTAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 9 0.12
43 64 0.88
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
Found at i:7358159 original size:20 final size:20
Alignment explanation
Indices: 7358134--7358176 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7358124 TCCTCTTTCA
*
7358134 CATATAA-CACTTTTCCATTT
1 CATATAACCA-TTTTCCATAT
7358154 CATATAACCATTTTCCATAT
1 CATATAACCATTTTCCATAT
7358174 CAT
1 CAT
7358177 TGAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.42
Consensus pattern (20 bp):
CATATAACCATTTTCCATAT
Found at i:7362441 original size:22 final size:23
Alignment explanation
Indices: 7362400--7362442 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7362390 GAAAGAGAGA
*
7362400 AAAACAAAAAGAGAATAGCTACC
1 AAAACAAAAAGACAATAGCTACC
*
7362423 AAAACAAAAAGCCAA-AGCTA
1 AAAACAAAAAGACAATAGCTA
7362443 GAAAATTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.63, C:0.19, G:0.12, T:0.07
Consensus pattern (23 bp):
AAAACAAAAAGACAATAGCTACC
Found at i:7368175 original size:21 final size:21
Alignment explanation
Indices: 7368149--7368190 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7368139 AATACTACCA
7368149 AGTATCGGTATCGGCATTCCG
1 AGTATCGGTATCGGCATTCCG
7368170 AGTATCGGTATCGGCATTCCG
1 AGTATCGGTATCGGCATTCCG
7368191 TAGAAGATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (21 bp):
AGTATCGGTATCGGCATTCCG
Found at i:7368340 original size:46 final size:46
Alignment explanation
Indices: 7368287--7368462 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
7368277 TATTTGGGCA
*
7368287 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* * * * * *
7368333 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGC-AAGCG
* * *
7368380 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* * * *
7368426 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7368463 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.65
47 35 0.34
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
Found at i:7368442 original size:93 final size:93
Alignment explanation
Indices: 7368283--7368455 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
7368273 GGGATATTTG
* * * *
7368283 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAG
7368348 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
7368376 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAG
*
7368441 TTGAGTTCGAGTTCG
66 TTGAGTCCGAGTTCG
7368456 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:7372847 original size:27 final size:26
Alignment explanation
Indices: 7372790--7372900 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
7372780 AGCATGGCTG
* * * *
7372790 CCAGAATAGATAATGTGACAGTGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
7372816 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
7372843 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
7372870 CCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
7372897 CCAG
1 CCAG
7372901 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:7374331 original size:24 final size:24
Alignment explanation
Indices: 7374303--7374378 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
7374293 CCAACATTGT
*
7374303 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
7374327 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
7374351 TCTCCCTTATCAACTCATAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
7374375 TCTC
1 TCTC
7374379 TTGACAGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.24, C:0.41, G:0.03, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:7375681 original size:21 final size:21
Alignment explanation
Indices: 7375648--7375703 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 21
7375638 ATTATGTATT
* * *
7375648 TGTG-GATTGAATTGGTTAAA
1 TGTGTGATTAAATTAGTAAAA
7375668 TGTGTGATTAAATTAGTAAAA
1 TGTGTGATTAAATTAGTAAAA
* *
7375689 TTTGT-ATTAATTTAG
1 TGTGTGATTAAATTAG
7375704 ATCAAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (21 bp):
TGTGTGATTAAATTAGTAAAA
Found at i:7376054 original size:41 final size:42
Alignment explanation
Indices: 7376008--7376107 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 42
7375998 TTCCAATGTG
* *
7376008 TGATTCGTGTAAGTCCATGCCTGGGACATTGGCATCG-TATA
1 TGATTCGTGTAAGACCATGCCTGGGACAGTGGCATCGATATA
* ** *
7376049 TGATTCGTGTAAGACCCTTTCTGGGACAGTGGCATCGATATT
1 TGATTCGTGTAAGACCATGCCTGGGACAGTGGCATCGATATA
*
7376091 TGATTGCATGTAAGACC
1 TGATT-CGTGTAAGACC
7376108 TTATTTGGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 32 0.64
42 8 0.16
43 10 0.20
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTCGTGTAAGACCATGCCTGGGACAGTGGCATCGATATA
Found at i:7378419 original size:23 final size:22
Alignment explanation
Indices: 7378391--7378473 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 22
7378381 CTGTTTTTAG
*
7378391 CTCATTGGAGCTTACCGATTCAA
1 CTCATTAGAGCTTACCG-TTCAA
* * *
7378414 CTCATTTGAGCTTACTGTTCAG
1 CTCATTAGAGCTTACCGTTCAA
7378436 CTCGA-TAGAGCTTACCGTTTCAA
1 CTC-ATTAGAGCTTACCG-TTCAA
*
7378459 CTCAATAGAGCTTAC
1 CTCATTAGAGCTTAC
7378474 TATTTATTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (22 bp):
CTCATTAGAGCTTACCGTTCAA
Found at i:7378697 original size:20 final size:19
Alignment explanation
Indices: 7378645--7378701 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 19
7378635 ATGAGCCATG
7378645 TTGAAATGGATGAATTACTA
1 TTGAAAT-GATGAATTACTA
7378665 TTGAAATGAATGAATTACTA
1 TTGAAATG-ATGAATTACTA
7378685 TTGATACA-GATGAATTA
1 TTGA-A-ATGATGAATTA
7378702 TAGTTTATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 30 0.88
21 2 0.06
22 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGAAATGATGAATTACTA
Found at i:7378699 original size:24 final size:20
Alignment explanation
Indices: 7378645--7378688 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
7378635 ATGAGCCATG
*
7378645 TTGAAATGGATGAATTACTA
1 TTGAAATGAATGAATTACTA
7378665 TTGAAATGAATGAATTACTA
1 TTGAAATGAATGAATTACTA
7378685 TTGA
1 TTGA
7378689 TACAGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGAAATGAATGAATTACTA
Found at i:7380215 original size:36 final size:34
Alignment explanation
Indices: 7380165--7380236 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 34
7380155 ACTTTTGTAC
7380165 TCCTACTTCAATTTGGAATT-AGATTATTCTCTCTTT
1 TCCTACTTCAATTTGGAATTGA-ATTATT-T-TCTTT
* *
7380201 TCCTATTTCCATTTGGAATTGAATTATTTTCTTT
1 TCCTACTTCAATTTGGAATTGAATTATTTTCTTT
7380235 TC
1 TC
7380237 TCTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 24 0.73
37 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.53
Consensus pattern (34 bp):
TCCTACTTCAATTTGGAATTGAATTATTTTCTTT
Found at i:7395371 original size:33 final size:33
Alignment explanation
Indices: 7395324--7395386 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
7395314 CTTGGAGCCA
*
7395324 AATGGTTAAAGAATTCATGTGGAATAGCGATCG
1 AATGATTAAAGAATTCATGTGGAATAGCGATCG
7395357 AATGATTAAAGAATTCATGTGGAATAGCGA
1 AATGATTAAAGAATTCATGTGGAATAGCGA
7395387 AATGAAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (33 bp):
AATGATTAAAGAATTCATGTGGAATAGCGATCG
Found at i:7395858 original size:183 final size:183
Alignment explanation
Indices: 7395550--7395916 Score: 698
Period size: 183 Copynumber: 2.0 Consensus size: 183
7395540 GTCCCGAAGG
7395550 CATTCGTGCTGGTTGCTACATCCGAGCAAAATTCCGAAAGTATTTATGTTTGGAAAGGTGCGATT
1 CATTCGTGCTGGTTGCTACATCCGAGCAAAATTCCGAAAGTATTTATGTTTGGAAAGGTGCGATT
*
7395615 CTGTCGTAATAATTCCGATTAATGTGCTCATAATCCCTAATATGACCAGGTATGGATCGTATATA
66 CTGTCATAATAATTCCGATTAATGTGCTCATAATCCCTAATATGACCAGGTATGGATCGTATATA
7395680 CATTGGAAAATTTTGGTACAGTATGAGTTGTGATTATGTAATCGAATAATGCT
131 CATTGGAAAATTTTGGTACAGTATGAGTTGTGATTATGTAATCGAATAATGCT
* * *
7395733 CATTCGTGCTGGTTGTTACATCCGAGCCAAATTTCGAAAGTATTTATGTTTGGAAAGGTGCGATT
1 CATTCGTGCTGGTTGCTACATCCGAGCAAAATTCCGAAAGTATTTATGTTTGGAAAGGTGCGATT
7395798 CTGTCATAATAATTCCGATTAATGTGCTCATAATCCCTAATATGACCAGGTATGGATCGTATATA
66 CTGTCATAATAATTCCGATTAATGTGCTCATAATCCCTAATATGACCAGGTATGGATCGTATATA
7395863 CATTGGAAAATTTTGGTACAGTATGAGTTGTGATTATGTAATCGAATAATGCT
131 CATTGGAAAATTTTGGTACAGTATGAGTTGTGATTATGTAATCGAATAATGCT
7395916 C
1 C
7395917 TCCCGGCCAT
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 180 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (183 bp):
CATTCGTGCTGGTTGCTACATCCGAGCAAAATTCCGAAAGTATTTATGTTTGGAAAGGTGCGATT
CTGTCATAATAATTCCGATTAATGTGCTCATAATCCCTAATATGACCAGGTATGGATCGTATATA
CATTGGAAAATTTTGGTACAGTATGAGTTGTGATTATGTAATCGAATAATGCT
Found at i:7399848 original size:30 final size:30
Alignment explanation
Indices: 7399814--7399874 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
7399804 TCCTTAACTC
7399814 AAACTTTTACAAAATTACAATTTTACCCCT
1 AAACTTTTACAAAATTACAATTTTACCCCT
* * * * *
7399844 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTACAAAATTACAATTTTACCCCT
7399874 A
1 A
7399875 GCTCGGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTACCCCT
Found at i:7406176 original size:37 final size:37
Alignment explanation
Indices: 7406124--7406195 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
7406114 ATATGCACCA
*
7406124 CTCTTCATTCAGCACTCTCTGAAGTGAAATTTATTAC
1 CTCTTCATTCAGCACTCTCCGAAGTGAAATTTATTAC
*
7406161 CTCTTCATTCGGCACTCTCCGAAGTGAAATTTATT
1 CTCTTCATTCAGCACTCTCCGAAGTGAAATTTATT
7406196 GCAGATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (37 bp):
CTCTTCATTCAGCACTCTCCGAAGTGAAATTTATTAC
Found at i:7410606 original size:33 final size:36
Alignment explanation
Indices: 7410569--7410639 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 36
7410559 AACAAGGATG
7410569 AATGAATCAATTTTA-ACCTT-TTTTT-TTTAATTT
1 AATGAATCAATTTTATACCTTATTTTTATTTAATTT
*
7410602 AATGAATCAATTTTATCCCTTATTTTTATTTAATTT
1 AATGAATCAATTTTATACCTTATTTTTATTTAATTT
7410638 AA
1 AA
7410640 CTTAAATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 15 0.44
34 4 0.12
35 5 0.15
36 10 0.29
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (36 bp):
AATGAATCAATTTTATACCTTATTTTTATTTAATTT
Found at i:7413176 original size:45 final size:45
Alignment explanation
Indices: 7413125--7413305 Score: 193
Period size: 45 Copynumber: 4.0 Consensus size: 45
7413115 TAGGATTTTG
* *
7413125 ATATGTGTTTTTGTGTAAGACTAAGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* * *
7413170 ATATGTGTTTTCGTGTAAGACCACGTCTGGGGCGTTGGCATCGGT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
** * **
7413215 ATATGTGTTTTCGTGTAAGACCGCGTCTGGAATTTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* * * * * * * *
7413260 AAATATGGTTACGTGTAAGACCATGTCTAGGACATCGGCATC-AT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
7413304 AT
1 AT
7413306 TTGATTCATG
Statistics
Matches: 113, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 3 0.03
45 110 0.97
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
Found at i:7413611 original size:48 final size:48
Alignment explanation
Indices: 7413555--7413650 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
7413545 ATACAAAGTA
7413555 TACAAGTTACCTAAGTAAACATATGAGCATTGTACAATATATTCGGCC
1 TACAAGTTACCTAAGTAAACATATGAGCATTGTACAATATATTCGGCC
*
7413603 TACAAGTTACCTAAGTAAACATATGAGCATTGTACAGTATATTCGGCC
1 TACAAGTTACCTAAGTAAACATATGAGCATTGTACAATATATTCGGCC
7413651 ATATGCTATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (48 bp):
TACAAGTTACCTAAGTAAACATATGAGCATTGTACAATATATTCGGCC
Found at i:7415569 original size:27 final size:27
Alignment explanation
Indices: 7415539--7415844 Score: 359
Period size: 27 Copynumber: 11.3 Consensus size: 27
7415529 TACTGAAATG
**
7415539 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
7415566 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
*
7415593 CCCTC-AGTTTACA-ACATTACCGTTTTA
1 CCCTCGA-TTTACAGA-ATTACCATTTTA
* *
7415620 CCCTCGATTAATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
7415647 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
7415674 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
7415701 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
* *
7415728 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
7415755 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
7415782 CCATTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
7415809 CCCT-AAGTTTAGAAAATTATCATTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
7415836 CCCTCGATT
1 CCCTCGATT
7415845 GTGAAATTAC
Statistics
Matches: 243, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
26 4 0.02
27 235 0.97
28 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:7415866 original size:27 final size:27
Alignment explanation
Indices: 7415836--7415972 Score: 84
Period size: 27 Copynumber: 5.1 Consensus size: 27
7415826 TATCATTTTA
*
7415836 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTAGATTGTGAAATTACTGAAATAC
* * **
7415863 CCCTATA-GGAT-AGAATTACCAAAATAC
1 CCCTAGATTG-TGA-AATTACTGAAATAC
* * * *
7415890 CCTTAGTTTGTAAAATTACCGAAATAC
1 CCCTAGATTGTGAAATTACTGAAATAC
*
7415917 CCCTAGTTTGTGAAATTA-TCGAAATAC
1 CCCTAGATTGTGAAATTACT-GAAATAC
** * *
7415944 CATTGGTTTGTGAAATTA-TCGAAATAC
1 CCCTAGATTGTGAAATTACT-GAAATAC
7415971 CC
1 CC
7415973 TCAATTTGTA
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
26 2 0.02
27 84 0.95
28 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (27 bp):
CCCTAGATTGTGAAATTACTGAAATAC
Found at i:7415934 original size:54 final size:54
Alignment explanation
Indices: 7415876--7416027 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 54
7415866 TATAGGATAG
* *
7415876 AATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCC-CTAGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTC-AATTTGTAA
* * * * * *
7415930 AATTATCGAAATACCATTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAA
* ** **
7415984 AATTACCAAAATAGCCCTGA-TTTACAAAATTATAGAAATACCCT
1 AATTACCAAAATA-CCCTTAGTTTGTAAAATTACCGAAATACCCT
7416028 TGACTTTCTA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
54 75 0.95
55 4 0.05
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:7415969 original size:81 final size:82
Alignment explanation
Indices: 7415884--7416092 Score: 206
Period size: 81 Copynumber: 2.5 Consensus size: 82
7415874 AGAATTACCA
* *
7415884 AAATACCCTTAGTTTGTAAAATTACCGAAATACCCCTAGTTTGTGAAATTATCGAAATACCATTG
1 AAATACCCTTAGTTTGTAAAATTACCGAAATACCCCT-GTTTGTAAAATTATAGAAATACCATTG
* * * *
7415949 -GTTTGT-GAAATTATCG
65 ACTTTCTAAAAATTATAG
* * * * ** *
7415965 AAATACCCTCAATTTGTAAAATTACCAAAATAGCCCTGATTTACAAAATTATAGAAATACCCTTG
1 AAATACCCTTAGTTTGTAAAATTACCGAAATACCCCTG-TTTGTAAAATTATAGAAATACCATTG
7416030 ACTTTCTAAAAATTATAG
65 ACTTTCTAAAAATTATAG
* * ** * *
7416048 AAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTA
1 AAATACCCTTAGTTTGTAAAATTACCGAAATACCCCT-GTTTGTA
7416093 GATTTACCAA
Statistics
Matches: 99, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
80 1 0.01
81 54 0.55
82 4 0.04
83 39 0.39
84 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (82 bp):
AAATACCCTTAGTTTGTAAAATTACCGAAATACCCCTGTTTGTAAAATTATAGAAATACCATTGA
CTTTCTAAAAATTATAG
Found at i:7415980 original size:27 final size:27
Alignment explanation
Indices: 7415884--7416054 Score: 130
Period size: 27 Copynumber: 6.3 Consensus size: 27
7415874 AGAATTACCA
* *
7415884 AAATACCCTTAGTTTGTAAAATTACCG
1 AAATACCCTCAGTTTGTAAAATTATCG
*
7415911 AAATACCC-CTAGTTTGTGAAATTATCG
1 AAATACCCTC-AGTTTGTAAAATTATCG
* ** *
7415938 AAATACCATTGGTTTGTGAAATTATCG
1 AAATACCCTCAGTTTGTAAAATTATCG
* * *
7415965 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCAGTTTGTAAAATTATCG
* ** *
7415992 AAATAGCCCTGA-TTTACAAAATTATAG
1 AAATA-CCCTCAGTTTGTAAAATTATCG
* * * *
7416019 AAATACCCTTGACTTTCTAAAAATTATAG
1 AAATACCC-TCAGTTTGT-AAAATTATCG
7416048 AAATACC
1 AAATACC
7416055 ATTGGTTTAC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.03
27 89 0.76
28 8 0.07
29 17 0.15
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATACCCTCAGTTTGTAAAATTATCG
Found at i:7416064 original size:56 final size:54
Alignment explanation
Indices: 7415929--7416085 Score: 149
Period size: 56 Copynumber: 2.9 Consensus size: 54
7415919 CTAGTTTGTG
* *** * *
7415929 AAATTATCGAAATACCATTGGTTTGTGAAATTATCGAAATACCC-TCAATTTGTA
1 AAATTATAGAAATACCATTGGTTTACAAAATTAT-GAAATACCCTTGAATTTCTA
* * * *
7415983 AAATTACCA-AAATAGCC-CTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAA
1 AAATTA-TAGAAATA-CCATTGGTTTACAAAATTAT-GAAATACCCTTGAATTTCT-A
7416039 AAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG
1 AAATTATAGAAATACCATTGGTTTACAAAATTA-TGAAATACCCTTG
7416086 GTTTGTAGAT
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
54 32 0.39
55 11 0.13
56 38 0.46
57 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTATAGAAATACCATTGGTTTACAAAATTATGAAATACCCTTGAATTTCTA
Found at i:7416077 original size:27 final size:27
Alignment explanation
Indices: 7415884--7416089 Score: 105
Period size: 27 Copynumber: 7.6 Consensus size: 27
7415874 AGAATTACCA
* ** **
7415884 AAATACCCTTAGTTTGTAAAATTACCG
1 AAATACCCTTGGTTTACAAAATTATAG
* * *** *
7415911 AAATACCCCTAGTTTGTGAAATTATCG
1 AAATACCCTTGGTTTACAAAATTATAG
* *** *
7415938 AAATACCATTGGTTTGTGAAATTATCG
1 AAATACCCTTGGTTTACAAAATTATAG
*** ** *
7415965 AAATACCCTCAATTTGTAAAATTACCA-
1 AAATACCCTTGGTTTACAAAATTA-TAG
*
7415992 AAATAGCCC-TGATTTACAAAATTATAG
1 AAATA-CCCTTGGTTTACAAAATTATAG
*
7416019 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTG-GTTTAC--AAAATTATAG
*
7416048 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGGTTTACAAAATTA-TAG
7416075 AAATACCCTTGGTTT
1 AAATACCCTTGGTTT
7416090 GTAGATTTAC
Statistics
Matches: 148, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
26 4 0.03
27 113 0.76
28 10 0.07
29 21 0.14
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTATAG
Found at i:7416218 original size:27 final size:28
Alignment explanation
Indices: 7416143--7416219 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
7416133 ACCCCTAATA
*
7416143 GGTAAAAAGACCGTAA-AGCCCTTGTAG
1 GGTAAAATGACCGTAATAGCCCTTGTAG
* *
7416170 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATAGCCCTTGTAG
7416197 GGTAAAATGA-CG-AATATGCCCTT
1 GGTAAAATGACCGTAATA-GCCCTT
7416220 ATGTTCCGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.09
26 2 0.05
27 36 0.84
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (28 bp):
GGTAAAATGACCGTAATAGCCCTTGTAG
Found at i:7417078 original size:25 final size:26
Alignment explanation
Indices: 7417017--7417087 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
7417007 AGGAAGTGCT
* * *
7417017 AAAAGGGCTCTACCGTAGTTTACTGC
1 AAAAGGGCTTTGCCGCAGTTTACTGC
*
7417043 AAAAGGTCTTTGCCGCAGTTTA-T-C
1 AAAAGGGCTTTGCCGCAGTTTACTGC
*
7417067 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCGCAGTT
7417088 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.05
25 18 0.47
26 18 0.47
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTGCCGCAGTTTACTGC
Found at i:7417282 original size:42 final size:42
Alignment explanation
Indices: 7417235--7417326 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
7417225 TAGTCTCCCC
*
7417235 AAATGGGCTTGTATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
7417277 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
7417319 AAATGGGC
1 AAATGGGC
7417327 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:7423874 original size:50 final size:50
Alignment explanation
Indices: 7423799--7424186 Score: 309
Period size: 50 Copynumber: 7.7 Consensus size: 50
7423789 GTGAGTCACG
* *
7423799 TGTGTAGTGCTAAGTGGAGGCTACTATGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
* **
7423849 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TT-A-ACTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCG--CA
* * * * * * * * * *
7423898 TGTGTGTAGTTCTAATTGTAGGCTACTAAGTGTATCAGATGGCTAAGTCACG
1 --TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
**
7423950 TGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
* * * * * * * *
7424000 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACC-CATTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCGCA
* * * * * * * *
7424051 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
* * * * *
7424101 TGTGCAGTACTAAGTCCAGGCTAGTACGTGTACCAGATTGATAGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
* * * *
7424151 TGTGTAGTACAAAGTGCA-GCTATTTTGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
7424187 GAGCTTCAGT
Statistics
Matches: 262, Mismatches: 66, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 22 0.08
50 162 0.62
51 66 0.25
52 4 0.02
54 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
Found at i:7423982 original size:101 final size:101
Alignment explanation
Indices: 7423798--7423983 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
7423788 TGTGAGTCAC
* * * *
7423798 GTGTGTAGTGCTAAGTGGAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTGCTAAGTGGAGGCTACTAAGTGTACCAGATGGATAAGTCACATGTGTAGTACTAAG
**
7423863 TGCAGGCTACTATGTGTACCCGTTAACTTCGATCAT
66 TGCAGGCTACTACCTGTACCCGTTAACTTCGATCAT
* * * * * *
7423899 GTGTGTAGTTCTAATTGTAGGCTACTAAGTGTATCAGATGGCTAAGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTGCTAAGTGGAGGCTACTAAGTGTACCAGATGGATAAGTCACATGTGTAGTACTAAG
7423964 TGCAGGCTACTACCTGTACC
66 TGCAGGCTACTACCTGTACC
7423984 AGATTGATAG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
GTGTGTAGTGCTAAGTGGAGGCTACTAAGTGTACCAGATGGATAAGTCACATGTGTAGTACTAAG
TGCAGGCTACTACCTGTACCCGTTAACTTCGATCAT
Found at i:7424069 original size:151 final size:151
Alignment explanation
Indices: 7423792--7424183 Score: 606
Period size: 151 Copynumber: 2.6 Consensus size: 151
7423782 ATCCGTTGTG
* * *
7423792 AGTCACGTGTGTAGTGCTAAGTGGAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * * *
7423857 ACTAAGTGCAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTTCTAATTGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
7423922 ACTAAGTGTATCAGATGGCTA
131 ACTAAGTGTATCAGATGGCTA
*
7423943 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
7424008 ACTAAGTGTAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
* *
7424073 ACTACGTGTATCAGATGGTTA
131 ACTAAGTGTATCAGATGGCTA
* * * *
7424094 AGTCACGTGTGCAGTACTAAGTCCAGGCTAGTACGTGTACCAGATTGATAGGTCGTATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
7424159 ACAAAGTGCA-GCTATTTTGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
7424184 AGAGAGCTTC
Statistics
Matches: 220, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
150 13 0.06
151 207 0.94
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
ACTAAGTGTATCAGATGGCTA
Found at i:7424134 original size:101 final size:101
Alignment explanation
Indices: 7423945--7424134 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 101
7423935 GATGGCTAAG
* * * *
7423945 TCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATGGATAAGTCACATGTGCAGTAC
** *
7424010 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTCCAGGCTACTACGCGTACCCATTAACTTCGA
* * * * *
7424046 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGCAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATGGATAAGTCACATGTGCAGTAC
* *
7424111 TAAGTCCAGGCTAGTACGTGTACC
66 TAAGTCCAGGCTACTACGCGTACC
7424135 AGATTGATAG
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATGGATAAGTCACATGTGCAGTAC
TAAGTCCAGGCTACTACGCGTACCCATTAACTTCGA
Found at i:7424407 original size:16 final size:16
Alignment explanation
Indices: 7424386--7424417 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7424376 AGAATGGAGT
7424386 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
7424402 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
7424418 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:7428310 original size:27 final size:27
Alignment explanation
Indices: 7428280--7428463 Score: 251
Period size: 27 Copynumber: 6.8 Consensus size: 27
7428270 ATTAAGAAAG
* * **
7428280 TACCCTCGATTTACAAAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
7428307 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
7428334 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
7428361 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
7428388 TATCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
7428415 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
7428442 TACCCTCGATTTACAGAATTAC
1 TACCCTCGATTTATAGAATTAC
7428464 TGAAATACCC
Statistics
Matches: 138, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:7428472 original size:27 final size:27
Alignment explanation
Indices: 7428442--7428642 Score: 115
Period size: 27 Copynumber: 7.4 Consensus size: 27
7428432 ATTACCATTT
* *
7428442 TACCCTCGATTTACAGAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
7428469 TACCCTTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
7428496 TACCCTCGATCTGCAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* **
7428523 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTACAAAATTACTAAAA
* ** *
7428550 TATCCCT-GGTTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTACAAAATTACTAAAA
* ** * *
7428577 CA-CCTCTGGCTTATAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACTAAAA
** *
7428604 TACCC-CTGATTTATGAAATTA-TCGAAA
1 TACCCTC-GATTTACAAAATTACT-AAAA
*
7428631 TACTCTCGATTT
1 TACCCTCGATTT
7428643 GTAAAATATC
Statistics
Matches: 142, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.02
26 1 0.01
27 132 0.93
28 6 0.04
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:7428476 original size:54 final size:54
Alignment explanation
Indices: 7428280--7428462 Score: 285
Period size: 54 Copynumber: 3.4 Consensus size: 54
7428270 ATTAAGAAAG
*
7428280 TACCCTCGATTTACAAAATTATTATTTTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTATCATTTTACCCTTGATTTATAGAATTACCATTT
* * * * *
7428334 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCATTTTACCCTTGATTTATAGAATTACCATTT
* *
7428388 TATCCTCGATTTACAGAATTATCATTTTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTATCATTTTACCCTTGATTTATAGAATTACCATTT
*
7428442 TACCCTCGATTTACAGAATTA
1 TACCCTCGATTTACAAAATTA
7428463 CTGAAATACC
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.43
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTATCATTTTACCCTTGATTTATAGAATTACCATTT
Found at i:7428482 original size:81 final size:80
Alignment explanation
Indices: 7428280--7428490 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 80
7428270 ATTAAGAAAG
* * *
7428280 TACCCTCGATTTACAAAATTATTATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTATGA-TTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATT
7428345 TATAAAATTACCATTT
65 TATAAAATTACCATTT
* * * * * *
7428361 TACCCTCGATTTATAGAATTATCGTTTTATCCTCGATTTACAGAATTATCATTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTAT-GATTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATT
*
7428426 TATAGAATTACCATTT
65 TATAAAATTACCATTT
** * *
7428442 TACCCTCGATTTACAGAATTACTGAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAGAATTA-TGATTTACCCTTGATTTACAGAATTAC
7428491 TAAAATACCC
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 108 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (80 bp):
TACCCTCGATTTACAGAATTATGATTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTT
ATAAAATTACCATTT
Found at i:7428500 original size:54 final size:54
Alignment explanation
Indices: 7428442--7428608 Score: 165
Period size: 54 Copynumber: 3.1 Consensus size: 54
7428432 ATTACCATTT
* * ** *
7428442 TACCCTCGATTTACAGAATTACTGAAATACCCTTGGTTTACAAAATTACTAAAA
1 TACCCTCGATCTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACTAAAA
* **
7428496 TACCCTCGATCTGCAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATCTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACTAAAA
* * ** * * * * *
7428550 TATCCCT-GGTTTGTAAAATTACCAAAACACCTCTGGCTTATAAAATTACCAAAA
1 TA-CCCTCGATCTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACTAAAA
7428604 TACCC
1 TACCC
7428609 CTGATTTATG
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.03
54 89 0.93
55 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.29
Consensus pattern (54 bp):
TACCCTCGATCTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACTAAAA
Found at i:7428500 original size:81 final size:81
Alignment explanation
Indices: 7428334--7428519 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
7428324 ATTACCATTT
* *** *
7428334 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTATCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGAAATACCCTCGATT
* ***
7428399 TACAGAATTATCATTT
66 TACAAAATTATCAAAA
* * * *
7428415 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTA-CTGAAATACCCTTGGT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATC-GAAATACCCTCGAT
7428479 TTACAAAATTA-CTAAAA
65 TTACAAAATTATC-AAAA
* **
7428496 TACCCTCGATCTGCAAAATTACCA
1 TACCCTCGATTTATAAAATTACCA
7428520 AAATACCCCT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
80 2 0.02
81 83 0.98
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGAAATACCCTCGATT
TACAAAATTATCAAAA
Found at i:7428543 original size:81 final size:80
Alignment explanation
Indices: 7428444--7428633 Score: 195
Period size: 81 Copynumber: 2.3 Consensus size: 80
7428434 TACCATTTTA
* * * *
7428444 CCCTCGATTTACAGAATTACTGAAATACCCTTGGTTTACAAAATTACTAAAATACC-CTCGATCT
1 CCCT-GATTTATAAAATTACTGAAATACCC-TGGTTTACAAAATTACCAAAACACCTCTCGAT-T
*
7428508 GCAAAATTACCAAAATAC
63 ACAAAATTACCAAAATAC
* * * ** * * *
7428526 CCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTTGTAAAATTACCAAAACACCTCTGGCTTAT
1 CCCTGATTTATAAAATTACTGAAATA-CCCTGGTTTACAAAATTACCAAAACACCTCTCGATTAC
7428591 AAAATTACCAAAATAC
65 AAAATTACCAAAATAC
*
7428607 CCCTGATTTATGAAATTA-TCGAAATAC
1 CCCTGATTTATAAAATTACT-GAAATAC
7428634 TCTCGATTTG
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
80 2 0.02
81 75 0.85
82 11 0.12
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (80 bp):
CCCTGATTTATAAAATTACTGAAATACCCTGGTTTACAAAATTACCAAAACACCTCTCGATTACA
AAATTACCAAAATAC
Found at i:7428623 original size:54 final size:54
Alignment explanation
Indices: 7428483--7428624 Score: 151
Period size: 54 Copynumber: 2.6 Consensus size: 54
7428473 CTTGGTTTAC
* * ** * * *
7428483 AAAATTACTAAAATA-CCCTCGATCTGCAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCT-GATTTATAAAATTACCAAAACACCCCTGGCTTAT
* * * * *
7428537 AAAATTACTAAAATATCCCTGGTTTGTAAAATTACCAAAACACCTCTGGCTTAT
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACCAAAACACCCCTGGCTTAT
*
7428591 AAAATTACCAAAATACCCCTGATTTATGAAATTA
1 AAAATTACCAAAATACCCCTGATTTATAAAATTA
7428625 TCGAAATACT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
54 71 0.95
55 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTATAAAATTACCAAAACACCCCTGGCTTAT
Found at i:7428648 original size:54 final size:54
Alignment explanation
Indices: 7428483--7428661 Score: 148
Period size: 54 Copynumber: 3.3 Consensus size: 54
7428473 CTTGGTTTAC
* * ** * * *
7428483 AAAATTACTAAAATA-CCCTCGATCTGCAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCT-GATTTATAAAATTACCAAAACACCTCTGATTTGT
* * * * ** *
7428537 AAAATTACTAAAATATCCCTGGTTTGTAAAATTACCAAAACACCTCTGGCTTAT
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACCAAAACACCTCTGATTTGT
* * * *
7428591 AAAATTACCAAAATACCCCTGATTTATGAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACCAAAACACCTCT-GATTTGT
*
7428645 AAAA-TATCAAAATACCC
1 AAAATTACCAAAATACCC
7428662 TTGTAGGGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 16 0.15
54 84 0.81
55 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTATAAAATTACCAAAACACCTCTGATTTGT
Found at i:7428693 original size:27 final size:27
Alignment explanation
Indices: 7428654--7428787 Score: 196
Period size: 27 Copynumber: 5.0 Consensus size: 27
7428644 TAAAATATCA
*
7428654 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
7428681 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
7428708 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
7428735 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
7428762 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
7428788 ATTTTGCCCC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:7429066 original size:24 final size:25
Alignment explanation
Indices: 7428990--7429059 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
7428980 AGGAAGTGCT
* *
7428990 AAAAA-GGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATC
*
7429014 AAAAAGGGCTTTGCCCTAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTATC
7429039 AAAAAGGGCTTTGCCCCAGTT
1 AAAAAGGGCTTTGCCCCAGTT
7429060 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 5 0.12
25 36 0.88
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATC
Found at i:7429072 original size:24 final size:25
Alignment explanation
Indices: 7428990--7429084 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
7428980 AGGAAGTGCT
*
7428990 AAAAA-GGCTATGCCCCAGTTTACC
1 AAAAAGGGCTATGCCCCAGTTTATC
* *
7429014 AAAAAGGGCTTTGCCCTAGTTTATC
1 AAAAAGGGCTATGCCCCAGTTTATC
*
7429039 AAAAAGGGCTTTGCCCCAG-TTAT-
1 AAAAAGGGCTATGCCCCAGTTTATC
* *
7429062 TAAAAGAGGCTAGGCCTCCAGTT
1 AAAAAG-GGCTATGCC-CCAGTT
7429085 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.08
24 16 0.27
25 38 0.63
26 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAAGGGCTATGCCCCAGTTTATC
Found at i:7432422 original size:27 final size:26
Alignment explanation
Indices: 7432367--7432477 Score: 91
Period size: 27 Copynumber: 4.1 Consensus size: 26
7432357 TACCATTTTC
**
7432367 CCCTCGATTTACAGAATTACCAATTTA
1 CCCTCGATTTACAGAATTA-CAAAATA
* *
7432394 CCCTTGATTTACAGAATTACTGAAATA
1 CCCTCGATTTACAGAATTAC-AAAATA
* * *
7432421 CCCTTGGTTTACAAAATTACCAAAATA
1 CCCTCGATTTACAGAATTA-CAAAATA
7432448 CCCTCGATTAGTA-A-AATTACCAAAATA
1 CCCTCGATT--TACAGAATTA-CAAAATA
7432475 CCC
1 CCC
7432478 CTGGTTTGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 1 0.01
27 66 0.93
28 2 0.03
29 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (26 bp):
CCCTCGATTTACAGAATTACAAAATA
Found at i:7432442 original size:81 final size:81
Alignment explanation
Indices: 7431474--7432413 Score: 1729
Period size: 81 Copynumber: 11.6 Consensus size: 81
7431464 ATTACCAAAG
* * * * * *
7431474 TACCATCGATTTATAGAATTA-CTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTATC-GTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGAT
7431538 TTATAGAATTACCATTT
65 TTATAGAATTACCATTT
7431555 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7431620 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7431636 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7431701 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7431717 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7431782 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7431798 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7431863 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7431879 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7431944 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7431960 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7432025 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7432041 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7432106 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7432122 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7432187 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7432203 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7432268 TATAGAATTACCATTT
66 TATAGAATTACCATTT
7432284 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
7432349 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * * * ** * * *
7432365 TCCCCTCGATTTACAGAATTACCAATTTACCCTTGATTTACAGAATTAC
1 TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTAC
7432414 TGAAATACCC
Statistics
Matches: 843, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
81 842 1.00
82 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTATCGTTTTATCCTCGATTTATAGAATTACCGTTTAACCTTCGATT
TATAGAATTACCATTT
Found at i:7432573 original size:54 final size:54
Alignment explanation
Indices: 7432381--7432574 Score: 194
Period size: 54 Copynumber: 3.6 Consensus size: 54
7432371 CGATTTACAG
** * * * ** * * **
7432381 AATTACCAATTTACCCTTGATTTACAGAATTACTGAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCTGGCTTGTAA
*
7432435 AATTACCAAAATA-CCCTCGA-TTAGTAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCT-GATTTA-TAAAATTACCAAAATACCCCTGGCTTGTAA
* * * *
7432489 AATTACTAAAATACCCCCGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAA
1 AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCTGGCTTGTAA
* *
7432543 AATTACCAAAATACCCCTAATTTATGAAATTA
1 AATTACCAAAATACCCCTGATTTATAAAATTA
7432575 TCGAAACACT
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
53 6 0.05
54 104 0.90
55 5 0.04
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCTGGCTTGTAA
Found at i:7432573 original size:81 final size:81
Alignment explanation
Indices: 7432381--7432574 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 81
7432371 CGATTTACAG
** * * * * * **
7432381 AATTACCAATTTACCCTTGATTTACAGAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 AATTACCAAAATACCCCTAATTTATAAAATTACTAAAATACCCCCGGTTTACAAAATTACCAAAA
7432446 TACCCTCGATTAGTAA
66 TACCCTCGATTAGTAA
** * **
7432462 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCCTAATTTATAAAATTACTAAAATACCCCCGGTTTACAAAATTACCAAAA
* *
7432527 TACCCCTGGCTT-GTAA
66 TA-CCCTCGATTAGTAA
*
7432543 AATTACCAAAATACCCCTAATTTATGAAATTA
1 AATTACCAAAATACCCCTAATTTATAAAATTA
7432575 TCGAAACACT
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 87 0.93
82 7 0.07
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTATAAAATTACTAAAATACCCCCGGTTTACAAAATTACCAAAA
TACCCTCGATTAGTAA
Found at i:7432574 original size:27 final size:27
Alignment explanation
Indices: 7432416--7432560 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
7432406 AGAATTACTG
* **
7432416 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCA
* *
7432443 AAATA-CCCTCGATTAGTAAAATTACCA
1 AAATACCCCT-GGTTTGTAAAATTACCA
*
7432470 AAATACCCCTGGTTTGTAAAATTACTA
1 AAATACCCCTGGTTTGTAAAATTACCA
*
7432497 AAATACCCCCGGTTTGTAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCA
*
7432524 AAATACCCCTGGCTTGTAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCA
7432551 AAATACCCCT
1 AAATACCCCT
7432561 AATTTATGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 97 0.93
28 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATACCCCTGGTTTGTAAAATTACCA
Found at i:7432594 original size:81 final size:82
Alignment explanation
Indices: 7432433--7432640 Score: 201
Period size: 81 Copynumber: 2.6 Consensus size: 82
7432423 CTTGGTTTAC
* ** *
7432433 AAAATTACCAAAATA-CCCTCGATTAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTA
1 AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATACCCCTAATTTATAAAATTACTA
* **
7432497 AAATACCCCCGGTTTGT
66 AAACACCCCCAATTTGT
* *
7432514 AAAATTACCAAAATACCCCTGGCTT-GTAAAATTACCAAAATACCCCTAATTTATGAAATTA-TC
1 AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATACCCCTAATTTATAAAATTACT-
* * *
7432577 GAAACACTCTCAATTTGT
65 AAAACACCCCCAATTTGT
* * * ** * *
7432595 AAAA-TATCGAAATACCCCTGTA-GGGTAGAATTATCAAAATACCCCT
1 AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATACCCCT
7432641 GTAGGGTAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
80 35 0.33
81 63 0.60
82 7 0.07
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (82 bp):
AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATACCCCTAATTTATAAAATTACTA
AAACACCCCCAATTTGT
Found at i:7432637 original size:27 final size:26
Alignment explanation
Indices: 7432602--7432763 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 26
7432592 TGTAAAATAT
7432602 CGAAATACCCCTGTAGGGTAGAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
*
7432628 TCAAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
7432655 CTGAAATACCCCTATAGGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
** * **
7432682 CCGAAATACCTTTGTAGGGTAAAAACA
1 -CGAAATACCCCTGTAGGGTAGAATTA
**
7432709 CCGAAATACCCCCATAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
* * *
7432736 CTGAGATACCCTTGTAGGGTAAAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
7432763 C
1 C
7432764 CATTTTGCCC
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
26 2 0.02
27 108 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (26 bp):
CGAAATACCCCTGTAGGGTAGAATTA
Found at i:7432666 original size:54 final size:53
Alignment explanation
Indices: 7432593--7432764 Score: 211
Period size: 54 Copynumber: 3.2 Consensus size: 53
7432583 CTCTCAATTT
* * * *
7432593 GTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTATAGGGTAGAATTA-CGAAATACCCTTGTAGG
* * *
7432646 GTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCTTTGTAGG
1 GTAAAATTACCGAAATACCCCTATAGGGTAGAATTA-CGAAATACCCTTGTAGG
** * *
7432700 GTAAAAACACCGAAATACCCCCATAGGGTAGAATTACTGAGATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCCTATAGGGTAGAATTAC-GAAATACCCTTGTAGG
7432754 GTAAAATTACC
1 GTAAAATTACC
7432765 ATTTTGCCCC
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 6 0.06
54 94 0.94
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (53 bp):
GTAAAATTACCGAAATACCCCTATAGGGTAGAATTACGAAATACCCTTGTAGG
Found at i:7433004 original size:25 final size:25
Alignment explanation
Indices: 7432966--7433035 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
7432956 AGAAAGTGCT
* *
7432966 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* * *
7432991 TAAAGGGCTTTGCCCAAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
7433016 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
7433036 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:7433048 original size:24 final size:25
Alignment explanation
Indices: 7432966--7433048 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
7432956 AGAAAGTGCT
* * *
7432966 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCAAGTTTATC
*
7432990 GTAAAG-GGCTTTGCCCAAGTTTATC
1 -AAAAGAGGCTTTGCCCAAGTTTATC
* *
7433015 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCAAGTTTATC
7433039 AAAAGAGGCT
1 AAAAGAGGCT
7433049 AGGCCTCTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 15 0.31
25 33 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCAAGTTTATC
Found at i:7435483 original size:27 final size:27
Alignment explanation
Indices: 7435464--7435674 Score: 275
Period size: 27 Copynumber: 7.8 Consensus size: 27
7435454 ATTACCAAAG
7435464 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
7435491 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
7435518 TATCCTCGATTTATAGAA-TA-CATGTTT
1 TACCCTCGATTTACAGAATTACCA--TTT
*
7435545 TATCCC-CGATTTACAAAATTACCATTT
1 TA-CCCTCGATTTACAGAATTACCATTT
*
7435572 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
***
7435599 TACCCTCGATTTACAGAATTACTGCTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
7435626 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
7435653 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
7435675 TAAAATACCC
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
25 2 0.01
26 5 0.03
27 151 0.92
28 4 0.02
29 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:7435511 original size:54 final size:54
Alignment explanation
Indices: 7435451--7435738 Score: 251
Period size: 54 Copynumber: 5.3 Consensus size: 54
7435441 CTCAATTTGT
* *
7435451 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* ** * *
7435505 AGAATTACCATTTTATCCTCGATTTATAGAA-TA-CATGTTTTATCCC-CGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCA--TTTTA-CCCTCGATTTAC
** *
7435559 AAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* **** * *
7435613 AGAATTACTGCTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * * * * * *** * *
7435667 AAAATTACTAAAATACCCTTGGTTTAGAAAATTACCAAAATACCCTCGA-TCAGT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA-C
*
7435721 AAAATTACCAAAATACCC
1 AAAATTACCAAATTACCC
7435739 CTGATTTGTG
Statistics
Matches: 194, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 7 0.04
54 178 0.92
55 5 0.03
56 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:7435692 original size:27 final size:27
Alignment explanation
Indices: 7435419--7435792 Score: 166
Period size: 27 Copynumber: 13.9 Consensus size: 27
7435409 AATACTTTAG
* * * *
7435419 TTTACCAAATTACTAAAATGCCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
7435446 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
7435473 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** *
7435500 TTTATAGAATTACCATTTTATCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ***
7435527 TTTATAGAA-TA-CATGTTTTATCCC-CGA
1 TTTACAAAATTACCA--AAATA-CCCTCGA
***
7435554 TTTACAAAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
***
7435581 TTTACAAAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***** *
7435608 TTTACAGAATTACTGCTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
7435635 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
7435662 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
*
7435689 TTTAGAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
7435716 -TCAGTAAAATTACCAAAATACCC-CTGA
1 TTTA-CAAAATTACCAAAATACCCTC-GA
*** * * *
7435743 TTTGTGAAATTATCGAAATACTCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
7435770 TTTGTAAAA-TAACAAAATACCCT
1 TTTACAAAATTACCAAAATACCCT
7435793 TGTAGGGTAG
Statistics
Matches: 287, Mismatches: 50, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.01
26 19 0.07
27 258 0.90
28 6 0.02
29 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:7435701 original size:81 final size:82
Alignment explanation
Indices: 7435464--7435674 Score: 320
Period size: 81 Copynumber: 2.6 Consensus size: 82
7435454 ATTACCAAAG
* * *
7435464 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTATCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* *
7435529 TATAGAA-TACATGTTT
66 TACAGAATTACATGCTT
*
7435545 TATCCC-CGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGAT
1 TA-CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGAT
7435609 TTACAGAATTAC-TGCTT
65 TTACAGAATTACATGCTT
* *
7435626 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
7435675 TAAAATACCC
Statistics
Matches: 118, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
80 3 0.03
81 109 0.92
82 6 0.05
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (82 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAGAATTACATGCTT
Found at i:7435711 original size:81 final size:81
Alignment explanation
Indices: 7435419--7435712 Score: 216
Period size: 81 Copynumber: 3.6 Consensus size: 81
7435409 AATACTTTAG
* * * * ** * * *
7435419 TTTACCAAATTACTAAAATGCCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATT
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTACAAAATT
7435484 ACCATTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * *** * * * *** *
7435500 TTTATAGAATTACCATTTTATCCTCGATTTATAGAA-TA-CATGTTTTATCCC-CGATTTACAAA
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCA--AAATA-CCCTTGATTTACAAA
7435562 ATTACCATTTTACCCTCGA
63 ATTACCATTTTACCCTCGA
*** * ***** *
7435581 TTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTGCTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTACAAAATT
*
7435646 ACCGTTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * * *
7435662 TTTACAAAATTACTAAAATACCCTTGGTTTAGAAAATTACCAAAATACCCT
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCT
7435713 CGATCAGTAA
Statistics
Matches: 168, Mismatches: 39, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.01
80 5 0.03
81 156 0.93
82 5 0.03
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTACAAAATT
ACCATTTTACCCTCGA
Found at i:7435823 original size:27 final size:27
Alignment explanation
Indices: 7435784--7435942 Score: 210
Period size: 27 Copynumber: 5.9 Consensus size: 27
7435774 TAAAATAACA
*
7435784 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
7435811 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
7435838 AAATACCTCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
7435865 AAATAACCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
7435892 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
7435919 ACATACTCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
7435943 TCATTTTGCC
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:7435891 original size:81 final size:81
Alignment explanation
Indices: 7435773--7435942 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 81
7435763 CTCTCGATTT
* * * *
7435773 GTAAAA-TAACAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT
1 GTAAAATTACCAAAATAACCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
7435837 GAAATAC-CTCTGTAGG
66 GAAATACTCT-TGTAGG
*
7435853 GTAGAATTACCAAAATAACCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
1 GTAAAATTACCAAAATAACCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
* *
7435918 GACATACTCTTGTGGG
66 GAAATACTCTTGTAGG
7435934 GTAAAATTA
1 GTAAAATTA
7435943 TCATTTTGCC
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 5 0.06
81 73 0.91
82 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (81 bp):
GTAAAATTACCAAAATAACCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
GAAATACTCTTGTAGG
Found at i:7436175 original size:25 final size:24
Alignment explanation
Indices: 7436147--7436216 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
7436137 ATGAAGTGCT
*
7436147 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
7436171 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
7436196 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
7436217 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Done.