Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 133 of 425
Found at i:39968577 original size:27 final size:27
Alignment explanation
Indices: 39968519--39968633 Score: 79
Period size: 27 Copynumber: 4.3 Consensus size: 27
39968509 CCTTAGTTTG
* *
39968519 CAAAATTACTAAAATACCCTCGACTTG
1 CAAAATTACTAAAATACCCTCGAATTA
* *
39968546 TAAAATTA-TCAAAGTACCCTCGAATTA
1 CAAAATTACT-AAAATACCCTCGAATTA
**** *
39968573 CAAAATTACTGTTTTACCCTCGATTTA
1 CAAAATTACTAAAATACCCTCGAATTA
* **** *
39968600 CAGAATTACTGTTTTACCCTCGATTTA
1 CAAAATTACTAAAATACCCTCGAATTA
39968627 CAAAATT
1 CAAAATT
39968634 GTCGTTTTAC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 72 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
CAAAATTACTAAAATACCCTCGAATTA
Found at i:39968578 original size:81 final size:80
Alignment explanation
Indices: 39968409--39968581 Score: 177
Period size: 81 Copynumber: 2.1 Consensus size: 80
39968399 ATACTTTAGT
* * * * **
39968409 TTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTAC
1 TTACAAAATTACCGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCGACTTATAAAATTAC
* *
39968474 CCAAATATCCTCGAT
66 CCAAATACCCTCGAA
** ** * * *
39968489 TTGTAAAATTACCGAAATACCCTTAGTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTA
1 TTACAAAATTACCGAAATACCCCCAG-TTGCAAAATTACCAAAATACCCCCGACTTATAAAATTA
*
39968554 -TCAAAGTACCCTCGAA
65 CCCAAA-TACCCTCGAA
39968570 TTACAAAATTAC
1 TTACAAAATTAC
39968582 TGTTTTACCC
Statistics
Matches: 73, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
80 24 0.33
81 49 0.67
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (80 bp):
TTACAAAATTACCGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCGACTTATAAAATTAC
CCAAATACCCTCGAA
Found at i:39968582 original size:54 final size:54
Alignment explanation
Indices: 39968408--39968582 Score: 176
Period size: 54 Copynumber: 3.3 Consensus size: 54
39968398 AATACTTTAG
* * * * * *
39968408 TTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGG
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
* ** * * *
39968461 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCT-TA
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTCGA
* *
39968514 GTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
*
39968569 ATTACAAAATTACT
1 TTTACAAAATTACT
39968583 GTTTTACCCT
Statistics
Matches: 97, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 21 0.22
54 72 0.74
55 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
Found at i:39968640 original size:27 final size:27
Alignment explanation
Indices: 39968560--39968862 Score: 374
Period size: 27 Copynumber: 11.2 Consensus size: 27
39968550 ATTATCAAAG
*
39968560 TACCCTCGAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
39968587 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
39968614 TACCCTCGATTTACAAAATT-GTCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* **
39968641 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39968668 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
39968695 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39968722 TACCCTCAATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
39968749 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
39968776 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
39968803 TACCCTCGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * **
39968830 TACCCTCAATTTATAAAACTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
39968857 TACCCT
1 TACCCT
39968863 TAGGGTGTTA
Statistics
Matches: 240, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 239 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:39969127 original size:27 final size:26
Alignment explanation
Indices: 39969097--39969148 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
39969087 ATCGCTGCAA
*
39969097 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
39969124 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
39969149 GCGGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:39969405 original size:31 final size:31
Alignment explanation
Indices: 39969369--39969447 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
39969359 TTGCATTCAC
* **
39969369 ATTCTGATTTTGATTCTGGT-ACCTGGTACTG
1 ATTCTGATTCTGATTCT-GTCACCTAATACTG
*
39969400 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
39969431 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
39969448 AATTCTGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:39969465 original size:18 final size:17
Alignment explanation
Indices: 39969444--39969477 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39969434 CTGATTCTGA
39969444 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
39969462 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
39969478 GGTTAAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:39969471 original size:6 final size:6
Alignment explanation
Indices: 39969369--39969456 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
39969359 TTGCATTCAC
* * * * *
39969369 ATTCTG ATTTTG ATTCTG GTACCTG GTACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
39969418 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
39969457 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
5 1 0.02
6 56 0.86
7 7 0.11
8 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:39972038 original size:40 final size:40
Alignment explanation
Indices: 39971911--39972040 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
39971901 ATGCTGGAAA
* *
39971911 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
39971951 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
39971991 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
39972031 TTATATCCGG
1 TTATATCCGG
39972041 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:39980009 original size:40 final size:40
Alignment explanation
Indices: 39979882--39980011 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
39979872 ATGCTGGAAA
* *
39979882 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
39979922 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
39979962 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
39980002 TTATATCCGG
1 TTATATCCGG
39980012 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:39982691 original size:27 final size:26
Alignment explanation
Indices: 39982561--39982703 Score: 108
Period size: 27 Copynumber: 5.4 Consensus size: 26
39982551 CAAATTACTG
* *
39982561 AAATACCC-CAGTTGTAAAATTACCA
1 AAATACCCTCATTTGTAAAATTATCA
* ** * * *
39982586 AAGTACCCCTGGTTTATAAAATTACCC
1 AAATA-CCCTCATTTGTAAAATTATCA
* * *
39982613 AAATATCCTCGATTTGTAAAATTACCG
1 AAATACCCTC-ATTTGTAAAATTATCA
* * *
39982640 AAATACACTCAGTTTGCAAAATTATTA
1 AAATACCCTCA-TTTGTAAAATTATCA
39982667 AAATACCCTCATCTTGTAAAATTATCA
1 AAATACCCTCAT-TTGTAAAATTATCA
*
39982694 AAGTACCCTC
1 AAATACCCTC
39982704 GAATTACAAA
Statistics
Matches: 91, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.04
26 8 0.09
27 79 0.87
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATACCCTCATTTGTAAAATTATCA
Found at i:39982727 original size:27 final size:27
Alignment explanation
Indices: 39982697--39982998 Score: 354
Period size: 27 Copynumber: 11.2 Consensus size: 27
39982687 ATTATCAAAG
*
39982697 TACCCTCGAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
39982724 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
39982751 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
39982778 TACCCTCGATTTATAAAGTTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39982805 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
39982832 TACCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39982859 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
39982886 TACCCTCAATTTACAAATTTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
39982913 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
39982940 TACCTTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* **
39982967 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
39982994 TACCC
1 TACCC
39982999 CTAGGGTGTT
Statistics
Matches: 233, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 232 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:39983355 original size:71 final size:67
Alignment explanation
Indices: 39983220--39983357 Score: 186
Period size: 71 Copynumber: 2.0 Consensus size: 67
39983210 AAGCGTTCTA
* * *
39983220 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTGGTGACTTCGTCACAATATC
1 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTGGTGACCTAGCCACAATATC
39983285 TG
66 TG
* * *
39983287 GCAGCCTTGCTGCAATCTGGTGGCTTCGCCACACATATATATCTGTTCTGGTGGCCTAGCCACAA
1 GCAGCCTCGCTGCAATCTGGTGGCCTCG---C-CATATATATCTGTTCTGGTGACCTAGCCACAA
39983352 TATCTG
62 TATCTG
39983358 TATCTGGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 26 0.43
70 1 0.02
71 34 0.56
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.30
Consensus pattern (67 bp):
GCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTGGTGACCTAGCCACAATATC
TG
Found at i:39985287 original size:27 final size:25
Alignment explanation
Indices: 39985138--39985290 Score: 117
Period size: 27 Copynumber: 5.7 Consensus size: 25
39985128 TTAGTTTACC
* * *
39985138 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCTCATTTGTA
** *
39985164 AAATTACCAAAGTACCCCTGGTTTATA
1 AAATTACCAAA-TA-CCCTCATTTGTA
*
39985191 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTC-ATTTGTA
* *
39985218 AAATTACCGAAATACACTCAGTTTGCA
1 AAATTACC-AAATACCCTCA-TTTGTA
*
39985245 AAATTACTAAAATACCCTCATCTTGTA
1 AAATTAC-CAAATACCCTCAT-TTGTA
*
39985272 AAATTATCAAAGTACCCTC
1 AAATTACCAAA-TACCCTC
39985291 GAATTACAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.03
26 19 0.19
27 73 0.73
28 5 0.05
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATTACCAAATACCCTCATTTGTA
Found at i:39985301 original size:54 final size:53
Alignment explanation
Indices: 39985132--39985306 Score: 167
Period size: 54 Copynumber: 3.3 Consensus size: 53
39985122 AATACTTTAG
* * * * *
39985132 TTTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCC-CTGG
1 TTTACAAAATTACTAAAATACCCTCATTTGTAAAATTACCAAAGTACCCTC-GA
* ** * *
39985185 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACACTC-A
1 TTTACAAAATTACTAAAATACCCTC-ATTTGTAAAATTACC-AAAGTACCCTCGA
* *
39985238 GTTTGCAAAATTACTAAAATACCCTCATCTTGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTAAAATACCCTCAT-TTGTAAAATTACCAAAGTACCCTCGA
*
39985293 ATTACAAAATTACT
1 TTTACAAAATTACT
39985307 GTTTTACCCT
Statistics
Matches: 97, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
53 24 0.25
54 68 0.70
55 5 0.05
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (53 bp):
TTTACAAAATTACTAAAATACCCTCATTTGTAAAATTACCAAAGTACCCTCGA
Found at i:39985314 original size:27 final size:27
Alignment explanation
Indices: 39985284--39985585 Score: 363
Period size: 27 Copynumber: 11.2 Consensus size: 27
39985274 ATTATCAAAG
* *
39985284 TACCCTCGAATTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
39985311 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
39985338 TACCCTCGATTTATAAAATTACAGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
39985365 TACCCTCGATTTATAAAGTTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
39985392 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
39985419 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
39985446 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * * *
39985473 TACCCTCAATTTACAAATTTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
39985500 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
39985527 TACCTTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
**
39985554 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
39985581 TACCC
1 TACCC
39985586 CTAGGGTGTT
Statistics
Matches: 236, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 235 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:39985331 original size:81 final size:81
Alignment explanation
Indices: 39985246--39985575 Score: 209
Period size: 81 Copynumber: 4.1 Consensus size: 81
39985236 CAGTTTGCAA
* *
39985246 AATTACTAAAATACCCTC-ATCTTGTAAAATTATCA-AAGTACCCTCGAATTACAAAATTACTGT
1 AATTACTAAAATACCCTCGAT-TTATAAAATTA-CAGAAGTACCCTCGAATTACAAAATTACCGT
39985309 TTTACCCTCAATTTATAG
64 TTTACCCTCAATTTATAG
**** *** * * *
39985327 AATTACTGTTTTACCCTCGATTTATAAAATTACAGTTTTACCCTCGATTTATAAAGTTACCGTTT
1 AATTACTAAAATACCCTCGATTTATAAAATTACAGAAGTACCCTCGAATTACAAAATTACCGTTT
*
39985392 TACCCTCGATTTATAG
66 TACCCTCAATTTATAG
* **** * * * *** * * **
39985408 AATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCG-ATTGATAGAATTATTGTT
1 AATTACTAAAATACCCTCGATTTATAAAATTACAGAAGTACCCTCGAATT-ACAAAATTACCGTT
*
39985472 TTACCCTCAATTTACA-
65 TTACCCTCAATTTATAG
*** * * *** * * * *
39985488 AATTTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCTTCGATTTACAGAATTATCGTT
1 AA-TTACTAAAATACCCTCGATTTATAAAATTACAGAAGTACCCTCGAATTACAAAATTACCGTT
* *
39985553 TTACCCTCGATTTATAA
65 TTACCCTCAATTTATAG
39985570 AATTAC
1 AATTAC
39985576 CATTTTACCC
Statistics
Matches: 209, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
80 6 0.03
81 197 0.94
82 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (81 bp):
AATTACTAAAATACCCTCGATTTATAAAATTACAGAAGTACCCTCGAATTACAAAATTACCGTTT
TACCCTCAATTTATAG
Found at i:39985942 original size:71 final size:67
Alignment explanation
Indices: 39985807--39985944 Score: 186
Period size: 71 Copynumber: 2.0 Consensus size: 67
39985797 AAGCGTTCTA
* * *
39985807 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTGGTGACTTCGTCACAATATC
1 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTGGTGACCTAGCCACAATATC
39985872 TG
66 TG
* * *
39985874 GCAGCCTTGCTGCAATCTGGTGGCTTCGCCACACATATATATCTGTTCTGGTGGCCTAGCCACAA
1 GCAGCCTCGCTGCAATCTGGTGGCCTCG---C-CATATATATCTGTTCTGGTGACCTAGCCACAA
39985939 TATCTG
62 TATCTG
39985945 TATCTGGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 26 0.43
70 1 0.02
71 34 0.56
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.30
Consensus pattern (67 bp):
GCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTGGTGACCTAGCCACAATATC
TG
Found at i:39986129 original size:6 final size:6
Alignment explanation
Indices: 39986090--39986149 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
39986080 TTGCATTCAC
* * * * *
39986090 ATTCTG ATTTTG ATTCTG GTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
39986139 ATTCTG ATTCT
1 ATTCTG ATTCT
39986150 AGTTCTAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 40 0.91
7 4 0.09
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:39991498 original size:93 final size:93
Alignment explanation
Indices: 39991339--39991509 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
39991329 GGATGGTTGA
* * ** *
39991339 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAATCACCGAACTCGTTGAGT
39991404 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
39991432 GCATCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGAGAA-CACCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAATCACC-GAACTCGTTGAG
39991496 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
39991510 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39997102 original size:29 final size:29
Alignment explanation
Indices: 39996938--39997101 Score: 238
Period size: 29 Copynumber: 5.7 Consensus size: 29
39996928 GCTTGGAAGG
*
39996938 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
39996967 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* *
39996996 TATGTCACTAGGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
**
39997025 TATGGCACTAAGTGTGCGAACTTAGTTTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
39997054 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
39997083 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
39997102 GATCGTTTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:40016272 original size:40 final size:40
Alignment explanation
Indices: 40016178--40016322 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
40016168 TACTCGAATG
* * *
40016178 ATATCCGGGCTATGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* *
40016219 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
40016259 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
40016299 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
40016323 CTTATGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 27 0.29
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:40016342 original size:39 final size:40
Alignment explanation
Indices: 40016178--40016343 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 40
40016168 TACTCGAATG
* * * * *
40016178 ATATCCGGGCTATGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
40016219 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
40016259 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
40016299 ATATCCGGGCTAAGACCCGAAGGC-CTTATGCGAGTG-CTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-T
40016338 ATATCC
1 ATATCC
40016344 AGCTAAACCC
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.01
39 16 0.15
40 63 0.59
41 27 0.25
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:40029277 original size:26 final size:26
Alignment explanation
Indices: 40029247--40029357 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
40029237 AGCATGGCTG
* *
40029247 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
40029273 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
40029300 CCAGAACAGGTATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
40029327 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
40029354 CCAG
1 CCAG
40029358 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 13 0.17
27 61 0.80
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:40033698 original size:18 final size:18
Alignment explanation
Indices: 40033675--40033709 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
40033665 AGAATCATGG
40033675 AGCATTCAAAAGTTATAT
1 AGCATTCAAAAGTTATAT
40033693 AGCATTCAAAAGTTATA
1 AGCATTCAAAAGTTATA
40033710 CTTTTGGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (18 bp):
AGCATTCAAAAGTTATAT
Found at i:40038336 original size:39 final size:40
Alignment explanation
Indices: 40038158--40038340 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
40038148 ACCCACCAAG
* * * * * * * *
40038158 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
40038198 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
40038238 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
40038278 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
40038317 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
40038341 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:40046364 original size:39 final size:40
Alignment explanation
Indices: 40046186--40046368 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
40046176 CCGCACCAAG
* * * * * * * *
40046186 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
40046226 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
40046266 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
40046306 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
40046345 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
40046369 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:40057596 original size:40 final size:39
Alignment explanation
Indices: 40057551--40057758 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
40057541 CGGAATACAA
*
40057551 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40057591 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40057631 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
40057671 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
40057711 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
40057751 CCGGATAT
1 CCGGATAT
40057759 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40057691 original size:80 final size:80
Alignment explanation
Indices: 40057551--40057757 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
40057541 CGGAATACAA
* * *
40057551 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
40057615 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
40057631 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
40057695 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
40057711 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
40057758 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40065554 original size:40 final size:39
Alignment explanation
Indices: 40065495--40065702 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
40065485 CAGAATACAA
* *
40065495 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
40065535 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
40065575 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
40065615 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACACTTGCACAAAT-GCCTTCGGGTCTTAGC
* * * * *
40065655 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
40065695 CCGGATAT
1 CCGGATAT
40065703 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 133 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40065635 original size:80 final size:80
Alignment explanation
Indices: 40065495--40065701 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
40065485 CAGAATACAA
* * *
40065495 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
40065559 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
40065575 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
40065639 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
40065655 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
40065702 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40067423 original size:21 final size:21
Alignment explanation
Indices: 40067380--40067423 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
40067370 ACACACTCAG
* *
40067380 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAACTATTAATAAA
40067401 CTTAATTGAACTAATTAA-AAA
1 CTTAATTGAACT-ATTAATAAA
40067422 CT
1 CT
40067424 AGAAGACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
CTTAATTGAACTATTAATAAA
Found at i:40070740 original size:49 final size:49
Alignment explanation
Indices: 40070687--40070861 Score: 226
Period size: 49 Copynumber: 3.5 Consensus size: 49
40070677 CTGGTACGCA
*
40070687 TAGTATCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*** * ** *
40070736 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAT-CGAGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG-GTACACG
* *
40070787 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCCGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
40070836 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
40070862 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 60 0.57
50 9 0.09
51 36 0.34
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:40091408 original size:18 final size:19
Alignment explanation
Indices: 40091373--40091424 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
40091363 ATAAATTGAG
*
40091373 AAAGAAAAACA-AATCGAA
1 AAAGAAAAAGAGAATCGAA
40091391 AAAGAAAAAGAGAA-CGAA
1 AAAGAAAAAGAGAATCGAA
40091409 AGAGAGAAAAAAGAGA
1 A-A-AG-AAAAAGAGA
40091425 TTGAGAGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 15 0.52
19 3 0.10
20 2 0.07
21 9 0.31
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAGAGAATCGAA
Found at i:40093861 original size:28 final size:28
Alignment explanation
Indices: 40093821--40093877 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
40093811 GGCTTGGTGC
40093821 AACGTATGGAAGGGTGCATGCAAAATTA
1 AACGTATGGAAGGGTGCATGCAAAATTA
40093849 AACGTATGGAAGGGTGCATGCAAAATTA
1 AACGTATGGAAGGGTGCATGCAAAATTA
40093877 A
1 A
40093878 GGTTCAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (28 bp):
AACGTATGGAAGGGTGCATGCAAAATTA
Found at i:40096832 original size:47 final size:47
Alignment explanation
Indices: 40096781--40096878 Score: 135
Period size: 47 Copynumber: 2.1 Consensus size: 47
40096771 TAAGTTGGAT
* ** *
40096781 TTAAGCTTGTTAAATTTGTTCTTAATAATT-CTGGATAAGTTACTTAG
1 TTAAGCTTGTTAAAATTGCCCTTAAT-ATTGCCGGATAAGTTACTTAG
*
40096828 TTAAGTTTGTTAAAATTGCCCTTAATATTGCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAAATTGCCCTTAATATTGCCGGATAAGTTACTTAG
40096875 TTAA
1 TTAA
40096879 AGAAAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 3 0.07
47 42 0.93
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (47 bp):
TTAAGCTTGTTAAAATTGCCCTTAATATTGCCGGATAAGTTACTTAG
Found at i:40097806 original size:44 final size:45
Alignment explanation
Indices: 40097655--40097859 Score: 258
Period size: 45 Copynumber: 4.6 Consensus size: 45
40097645 ATATCGTACA
** *
40097655 ATACTATTCGGGCCTTTTAGCCTAGCAGGCTATAATGCAGGTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* * *
40097700 ATACTATT-GTGGCCTTTGAGCCTAGTAGGCTATATTGCCGGTGAT
1 ATACTATTCG-GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
40097745 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT-AT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* * * *
40097789 ATACTATTCGAGCCTTCGAGCCTAACAGGCTATAATGTCGGTGAA
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
*
40097834 ATGA-TA-TCGTG-CTTCGAGCCTAGCAG
1 AT-ACTATTCGGGCCTTCGAGCCTAGCAG
40097860 ATGAAATGCC
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
43 14 0.10
44 46 0.32
45 81 0.57
46 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (45 bp):
ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
Found at i:40102944 original size:40 final size:40
Alignment explanation
Indices: 40102782--40102983 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
40102772 CGAATGATGT
*
40102782 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
40102822 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
40102861 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
40102899 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
40102940 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
40102980 CCGG
1 CCGG
40102984 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:40102946 original size:78 final size:79
Alignment explanation
Indices: 40102781--40102932 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
40102771 TCGAATGATG
* * *
40102781 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
40102846 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
40102861 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
40102924 GTGCAAGTC
65 GTGCAAGTC
40102933 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:40111016 original size:40 final size:40
Alignment explanation
Indices: 40110854--40111055 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
40110844 CGAATGATGT
*
40110854 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
40110894 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
40110933 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
40110971 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
40111012 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
40111052 CCGG
1 CCGG
40111056 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:40111018 original size:78 final size:79
Alignment explanation
Indices: 40110853--40111004 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
40110843 TCGAATGATG
* * *
40110853 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
40110918 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
40110933 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
40110996 GTGCAAGTC
65 GTGCAAGTC
40111005 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:40114986 original size:26 final size:27
Alignment explanation
Indices: 40114957--40115010 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
40114947 TCACACAAGT
*
40114957 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
40114983 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
40115010 T
1 T
40115011 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:40115041 original size:27 final size:27
Alignment explanation
Indices: 40115011--40115156 Score: 186
Period size: 27 Copynumber: 5.4 Consensus size: 27
40115001 GGGGCAAAAT
* * *
40115011 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
40115038 GGTAATTCTACCCGACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
40115065 GGTAATTCTACCCTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
**
40115092 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
40115119 GATAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
40115146 GGTAATTCTAC
1 GGTAATTCTAC
40115157 AACTTATCCA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 97 0.93
28 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:40117785 original size:40 final size:39
Alignment explanation
Indices: 40117635--40117787 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
40117625 GAATGTTCGA
*
40117635 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
40117674 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
40117713 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
40117752 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
40117788 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:40117803 original size:40 final size:39
Alignment explanation
Indices: 40117636--40117818 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
40117626 AATGTTCGAG
* *
40117636 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
40117675 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
40117714 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
40117753 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
40117793 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
40117819 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:40125868 original size:40 final size:39
Alignment explanation
Indices: 40125720--40125870 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
40125710 GAATGTTCGA
*
40125720 GTGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
40125758 GTGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
40125796 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
40125835 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
40125871 GGTTACCATA
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 23 0.22
38 18 0.17
39 45 0.44
40 17 0.17
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:40125886 original size:40 final size:39
Alignment explanation
Indices: 40125721--40125901 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
40125711 AATGTTCGAG
* *
40125721 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
40125759 TGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
40125797 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
40125836 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
40125876 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
40125902 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
37 23 0.18
38 17 0.13
39 45 0.36
40 41 0.33
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:40129567 original size:47 final size:47
Alignment explanation
Indices: 40129511--40129745 Score: 327
Period size: 47 Copynumber: 5.1 Consensus size: 47
40129501 TAAGTTGGAT
40129511 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
* * * *
40129558 TTAAGCTTGTTAAAATTGTTCTTAATAATTTCGTATAAGGTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
* * *
40129605 TTAAGCTTGTTAAAATTGTTCTTAATAATTTCAGATAAG----TTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
40129648 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
* ** *
40129695 TTAAGTTTGTTAAAATTT-CCCTTAATATTTCCGGATAAGTTACTTAG
1 TTAAGCTTGTT-AAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
40129742 TTAA
1 TTAA
40129746 AGAAAATTTT
Statistics
Matches: 170, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
43 40 0.24
47 124 0.73
48 6 0.04
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (47 bp):
TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
Found at i:40129686 original size:90 final size:90
Alignment explanation
Indices: 40129511--40129736 Score: 303
Period size: 90 Copynumber: 2.5 Consensus size: 90
40129501 TAAGTTGGAT
* *
40129511 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAGTTAAGCTTGTTAAAATTG
1 TTAAGCTTGTTAAAATTGTTCTTAATAATTTCGGATAAG----TTAGTTAAGCTTGTTAAAATTG
* *
40129576 TTCTTAATAATTTCGTATAAGGTACTTAG
62 TTCTTAATAATTCCGGATAAGGTACTTAG
* *
40129605 TTAAGCTTGTTAAAATTGTTCTTAATAATTTCAGATAAGTTAGTTAAGCTTGTTAAATTTGTTCT
1 TTAAGCTTGTTAAAATTGTTCTTAATAATTTCGGATAAGTTAGTTAAGCTTGTTAAAATTGTTCT
*
40129670 TAATAATTCCGGATAAGTTACTTAG
66 TAATAATTCCGGATAAGGTACTTAG
* *
40129695 TTAAGTTTGTTAAAATT-TCCCTTAAT-ATTTCCGGATAAGTTA
1 TTAAGCTTGTTAAAATTGT-TCTTAATAATTT-CGGATAAGTTA
40129737 CTTAGTTAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
89 5 0.04
90 79 0.66
94 36 0.30
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (90 bp):
TTAAGCTTGTTAAAATTGTTCTTAATAATTTCGGATAAGTTAGTTAAGCTTGTTAAAATTGTTCT
TAATAATTCCGGATAAGGTACTTAG
Found at i:40130584 original size:45 final size:44
Alignment explanation
Indices: 40130520--40130691 Score: 179
Period size: 45 Copynumber: 3.9 Consensus size: 44
40130510 ATATCGTACA
* * *
40130520 ATACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAT
1 ATACTATT-TGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* * *
40130565 ATACTATTTGAGCCTTTGAGCCTAGTAGGCTATAATGCCGGCGAT
1 ATACTATTTG-GCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* * * *
40130610 ATACTATTCGGGCGTTCGAGCCTAGCAAGCTATAATGCCGGTGAA
1 ATACTATT-TGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* *
40130655 ATGA-TA-TTGGGCTTCGAGCCTAGCAGGCGA-AATGCCG
1 AT-ACTATTTGGCCTTCGAGCCTAGCAGGCTATAATGCCG
40130692 ATGAATGAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
42 7 0.06
43 18 0.17
44 2 0.02
45 79 0.73
46 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (44 bp):
ATACTATTTGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
Found at i:40144998 original size:20 final size:20
Alignment explanation
Indices: 40144960--40145010 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
40144950 ATTCAACTTG
*
40144960 AATTCTAGCTC-ACTGAGCTT
1 AATTC-AGCTCAACTGAGCTC
*
40144980 AATTCAGCTCAACTTAGCTC
1 AATTCAGCTCAACTGAGCTC
*
40145000 AATTGAGCTCA
1 AATTCAGCTCA
40145011 TTTCTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (20 bp):
AATTCAGCTCAACTGAGCTC
Found at i:40147899 original size:24 final size:24
Alignment explanation
Indices: 40147867--40147913 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
40147857 CTAAGATAAG
*
40147867 CATTTATTCCAGCAAGTAATTAAA
1 CATTTATTCCAACAAGTAATTAAA
*
40147891 CATTTATTCCAATAAGTAATTAA
1 CATTTATTCCAACAAGTAATTAA
40147914 CTAAAAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (24 bp):
CATTTATTCCAACAAGTAATTAAA
Found at i:40147999 original size:40 final size:40
Alignment explanation
Indices: 40147933--40148019 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
40147923 GTTTAATAAA
40147933 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
* * * *
40147973 AATAGAGTCTAGCAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
40148013 AAATAAA
1 -AATAAA
40148020 TTAAAGTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (40 bp):
AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
Found at i:40150301 original size:18 final size:17
Alignment explanation
Indices: 40150269--40150303 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
40150259 TTTTCTTTTC
40150269 TCTCTCTTTTTCACTCT
1 TCTCTCTTTTTCACTCT
*
40150286 TCTCTTTTTGTTCACTCT
1 TCTCTCTTT-TTCACTCT
40150304 CTTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.60
Consensus pattern (17 bp):
TCTCTCTTTTTCACTCT
Found at i:40153761 original size:47 final size:47
Alignment explanation
Indices: 40153707--40153853 Score: 204
Period size: 47 Copynumber: 3.1 Consensus size: 47
40153697 TTAGGATTTT
** * *
40153707 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
40153754 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
40153801 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40153848 ATGTGA
1 ATGTGA
40153854 AATATGTATG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40154168 original size:37 final size:37
Alignment explanation
Indices: 40154063--40154174 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
40154053 AATATATTCC
* *
40154063 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
*
40154100 AGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
* * * *
40154137 GGGTAAGGCCCGATAACTTCGTGTGGAGATTTCGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
40154174 G
1 G
40154175 AGCTAAAGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
Found at i:40163170 original size:28 final size:28
Alignment explanation
Indices: 40163104--40163200 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
40163094 ATAGTGAGTC
* **
40163104 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACATAGTGCTATATAATCAAATT
40163131 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACATAGTGCTATATAATCAAATT
*
40163159 CGCACACATAGTGCTGTATAATCAAATT
1 CGCACACATAGTGCTATATAATCAAATT
*
40163187 CGCACACTTAGTGC
1 CGCACACATAGTGC
40163201 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
27 22 0.34
28 42 0.66
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACATAGTGCTATATAATCAAATT
Found at i:40163246 original size:42 final size:42
Alignment explanation
Indices: 40163187--40163285 Score: 198
Period size: 42 Copynumber: 2.4 Consensus size: 42
40163177 TAATCAAATT
40163187 CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
1 CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
40163229 CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
1 CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
40163271 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
40163286 GAGACCAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
Found at i:40171159 original size:28 final size:28
Alignment explanation
Indices: 40171093--40171189 Score: 151
Period size: 28 Copynumber: 3.5 Consensus size: 28
40171083 ATAGTGAGTC
* **
40171093 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACATAGTGCTATATAATCAAATT
40171120 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACATAGTGCTATATAATCAAATT
40171148 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACATAGTGCTATATAATCAAATT
*
40171176 CGCACACTTAGTGC
1 CGCACACATAGTGC
40171190 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.34
28 43 0.66
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACATAGTGCTATATAATCAAATT
Found at i:40171235 original size:42 final size:42
Alignment explanation
Indices: 40171176--40171274 Score: 180
Period size: 42 Copynumber: 2.4 Consensus size: 42
40171166 TAATCAAATT
*
40171176 CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
1 CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
40171218 CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
1 CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
*
40171260 CGCACATTTAGTGCC
1 CGCACACTTAGTGCC
40171275 GAGACCAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (42 bp):
CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
Found at i:40177911 original size:30 final size:30
Alignment explanation
Indices: 40177877--40177933 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
40177867 CGAGCCTAGA
40177877 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
40177907 GGCAAAATTGTAATTTTTCAAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
40177934 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Found at i:40178742 original size:64 final size:64
Alignment explanation
Indices: 40178662--40178845 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40178652 AGACATTATG
* *
40178662 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40178726 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40178791 AA
63 AA
* * * *
40178793 ACTG-A-CTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40178846 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 15 0.15
67 32 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40188541 original size:68 final size:67
Alignment explanation
Indices: 40188469--40188618 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
40188459 CATCATGTGT
* * * *
40188469 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
40188531 ATGTAG
62 ATGTAG
** * *
40188537 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
40188602 AG
66 AG
40188604 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
40188619 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:40188574 original size:64 final size:64
Alignment explanation
Indices: 40188493--40188676 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40188483 AGACATTATG
* *
40188493 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40188557 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40188622 AA
63 AA
* * * *
40188624 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40188677 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40190824 original size:28 final size:28
Alignment explanation
Indices: 40190758--40190854 Score: 151
Period size: 28 Copynumber: 3.5 Consensus size: 28
40190748 ATAGTGAGTC
* **
40190758 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACATAGTGCTATATAATCAAATT
40190785 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACATAGTGCTATATAATCAAATT
40190813 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACATAGTGCTATATAATCAAATT
*
40190841 CGCACACTTAGTGC
1 CGCACACATAGTGC
40190855 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.34
28 43 0.66
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACATAGTGCTATATAATCAAATT
Found at i:40190900 original size:42 final size:42
Alignment explanation
Indices: 40190841--40190939 Score: 180
Period size: 42 Copynumber: 2.4 Consensus size: 42
40190831 TAATCAAATT
*
40190841 CGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACC
1 CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
40190883 CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
1 CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
*
40190925 CGCACATTTAGTGCC
1 CGCACACTTAGTGCC
40190940 GAGACCAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (42 bp):
CGCACACTTAGTGCCAATCTTGTCACCATGTCCATTTATACC
Found at i:40198397 original size:64 final size:64
Alignment explanation
Indices: 40198318--40198501 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40198308 AGACATTATG
* *
40198318 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40198382 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40198447 AA
63 AA
* * * *
40198449 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40198502 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40201654 original size:49 final size:49
Alignment explanation
Indices: 40201575--40201755 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
40201565 GCTATTGTGA
*
40201575 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATT
* * ***
40201624 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATT
*
40201673 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 -GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAA-AATT
40201723 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTA
40201756 TACGTACCAG
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 77 0.66
50 40 0.34
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (49 bp):
GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATT
Found at i:40201745 original size:99 final size:99
Alignment explanation
Indices: 40201574--40201755 Score: 339
Period size: 99 Copynumber: 1.8 Consensus size: 99
40201564 AGCTATTGTG
40201574 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCGCATGTGTAGT
40201639 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
*
40201673 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATTGGTCGCGTGTGTAG
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAA-AATTGGTCGCATGTGTAG
40201737 TACTAAGTGCAGGCTACTA
65 TACTAAGTGCAGGCTACTA
40201756 TACGTACCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
98 3 0.04
99 78 0.96
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:40203863 original size:9 final size:9
Alignment explanation
Indices: 40203845--40203880 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
40203835 GTAGATCGGC
40203845 AAAT-CCGA
1 AAATGCCGA
40203853 AAATGCCGA
1 AAATGCCGA
40203862 AAA-GCCG-
1 AAATGCCGA
40203869 AAATGCCGA
1 AAATGCCGA
40203878 AAA
1 AAA
40203881 GGCAGAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.12
8 12 0.48
9 10 0.40
ACGTcount: A:0.50, C:0.22, G:0.19, T:0.08
Consensus pattern (9 bp):
AAATGCCGA
Found at i:40204146 original size:28 final size:28
Alignment explanation
Indices: 40204106--40204198 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
40204096 TGACTATAAG
* * *
40204106 TGTGATTGTGCCTGATTGGCTATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
40204134 AGTGATTGGGCCTGATGGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
40204162 TGTGATTGGGCCCGATGGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
40204190 TGAGATTGG
1 TGTGATTGG
40204199 CCTAAAGGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (28 bp):
TGTGATTGGGCCTGATGGGCCATATGAA
Found at i:40204209 original size:28 final size:28
Alignment explanation
Indices: 40204127--40204218 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
40204117 CTGATTGGCT
* * ** *
40204127 ATATGAAAGTGATTGGGCCTGATGGGCC
1 ATATGAATGAGATTGGGCCAAAGGGGCC
* ** *
40204155 ATATGAATGTGATTGGGCCCGATGGGCC
1 ATATGAATGAGATTGGGCCAAAGGGGCC
40204183 ATATGAATGAGATT-GGCCTAAAGGGGCC
1 ATATGAATGAGATTGGGCC-AAAGGGGCC
*
40204211 AAATGAAT
1 ATATGAAT
40204219 AAGTATGGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.07
28 52 0.93
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (28 bp):
ATATGAATGAGATTGGGCCAAAGGGGCC
Found at i:40204210 original size:56 final size:56
Alignment explanation
Indices: 40204106--40204218 Score: 129
Period size: 56 Copynumber: 2.0 Consensus size: 56
40204096 TGACTATAAG
* * * * * * * *
40204106 TGTGATTGTGCCTGATTGGCTATATGAAAGTGATTGGGCCTGATGGGCCATATGAA
1 TGTGATTGGGCCCGATGGGCCATATGAAAGAGATTGGGCCTAAGGGGCCAAATGAA
*
40204162 TGTGATTGGGCCCGATGGGCCATATGAATGAGATT-GGCCTAAAGGGGCCAAATGAA
1 TGTGATTGGGCCCGATGGGCCATATGAAAGAGATTGGGCCT-AAGGGGCCAAATGAA
40204218 T
1 T
40204219 AAGTATGGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 5 0.11
56 42 0.89
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (56 bp):
TGTGATTGGGCCCGATGGGCCATATGAAAGAGATTGGGCCTAAGGGGCCAAATGAA
Found at i:40206386 original size:49 final size:49
Alignment explanation
Indices: 40206302--40206413 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 49
40206292 TTCATCCCAG
* *
40206302 ACAGGTCTTACACTCACTTTCATATATCAAAGTCGATGCCGTGTCCAAA
1 ACAGGTCTTACACTCACTCTCATATATCAAAGTCGATGCCATGTCCAAA
* * * *** * * *
40206351 ACATGTCTTACACTGACTCTCATCTATCGGTGTCGATTCCATGTCCCAG
1 ACAGGTCTTACACTCACTCTCATATATCAAAGTCGATGCCATGTCCAAA
40206400 ACAGGTCTTACACT
1 ACAGGTCTTACACT
40206414 AGCTTGTATA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (49 bp):
ACAGGTCTTACACTCACTCTCATATATCAAAGTCGATGCCATGTCCAAA
Found at i:40206456 original size:48 final size:48
Alignment explanation
Indices: 40206390--40206559 Score: 202
Period size: 48 Copynumber: 3.6 Consensus size: 48
40206380 GTGTCGATTC
* *
40206390 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* ** * *
40206438 CATGTCCCAAACATGTCTTACACTAGC-TCT-CGTCTCAAAG-TCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCT-GATG
* * * *
40206484 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
*
40206532 CATGTCCCAAAGATGTCTTACACTAGCT
1 CATGTCCCAAACATGTCTTACACTAGCT
40206560 CTCGTAATGT
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 35 0.35
47 3 0.03
48 60 0.61
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:40206517 original size:94 final size:94
Alignment explanation
Indices: 40206390--40206564 Score: 305
Period size: 94 Copynumber: 1.9 Consensus size: 94
40206380 GTGTCGATTC
* *
40206390 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
40206455 TTACACTAGCTCTCGTCTCAAAGTCGATG
66 TTACACTAGCTCTCGTCTCAAAGTCGATG
* * *
40206484 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAAGATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
40206549 TTACACTAGCTCTCGT
66 TTACACTAGCTCTCGT
40206565 AATGTGGCCA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
TTACACTAGCTCTCGTCTCAAAGTCGATG
Found at i:40206582 original size:94 final size:93
Alignment explanation
Indices: 40206390--40206604 Score: 299
Period size: 94 Copynumber: 2.3 Consensus size: 93
40206380 GTGTCGATTC
* * * *
40206390 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
* *
40206455 TTACACTAGCTCTCGTCTCAAAGTCGATG
66 TTACACTAGCTCTCG-CTCAAAGTCAATA
*
40206484 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAAGATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
*
40206549 TTACACTAGCTCTCG-T-AATGTGGCCAATA
66 TTACACTAGCTCTCGCTCAAAGT---CAATA
*
40206578 CATGTCCTAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
40206605 ACACATATCA
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
91 4 0.04
92 1 0.01
94 104 0.95
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
TTACACTAGCTCTCGCTCAAAGTCAATA
Found at i:40211455 original size:41 final size:40
Alignment explanation
Indices: 40211368--40211493 Score: 119
Period size: 42 Copynumber: 3.0 Consensus size: 40
40211358 GGCATCAGCG
* * * * *
40211368 TTGATATGAGAGCCATCGTAAGACCATGTCCGGGATATAGCG
1 TTGATATGAGAG-C-TGGTAAGACCATGTCTGGGACATGGCA
40211410 TTGATATGAGATGCTGGTAAGACCATGTCTGGGACATGGCA
1 TTGATATGAGA-GCTGGTAAGACCATGTCTGGGACATGGCA
* * *
40211451 TTGATGTGAG-GCCCCGTATAAGACCATGTCTGGGACATGGCA
1 TTGATATGAGAG--CTG-GTAAGACCATGTCTGGGACATGGCA
40211493 T
1 T
40211494 CGACACCGAC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
41 33 0.46
42 37 0.51
43 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (40 bp):
TTGATATGAGAGCTGGTAAGACCATGTCTGGGACATGGCA
Found at i:40213508 original size:39 final size:39
Alignment explanation
Indices: 40213465--40213540 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
40213455 CTATTGACTG
*
40213465 GATTAGAAAGTAAGGAGCCGAAGAGTTCTGAGCTAACTT
1 GATTAGAAAGTAAGGAGCCGAAGAGTTCCGAGCTAACTT
*
40213504 GATTAGAAAGTAAGGAGTCGAAGAGTTCCGAGCTAAC
1 GATTAGAAAGTAAGGAGCCGAAGAGTTCCGAGCTAAC
40213541 ATAGATGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (39 bp):
GATTAGAAAGTAAGGAGCCGAAGAGTTCCGAGCTAACTT
Found at i:40216826 original size:40 final size:40
Alignment explanation
Indices: 40216782--40216969 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
40216772 GCTACTTGCT
40216782 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
40216822 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
40216862 CAAATGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
40216902 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
40216941 CAAATGCCTTCGGGACTTCGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
40216970 CATCCAAATA
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 34 0.25
40 102 0.74
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:40218627 original size:40 final size:40
Alignment explanation
Indices: 40218582--40218769 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
40218572 ATAACCACAA
* * * * *
40218582 GCACAATTGCCTTCGGGTTTTAACCCGGGTATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
40218622 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
40218662 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
40218702 GCACAAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
*
40218742 GCACAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
40218770 GTATCATTCA
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:40218685 original size:80 final size:79
Alignment explanation
Indices: 40218562--40218773 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 79
40218552 TCTTCGGAAT
* * * *
40218562 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTTTTAACCCGGGTATAGCAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
40218626 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
40218641 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
40218706 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
40218721 TTAGCCCAGATATAATCACTAGCACAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
40218774 CATTCAAATG
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 5 0.04
80 113 0.95
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:40226638 original size:40 final size:40
Alignment explanation
Indices: 40226593--40226780 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
40226583 ATAACCACAA
* * *
40226593 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
40226633 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
40226673 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
40226713 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
*
40226753 GCACAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
40226781 GTATCATTCA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 135 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:40226678 original size:80 final size:79
Alignment explanation
Indices: 40226573--40226784 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 79
40226563 TCTTCGGAAT
* *
40226573 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
40226637 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
40226652 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
40226717 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
40226732 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
40226785 CATTCAAATG
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 5 0.04
80 116 0.95
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:40236028 original size:40 final size:40
Alignment explanation
Indices: 40235984--40236171 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
40235974 GCTACTTGCT
40235984 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
40236024 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
40236064 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
40236104 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
40236143 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
40236172 CATCCAATAT
Statistics
Matches: 140, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 104 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:40236162 original size:119 final size:119
Alignment explanation
Indices: 40235951--40236171 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
40235941 AAACCAAGTA
* * * *
40235951 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
40236016 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
40236070 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
40236132 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
40236172 CATCCAATAT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 62 0.67
120 29 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:40244201 original size:48 final size:48
Alignment explanation
Indices: 40244143--40244413 Score: 242
Period size: 48 Copynumber: 5.6 Consensus size: 48
40244133 TGTGTGCTAC
*
40244143 TGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
** * * *** * * *
40244191 CCTAAGACCATGTTTGGGACATAGCATCGGCGTTGA-TATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCCAG
40244239 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
* * * * * * **
40244287 TGTAAGACCATGTGTGGGATATGGCATCGG-GATGGA-GACGAGAGGTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA--CATTATGAGAGCCAG
* ** ** * *
40244335 TGTAAGACCATGTCTGAGACATGGCATCGGCTTCAACATGTGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
* *
40244383 TATAAGACGATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
40244414 AATTTACCCT
Statistics
Matches: 173, Mismatches: 44, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
47 3 0.02
48 168 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
Found at i:40244293 original size:96 final size:97
Alignment explanation
Indices: 40244128--40244413 Score: 351
Period size: 96 Copynumber: 3.0 Consensus size: 97
40244118 TGACTTTGGG
* * **
40244128 TGATATGTGTGCTACTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGCC
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTA
* *
40244193 TAAGACCATGTTTGGGACATAGCATCGGCG-T
66 TAAGACCATGTCTGGGACATGGCATCGGCGAT
*
40244224 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTA
* *
40244289 TAAGACCATGTGTGGGATATGGCATCGG-GAT
66 TAAGACCATGTCTGGGACATGGCATCGGCGAT
* * * * * * * ** ** * *
40244320 GGAGACGAGAGGTAGTGTAAGACCATGTCTGAGACATGGCATCGGCTTCAACATGTGAGCCAATA
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTA
*
40244385 TAAGACGATGTCTGGGACATGGCATCGGC
66 TAAGACCATGTCTGGGACATGGCATCGGC
40244414 AATTTACCCT
Statistics
Matches: 164, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 163 0.99
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (97 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTA
TAAGACCATGTCTGGGACATGGCATCGGCGAT
Found at i:40246650 original size:13 final size:13
Alignment explanation
Indices: 40246632--40246657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40246622 TGAATTAGTA
40246632 TGTGTGAAAATTT
1 TGTGTGAAAATTT
40246645 TGTGTGAAAATTT
1 TGTGTGAAAATTT
40246658 AATCGTTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:40247821 original size:44 final size:42
Alignment explanation
Indices: 40247748--40247912 Score: 163
Period size: 44 Copynumber: 3.9 Consensus size: 42
40247738 ATCTGATATT
* * * *
40247748 TGATTTCGTCTAAGACCACATCTGGGACGTTGGCATCGACTTA
1 TGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCGA-TTA
40247791 TGACTTACGTGTAAGACCACGTCTGAGACGTTGGCATCGTATTA
1 TGA-TTACGTGTAAGACCACGTCTGAGACGTTGGCATCG-ATTA
* ** * * * *
40247835 -GATTTCGTGTAAGACCTTGTCTGGGAAAG-TGGCACCGATATT
1 TGATTACGTGTAAGACCACGTCTGAG-ACGTTGGCATCGAT-TA
*
40247877 TGATTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGAGACGTTGGCAT
40247913 TGTACGATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 32 0.33
44 34 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCGATTA
Found at i:40253333 original size:27 final size:27
Alignment explanation
Indices: 40253314--40253551 Score: 341
Period size: 27 Copynumber: 8.8 Consensus size: 27
40253304 ATTACCAAAG
* *
40253314 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
40253341 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
40253368 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
40253395 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
40253422 TATCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
40253449 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
** *
40253476 TACCCTTAATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
40253503 TACCCTCGCTTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
40253530 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
40253552 TAAAATACCC
Statistics
Matches: 186, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:40253560 original size:27 final size:27
Alignment explanation
Indices: 40253290--40253749 Score: 210
Period size: 27 Copynumber: 17.1 Consensus size: 27
40253280 ATTGAAATGT
* * *
40253290 CCTCAATTTGTAAAATTACCAAAGTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* * ****
40253317 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* ***
40253344 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* * ***
40253371 CCTCAATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* * *** *
40253398 CCTCGATTTATAGAATTATCATTTTAT
1 CCTCGATTTATAAAATTACCAAAATAC
* * ****
40253425 CCTTGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* ***
40253452 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
** * * ***
40253479 CCTTAATTTACAGAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* * * ****
40253506 CCTCGCTTTATAGAATTATCGTTTTAC
1 CCTCGATTTATAAAATTACCAAAATAC
* *
40253533 CCTCGATTTACAAAATTACTAAAATAC
1 CCTCGATTTATAAAATTACCAAAATAC
* * * *
40253560 CCTTGGTTTACAAAATTAACAAAATAC
1 CCTCGATTTATAAAATTACCAAAATAC
**
40253587 CCTCGATCAATAAAATTACCAAAATAC
1 CCTCGATTTATAAAATTACCAAAATAC
* * *
40253614 CC-CTGGTTTGTAAAATTACTAAAATAC
1 CCTC-GATTTATAAAATTACCAAAATAC
*
40253641 CC-CTAGTTTATAAAATTACCAAAATAC
1 CCTCGA-TTTATAAAATTACCAAAATAC
** *
40253668 CC-CTGGCTTGTAAAATTACCAAAATAC
1 CCTC-GATTTATAAAATTACCAAAATAC
* * * * *
40253695 CC-CTGATTTGTGAAATTATCGAAATAT
1 CCTC-GATTTATAAAATTACCAAAATAC
* * *
40253722 TCTCGATTTGTAAAA-TATCAAAATAC
1 CCTCGATTTATAAAATTACCAAAATAC
40253748 CC
1 CC
40253750 ATGTAGGGTA
Statistics
Matches: 357, Mismatches: 72, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
26 11 0.03
27 345 0.97
28 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
CCTCGATTTATAAAATTACCAAAATAC
Found at i:40253682 original size:81 final size:81
Alignment explanation
Indices: 40253544--40253712 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
40253534 CTCGATTTAC
* *
40253544 AAAATTACTAAAATACCCTTGGTTTACAAAATTAACAAAATACCCTCGATCAATAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTAACAAAATACCCTCGATCAATAAAATTACCAA
*
40253609 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* * * * **
40253625 AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGGCT-TGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTAACAAAATA-CCCTCGATCAATAAAATTACCA
40253689 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGT
*
40253706 GAAATTA
1 AAAATTA
40253713 TCGAAATATT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 71 0.92
82 6 0.08
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTAACAAAATACCCTCGATCAATAAAATTACCAA
AATACCCCTGATTTGT
Found at i:40253781 original size:27 final size:27
Alignment explanation
Indices: 40253742--40253929 Score: 277
Period size: 27 Copynumber: 7.0 Consensus size: 27
40253732 TAAAATATCA
*
40253742 AAATACCCATGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
40253769 AAATACCCCTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
40253796 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
40253823 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
40253850 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
40253877 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
40253904 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
40253930 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:40254172 original size:25 final size:25
Alignment explanation
Indices: 40254134--40254203 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
40254124 AGGAAGTGCT
* *
40254134 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
40254159 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
40254184 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
40254204 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:40254216 original size:24 final size:24
Alignment explanation
Indices: 40254133--40254216 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
40254123 GAGGAAGTGC
* *
40254133 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
40254158 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
40254182 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
40254206 TAAAAGAGGCT
1 TAAAAG-GGCT
40254217 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:40254227 original size:50 final size:50
Alignment explanation
Indices: 40254134--40254228 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
40254124 AGGAAGTGCT
**
40254134 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
40254184 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
40254229 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:40254410 original size:42 final size:42
Alignment explanation
Indices: 40254351--40254442 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
40254341 TAGTCTCCCC
*
40254351 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
40254393 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
40254435 AAATGGGC
1 AAATGGGC
40254443 CTAAGCGCCA
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:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:40254504 original size:31 final size:31
Alignment explanation
Indices: 40254466--40254580 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
40254456 CGTTTACAGT
40254466 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
40254497 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
40254528 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
40254559 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
40254581 CCAAGACTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:40262753 original size:13 final size:13
Alignment explanation
Indices: 40262735--40262760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40262725 TGAATTAGTA
40262735 TGTGTGAAAATTT
1 TGTGTGAAAATTT
40262748 TGTGTGAAAATTT
1 TGTGTGAAAATTT
40262761 AAGTTTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:40287138 original size:40 final size:40
Alignment explanation
Indices: 40286937--40287130 Score: 318
Period size: 40 Copynumber: 4.9 Consensus size: 40
40286927 ATTCGGATTG
*
40286937 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
40286976 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
40287016 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40287056 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40287096 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
40287131 AAGCTATATC
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.09
40 131 0.91
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40296931 original size:40 final size:40
Alignment explanation
Indices: 40296886--40297053 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
40296876 CGGAATATAA
40296886 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
40296926 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
40296966 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40297006 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
40297046 CCGGATAT
1 CCGGATAT
40297054 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40297036 original size:80 final size:80
Alignment explanation
Indices: 40296902--40297051 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
40296892 ATAATCACGT
*
40296902 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
40296966 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
40296982 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
40297045 CCCGGAT
64 CCCGGAT
40297052 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:40302896 original size:40 final size:39
Alignment explanation
Indices: 40302731--40302914 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40302721 AAATTGAATG
* * *
40302731 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40302771 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40302811 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40302851 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40302890 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40302915 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40302939 original size:80 final size:81
Alignment explanation
Indices: 40302771--40302959 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40302761 GCTGGAAATT
* * * *
40302771 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40302836 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40302852 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40302915 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40302931 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40302960 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40311014 original size:40 final size:39
Alignment explanation
Indices: 40310849--40311032 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40310839 AAATTGAATG
* * *
40310849 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40310889 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40310929 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40310969 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40311008 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40311033 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40311057 original size:80 final size:81
Alignment explanation
Indices: 40310889--40311077 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40310879 GCTGGAAATT
* * * *
40310889 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40310954 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40310970 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40311033 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40311049 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40311078 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40314302 original size:19 final size:20
Alignment explanation
Indices: 40314274--40314320 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
40314264 AAGAACATGT
40314274 TATATAATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
40314295 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
40314314 TATATAT
1 TATATAT
40314321 ACTTACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:40314598 original size:30 final size:30
Alignment explanation
Indices: 40314541--40314599 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
40314531 CAAAAATCAT
* *
40314541 ACTTTAACAGATTTGCATTTTGACCCCTAA
1 ACTTTAACAGATTTACACTTTGACCCCTAA
* * *
40314571 ACTTTCACATATTTACACTTTGGCCCCTA
1 ACTTTAACAGATTTACACTTTGACCCCTA
40314600 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
ACTTTAACAGATTTACACTTTGACCCCTAA
Found at i:40333729 original size:40 final size:40
Alignment explanation
Indices: 40333651--40333874 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
40333641 ACCCAAGTAT
* *
40333651 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
40333690 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
40333730 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
40333770 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
40333813 CTTCGGGACTTAGCCCGGATACT-GTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
40333853 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
40333875 CATCCGATAA
Statistics
Matches: 165, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
39 13 0.08
40 116 0.70
41 1 0.01
43 34 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:40333848 original size:83 final size:80
Alignment explanation
Indices: 40333651--40333874 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
40333641 ACCCAAGTAT
* * * *
40333651 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
40333715 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
40333730 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
40333794 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
40333813 CTTCGGGACTTAGCCCGGATACT-GTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
40333875 CATCCGATAA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 65 0.51
84 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:40336009 original size:71 final size:71
Alignment explanation
Indices: 40335923--40336086 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40335913 CGATTTGTCT
40335923 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40335988 CTTTCA
66 CTTTCA
40335994 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
40336059 CTTTCA
66 CTTTCA
40336065 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
40336087 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:40336124 original size:71 final size:70
Alignment explanation
Indices: 40335923--40336120 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
40335913 CGATTTGTCT
* * * *
40335923 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
40335988 CTTTCA
65 CTTTCA
* * * *
40335994 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
40336059 CTTTCA
65 CTTTCA
* *
40336065 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
40336121 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:40344291 original size:40 final size:40
Alignment explanation
Indices: 40344213--40344436 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
40344203 ACCCAAGTAT
* *
40344213 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
40344252 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
40344292 CTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
40344332 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
40344375 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
40344415 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
40344437 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 114 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:40344409 original size:83 final size:80
Alignment explanation
Indices: 40344213--40344436 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
40344203 ACCCAAGTAT
* * * *
40344213 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
40344277 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * *
40344292 CTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
40344356 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
40344375 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
40344437 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 49 0.39
83 65 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:40348489 original size:43 final size:43
Alignment explanation
Indices: 40348428--40348512 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
40348418 CAGGATTCTG
40348428 ATTTGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCA
1 ATTTGTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCA
40348471 ATTTGTGATTTAC-TGTAAGACCCTGTCTGGGACAGTGGCATC
1 ATTTGTGATTT-CGTGTAAGACCCTGTCTGGGACAGTGGCATC
40348513 GTTATTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
42 1 0.03
43 36 0.92
44 2 0.05
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (43 bp):
ATTTGTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCA
Found at i:40350848 original size:26 final size:27
Alignment explanation
Indices: 40350819--40350942 Score: 103
Period size: 27 Copynumber: 4.6 Consensus size: 27
40350809 TTAGTTTACC
40350819 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACTGAAATACCCCCAGTTTGTA
* * *
40350845 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCCCAGTTTGTA
** * **
40350872 AAATTACCCAAATA-TCCTTGATTTGTA
1 AAATTACTGAAATACCCCCAG-TTTGTA
* *
40350899 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACT-GAAATACCCCCAGTTTGTA
40350926 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
40350943 TCGACATGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
25 3 0.04
26 18 0.23
27 49 0.64
28 7 0.09
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCCCAGTTTGTA
Found at i:40350911 original size:27 final size:26
Alignment explanation
Indices: 40350870--40350968 Score: 67
Period size: 27 Copynumber: 3.7 Consensus size: 26
40350860 CCCCGGTTTA
* *
40350870 TAAAATTACCCAAATATCCTTGATTTG
1 TAAAATTATCGAAATA-CCTTGATTTG
* *
40350897 TAAAATTATCGAAATACCCTCAGTTTG
1 TAAAATTATCGAAATACCTTGA-TTTG
* * **
40350924 CAAAATTA-CTGAAATACCCTCGACATG
1 TAAAATTATC-GAAATA-CCTTGATTTG
40350951 TAAAATTATC-AAAGTACC
1 TAAAATTATCGAAA-TACC
40350969 CTCGAATTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
26 10 0.18
27 42 0.75
28 4 0.07
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
TAAAATTATCGAAATACCTTGATTTG
Found at i:40350969 original size:27 final size:27
Alignment explanation
Indices: 40350895--40350973 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
40350885 ATCCTTGATT
**
40350895 TGTAAAATTATCGAAATACCCTC-AGTT
1 TGTAAAATTATC-AAATACCCTCGAGCA
* *
40350922 TGCAAAATTACTGAAATACCCTCGA-CA
1 TGTAAAATTA-TCAAATACCCTCGAGCA
40350949 TGTAAAATTATCAAAGTACCCTCGA
1 TGTAAAATTATCAAA-TACCCTCGA
40350974 ATTACAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.09
27 37 0.86
28 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
TGTAAAATTATCAAATACCCTCGAGCA
Found at i:40350982 original size:27 final size:26
Alignment explanation
Indices: 40350898--40350982 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 26
40350888 CTTGATTTGT
**
40350898 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATC-AAATACCCTCGACATT-C
*
40350925 AAAATTACTGAAATACCCTCGACATGT-
1 AAAATTA-TCAAATACCCTCGACAT-TC
40350952 AAAATTATCAAAGTACCCTCGA-ATTAC
1 AAAATTATCAAA-TACCCTCGACATT-C
40350979 AAAA
1 AAAA
40350983 ATTACTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 37 0.77
28 3 0.06
29 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (26 bp):
AAAATTATCAAATACCCTCGACATTC
Done.