Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 91 of 235
Found at i:31605401 original size:27 final size:27
Alignment explanation
Indices: 31605290--31605591 Score: 143
Period size: 27 Copynumber: 11.2 Consensus size: 27
31605280 ATTACCGTTT
* * ***
31605290 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
31605317 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ****
31605344 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
31605371 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
31605398 TACCCT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *
31605425 TACCCTTG-GTTAGTAAAATTACCAAAAA
1 TACCCTCGATTTA-CAAAATTACC-AAAA
* ** *
31605453 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* **
31605480 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* *
31605507 TACCCCTGGCTTGT--AAAATTACCAAAA
1 TA-CCCTCGATT-TACAAAATTACCAAAA
*** *
31605534 TACCC-CTGATTTGTGAAATTATCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* ** *
31605561 TACTCTCGATTTGTAAAA-TACGAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
31605587 TACCC
1 TACCC
31605592 CTGTAGGGTA
Statistics
Matches: 229, Mismatches: 33, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
25 1 0.00
26 20 0.09
27 181 0.79
28 24 0.10
29 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:31605402 original size:54 final size:54
Alignment explanation
Indices: 31605290--31605421 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
31605280 ATTACCGTTT
* * * ***
31605290 TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
* *
31605344 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
* *
31605398 TACCCT-TAGTTTACAAAATTACCA
1 TACCCTCGA-TTTACAGAATTACCA
31605422 AAATACCCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 65 0.98
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
Found at i:31605429 original size:81 final size:81
Alignment explanation
Indices: 31605241--31605430 Score: 202
Period size: 81 Copynumber: 2.3 Consensus size: 81
31605231 TTAGAATACT
* ** * ** * *
31605241 TTAGTTTACCAAATTACTGAAATGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTATAG
1 TTAGTTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAA
***
31605306 AATTACCATTTTACCC
66 AATTACCAAAATACCC
* *** * *
31605322 TT-GATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACA
1 TTAG-TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACA
*
31605386 AAATTACTAAAATACCC
65 AAATTACCAAAATACCC
31605403 TTAGTTTACAAAATTACCAAAATACCCT
1 TTAGTTTACAAAATTACCAAAATACCCT
31605431 TGGTTAGTAA
Statistics
Matches: 85, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
80 1 0.01
81 83 0.98
82 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
TTAGTTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAA
AATTACCAAAATACCC
Found at i:31605445 original size:81 final size:80
Alignment explanation
Indices: 31605273--31605529 Score: 232
Period size: 81 Copynumber: 3.2 Consensus size: 80
31605263 TGCCCTCAAT
* * *** *
31605273 TTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTT-GATTTACAGAATT
1 TTGTAAAATTACCGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTAG-TTTACAAAATT
*** * *
31605337 ACCATTTTACCCTCGA
65 ACCAAAATACCCTTGG
*
31605353 TT-TACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAAT
1 TTGTA-A-AATTACCGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAAT
31605417 TACCAAAATACCCTTGG
64 TACCAAAATACCCTTGG
**** * * * **
31605434 TTAGTAAAATTACCAAAAATACCC-CTAGTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAA
1 TT-GTAAAATTACC-GTTTTACCCTCGA-TTTATAAAATTACTAAAATACCCTTAGTTTACAAAA
*
31605498 TTACCAAAATACCCCTGG
63 TTACCAAAATACCCTTGG
31605516 CTTGTAAAATTACC
1 -TTGTAAAATTACC
31605530 AAAATACCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
79 2 0.01
80 3 0.02
81 71 0.49
82 66 0.45
83 4 0.03
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (80 bp):
TTGTAAAATTACCGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTA
CCAAAATACCCTTGG
Found at i:31605490 original size:82 final size:81
Alignment explanation
Indices: 31605385--31605563 Score: 256
Period size: 82 Copynumber: 2.2 Consensus size: 81
31605375 CTCGATTTAC
* *
31605385 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTTGG-TTAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGGCTT-GTAAAATTACC-
31605449 AAAATACCCCT-AGTTTGT
64 AAAATACCCCTGA-TTTGT
**
31605467 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAA
31605532 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
*
31605548 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
31605564 TCTCGATTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
80 1 0.01
81 29 0.33
82 57 0.64
83 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:31605539 original size:54 final size:53
Alignment explanation
Indices: 31605385--31605595 Score: 237
Period size: 54 Copynumber: 3.9 Consensus size: 53
31605375 CTCGATTTAC
* * ** * *
31605385 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTTGGTTAGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-GTTTGT
*
31605439 AAAATTACCAAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACC-AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-GTTTGT
* *
31605494 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG-TTTGT
* * * * *
31605548 GAAATTATCAAAATA-CTCTCGATTTGTAAAA-TACGAAAATACCCCTGT
1 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGT
31605596 AGGGTAGAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 20 0.15
54 69 0.50
55 47 0.34
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGTTTGT
Found at i:31605625 original size:27 final size:27
Alignment explanation
Indices: 31605584--31605797 Score: 275
Period size: 27 Copynumber: 7.9 Consensus size: 27
31605574 TAAAATACGA
31605584 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
31605611 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
31605638 AAATAACCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
31605665 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
31605692 AAATACCCTTGTAAGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
31605719 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
31605746 AAATACCCCTATAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
31605773 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
31605798 CATTTTACCC
Statistics
Matches: 162, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:31605781 original size:81 final size:81
Alignment explanation
Indices: 31605576--31605797 Score: 313
Period size: 81 Copynumber: 2.7 Consensus size: 81
31605566 TCGATTTGTA
* * *
31605576 AAATA-CGAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAA
1 AAATACCG-AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTACTGAA
31605640 ATAACCCTGTAAGGTAG
65 ATAACCCTGTAAGGTAG
* *
31605657 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAAGGTAAAATTACTGAAA
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTACTGAAA
*
31605722 T-ACCCTTGTAGGGTAG
66 TAACCC-TGTAAGGTAG
* * * * *
31605738 AAATACCGAAATACCCCTATAAGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTAC
31605798 CATTTTACCC
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 4 0.03
81 120 0.95
82 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
AAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTACTGAAA
TAACCCTGTAAGGTAG
Found at i:31606072 original size:25 final size:25
Alignment explanation
Indices: 31606003--31606072 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
31605993 AGGAAGTGCT
* *
31606003 AAAAGGGCTCTGCCCCAGTGTACCG
1 AAAAGGGCTCTGCCCCAGTTTACAG
* *
31606028 AAAAGAGCTCTACCCCAGTTTATCAG
1 AAAAGGGCTCTGCCCCAGTTTA-CAG
*
31606054 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTCTGCCCCAGTT
31606073 ATTAAAAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 35 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (25 bp):
AAAAGGGCTCTGCCCCAGTTTACAG
Found at i:31606085 original size:24 final size:24
Alignment explanation
Indices: 31606040--31606099 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
31606030 AAGAGCTCTA
**
31606040 CCCCAGTTTATCAGAAAGGGCTTTG
1 CCCCAG-TTATCAGAAAGGGCTAGG
*
31606065 CCCCAGTTATTA-AAAGAGGCTAGG
1 CCCCAGTTATCAGAAAG-GGCTAGG
31606089 CCTCCAGTTAT
1 CC-CCAGTTAT
31606100 ATGATAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 12 0.40
25 14 0.47
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (24 bp):
CCCCAGTTATCAGAAAGGGCTAGG
Found at i:31619197 original size:47 final size:49
Alignment explanation
Indices: 31619106--31619199 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
31619096 GACTCACCAC
*
31619106 AGCTCGTATGAGCTTACCGATATATCAGCTTGTAAGAGCTTACTGTTCTA
1 AGCTCGTATGAGCTTACCGA-ATATCAACTTGTAAGAGCTTACTGTTCTA
** *
31619156 AGCTCGTATGAGCTTATTG-AT-TCAACTTGTCAGAGCTTACTGTT
1 AGCTCGTATGAGCTTACCGAATATCAACTTGTAAGAGCTTACTGTT
31619200 TCAGCTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 21 0.52
48 2 0.05
50 17 0.43
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (49 bp):
AGCTCGTATGAGCTTACCGAATATCAACTTGTAAGAGCTTACTGTTCTA
Found at i:31619202 original size:23 final size:22
Alignment explanation
Indices: 31619132--31619221 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 22
31619122 CCGATATATC
31619132 AGCTTGTAAGAGCTTACTGTTCTA
1 AGCTTGT-AGAGCTTACTGTTC-A
* *
31619156 AGCTCGTATGAGCTTATTGATTCA
1 AGCTTGTA-GAGCTTACTG-TTCA
31619180 A-CTTGTCAGAGCTTACTGTTTC-
1 AGCTTGT-AGAGCTTACTG-TTCA
**
31619202 AGCTCAATAGAGCTTACTGT
1 AGCT-TGTAGAGCTTACTGT
31619222 CCATCAGCTC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 2 0.04
23 30 0.56
24 19 0.35
25 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (22 bp):
AGCTTGTAGAGCTTACTGTTCA
Found at i:31624269 original size:27 final size:27
Alignment explanation
Indices: 31624239--31624365 Score: 155
Period size: 27 Copynumber: 4.7 Consensus size: 27
31624229 TAGTTTACCG
*
31624239 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* **
31624266 AATTACTAAAATACCTTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * *
31624293 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* *
31624320 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTATAA
* *
31624347 AATTATCGAAATACCCCTG
1 AATTACCAAAATACCCCTG
31624366 TAGAGTAGAA
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTATAA
Found at i:31624303 original size:54 final size:53
Alignment explanation
Indices: 31624243--31624392 Score: 192
Period size: 54 Copynumber: 2.8 Consensus size: 53
31624233 TTACCGAATT
* *
31624243 ACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATC
1 ACCAAAATACCCCT-GTTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATC
* *
31624297 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATT
1 ACCAAAATACCCCT-GTTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATC
* * ** *
31624351 ATCGAAATACCCCTGTAGAGTAGAATTACTAAAATACCCTTG
1 ACCAAAATACCCCTGT-TTGTAAAATTACTAAAATACCCTTG
31624393 TGGGGTAGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
ACCAAAATACCCCTGTTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATC
Found at i:31624377 original size:27 final size:27
Alignment explanation
Indices: 31624354--31624497 Score: 132
Period size: 27 Copynumber: 5.3 Consensus size: 27
31624344 CAAAATTATC
31624354 GAAATACCCCTGTAGAGTAGAATTACT
1 GAAATACCCCTGTAGAGTAGAATTACT
* * * *
31624381 AAAATACCCTTGTGGGGTAGAATTACT
1 GAAATACCCCTGTAGAGTAGAATTACT
* * * *
31624408 AAAATACCCTTGTAGGGTAGAAATAAC-
1 GAAATACCCCTGTAGAGTAG-AATTACT
*
31624435 GAAATACCCCTATA-AGGTAGAATTACT
1 GAAATACCCCTGTAGA-GTAGAATTACT
* *
31624462 GAAATACTCCTGTA-AGGTAGAATTACC
1 GAAATACCCCTGTAGA-GTAGAATTACT
*
31624489 GAGATACCC
1 GAAATACCC
31624498 TTGTGGGATA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.05
27 88 0.90
28 5 0.05
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGAGTAGAATTACT
Found at i:31624405 original size:54 final size:53
Alignment explanation
Indices: 31624354--31624514 Score: 162
Period size: 54 Copynumber: 3.0 Consensus size: 53
31624344 CAAAATTATC
*
31624354 GAAATACCCCTGTAGAGTAGAATTACTAAAATACCCTTGTGGGGTAGAATTACT
1 GAAATACCCCTGTAGAGTAGAATTAC-GAAATACCCTTGTGGGGTAGAATTACT
* * * * * * **
31624408 AAAATACCCTTGTAGGGTAGAAATAACGAAATACCCCTATAAGGTAGAATTACT
1 GAAATACCCCTGTAGAGTAG-AATTACGAAATACCCTTGTGGGGTAGAATTACT
* * * *
31624462 GAAATACTCCTGTA-AGGTAGAATTACCGAGATACCCTTGTGGGATAAAATTAC
1 GAAATACCCCTGTAGA-GTAGAATTA-CGAAATACCCTTGTGGGGTAGAATTAC
31624515 CATTTTACCC
Statistics
Matches: 83, Mismatches: 21, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
53 4 0.05
54 74 0.89
55 5 0.06
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (53 bp):
GAAATACCCCTGTAGAGTAGAATTACGAAATACCCTTGTGGGGTAGAATTACT
Found at i:31624405 original size:81 final size:80
Alignment explanation
Indices: 31624320--31624510 Score: 199
Period size: 81 Copynumber: 2.4 Consensus size: 80
31624310 TAGTTTGTAA
** * *
31624320 AATTACCAAAATACCCTTG-GTTTACAAAATTATCGAAATACCCCTGT-AGAGTAGAATTACTAA
1 AATTACCAAAATACCCTTGAGGGTA-AAAA-TAACGAAATACCCCTATAAG-GTAGAATTACTAA
**
31624383 AATAC-CCTTGTGGGGTAG
63 AATACTCC-TGTAAGGTAG
* * *
31624401 AATTACTAAAATACCCTTGTAGGGTAGAAATAACGAAATACCCCTATAAGGTAGAATTACTGAAA
1 AATTACCAAAATACCCTTG-AGGGTAAAAATAACGAAATACCCCTATAAGGTAGAATTACTAAAA
31624466 TACTCCTGTAAGGTAG
65 TACTCCTGTAAGGTAG
* * *
31624482 AATTACCGAGATACCCTTGTGGGATAAAA
1 AATTACCAAAATACCCTTGAGGG-TAAAA
31624511 TTACCATTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
80 3 0.03
81 78 0.86
82 7 0.08
83 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (80 bp):
AATTACCAAAATACCCTTGAGGGTAAAAATAACGAAATACCCCTATAAGGTAGAATTACTAAAAT
ACTCCTGTAAGGTAG
Found at i:31625059 original size:25 final size:25
Alignment explanation
Indices: 31625031--31625217 Score: 93
Period size: 25 Copynumber: 7.5 Consensus size: 25
31625021 CATTCACATT
* *
31625031 CTGATTTTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
* *
31625056 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
* *
31625081 CTGATTCTGGTTCTGATT--CTAATT
1 CTGATTCTGATTCT-ATTACCTAATA
* * *
31625105 CT-ATTACCTGATACTGATT--CTGATT
1 CTGATT--CTGATTCT-ATTACCTAATA
* ** *
31625130 CTG-TTACCTAATTCTGATT--CTGGTT
1 CTGATT--CTGATTCT-ATTACCTAATA
* *
31625155 CTGATTCTAATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
* *
31625180 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
*
31625205 CTGATTCAGATTC
1 CTGATTCTGATTC
31625218 AGATTTTGAT
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
23 6 0.04
24 16 0.12
25 110 0.81
26 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTAATA
Found at i:31625067 original size:6 final size:6
Alignment explanation
Indices: 31625028--31625282 Score: 157
Period size: 6 Copynumber: 41.3 Consensus size: 6
31625018 TTACATTCAC
* * *
31625028 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
31625078 ATTCTG ATTCTG GTTCTG ATTCTA ATTCT- ATTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
31625127 ATTCTG -TTACCTA ATTCTG ATTCTG GTTCTG ATTCTA ATTCT- ATTACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
31625177 ATACTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTCAG ATTCAG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
31625226 ATTTTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT-
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
31625274 AGTTCTG AT
1 A-TTCTG AT
31625283 AATGTTTCTT
Statistics
Matches: 196, Mismatches: 30, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
5 17 0.09
6 151 0.77
7 15 0.08
8 13 0.07
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:31625097 original size:37 final size:37
Alignment explanation
Indices: 31625056--31625261 Score: 128
Period size: 37 Copynumber: 5.2 Consensus size: 37
31625046 TTACCTGATA
31625056 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
* *
31625093 CTGATTCTAATTCTATTACCTGATACTGATTCTGATTCT-GTT
1 CTGATTCTGATTCTGTTACC---TA---ATTCTGATTCTGGTT
* * ** *
31625135 ACCTAATTCTGATTCTGGTTCTGATTCTAATTCT-ATTACCTGAT
1 --CTGATTCTGATTCT-G-T-T-A-CCTAATTCTGATT-CTGGTT
* *
31625179 ACTGATTCTGATTCTGTTACCTAATTCTGATTCAGATT
1 -CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
* * * * * *
31625217 CAGATTTTGATTTTGTCACCTGATTCTGATTCTGATT
1 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
31625254 CTGATTCT
1 CTGATTCT
31625262 CATTTTGATT
Statistics
Matches: 130, Mismatches: 23, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
37 55 0.42
38 10 0.08
39 4 0.03
40 3 0.02
41 1 0.01
42 7 0.05
43 30 0.23
44 14 0.11
46 3 0.02
47 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
Found at i:31625126 original size:62 final size:62
Alignment explanation
Indices: 31625029--31625282 Score: 359
Period size: 62 Copynumber: 4.1 Consensus size: 62
31625019 TACATTCACA
* *
31625029 TTCTGATTTTGATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
31625091 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
* *
31625153 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCAGA
1 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
* * * * * * * * * *
31625215 TTCAGATTTTGATTTTGTCACCTGATTCTGATTCTGATTCTGATT--CTCATTTTGATTCTAG
1 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTG-TTACCTAATTCTGATTCTGG
31625276 TTCTGAT
1 TTCTGAT
31625283 AATGTTTCTT
Statistics
Matches: 174, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
61 17 0.10
62 155 0.89
63 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (62 bp):
TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
Found at i:31627295 original size:27 final size:26
Alignment explanation
Indices: 31627261--31627384 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 26
31627251 TTTACCAAAT
31627261 TACCAAAATACCCCTGGTTTGTAAAA
1 TACCAAAATACCCCTGGTTTGTAAAA
* * *
31627287 CTACTAAAATACCCTTGGTTTATAAAA
1 -TACCAAAATACCCCTGGTTTGTAAAA
*
31627314 TCACCAAAATACCCCTAGTTTGTAAAA
1 T-ACCAAAATACCCCTGGTTTGTAAAA
* **
31627341 TTACCAAAATACCCTTGGTTTACAAAA
1 -TACCAAAATACCCCTGGTTTGTAAAA
* *
31627368 TTATCGAAATACCCCTG
1 -TACCAAAATACCCCTG
31627385 TCGGGTAGAA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
TACCAAAATACCCCTGGTTTGTAAAA
Found at i:31627322 original size:54 final size:54
Alignment explanation
Indices: 31627250--31627384 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
31627240 GAATACTTTA
* *
31627250 GTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAACTACTAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAACTACCAAAATACCCTTG
* * * *
31627304 GTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAACTACCAAAATACCCTTG
* *
31627358 GTTTACAAAATTATCGAAATACCCCTG
1 GTTTACAAAATTACCAAAATACCCCTG
31627385 TCGGGTAGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAACTACCAAAATACCCTTG
Found at i:31627396 original size:27 final size:28
Alignment explanation
Indices: 31627366--31627532 Score: 175
Period size: 27 Copynumber: 6.2 Consensus size: 28
31627356 TGGTTTACAA
*
31627366 AATTATC-GAAATACCCCTGTCGGGTAG
1 AATTATCTGAAATACCCCTGTAGGGTAG
* *
31627393 AATT-TCTAAAATACCCCTGTGGGGTAG
1 AATTATCTGAAATACCCCTGTAGGGTAG
* * *
31627420 AATTA-CCGAAATACCCTTGTTGGGTAG
1 AATTATCTGAAATACCCCTGTAGGGTAG
*
31627447 AAATA-CTGAAATACCCCTGTAGGGTAG
1 AATTATCTGAAATACCCCTGTAGGGTAG
* * *
31627474 AATTA-CTGAAATACTCCTATAAGGTAG
1 AATTATCTGAAATACCCCTGTAGGGTAG
* * *
31627501 AATTATC-GAGATACCCTTGTAGGGTAA
1 AATTATCTGAAATACCCCTGTAGGGTAG
31627528 AATTA
1 AATTA
31627533 CCATTTTACC
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 114 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (28 bp):
AATTATCTGAAATACCCCTGTAGGGTAG
Found at i:31627404 original size:54 final size:54
Alignment explanation
Indices: 31627250--31627408 Score: 167
Period size: 54 Copynumber: 2.9 Consensus size: 54
31627240 GAATACTTTA
* * * ** *
31627250 GTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAACTACTAAAATACCCTTG
1 GTTTACAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAATACCCTTG
* ** *
31627304 GTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAATACCCTTG
* * * * *
31627358 GTTTACAAAATTATCGAAATACCCCT-GTCGGGTAGAATTTCTAAAATACCC
1 GTTTACAAAATCACCAAAATACCCCTAGT-GGGTAAAATTACTAAAATACCC
31627409 CTGTGGGGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (54 bp):
GTTTACAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAATACCCTTG
Found at i:31627458 original size:81 final size:80
Alignment explanation
Indices: 31627373--31627530 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 80
31627363 CAAAATTATC
* * * **
31627373 GAAATACCCCTGTCGGGTAGAATTTCTAAAATACCCCTGTGGGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
*
31627438 GTTGGGTAGAAATACT
66 GTAGGGTA-AAATACT
* * * *
31627454 GAAATACCCCTGTAGGGTAGAATTACTGAAATACTCCTATAAGGTAGAATTATCGAGATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
31627519 GTAGGGTAAAAT
66 GTAGGGTAAAAT
31627531 TACCATTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 4 0.06
81 63 0.94
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (80 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
GTAGGGTAAAATACT
Found at i:31627899 original size:69 final size:67
Alignment explanation
Indices: 31627766--31627899 Score: 160
Period size: 69 Copynumber: 2.0 Consensus size: 67
31627756 GCGTTCTGGG
* * * * *
31627766 AGCCTCGTTGCAATCTGGTGGCCTCGCCACATATATTTGTTCTGGTGACTTCGTCAAAATATCTG
1 AGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATTTGTTCTGGTGACCTAGCCAAAATATCTG
31627831 CC
66 CC
* * * * *
31627833 AGCCTCGCTGCAATGTGGTAGCTTCGCCATATATATATTTGTTCTGGTGGCCTAGCCACAATATC
1 AGCCTCGCTGCAATCTGGTAGCCTCGCC--ACATATATTTGTTCTGGTGACCTAGCCAAAATATC
31627898 TG
64 TG
31627900 TATCTGGTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 24 0.44
69 31 0.56
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (67 bp):
AGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATTTGTTCTGGTGACCTAGCCAAAATATCTG
CC
Found at i:31628072 original size:25 final size:25
Alignment explanation
Indices: 31628044--31628154 Score: 119
Period size: 25 Copynumber: 4.7 Consensus size: 25
31628034 TGGCATTCAC
* *
31628044 ATTCTGATTTTGATTCTGCTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
31628069 ATTCTAATTTTGATTCTG------G
1 ATTCTGATTCTGATTCTGTTACCTG
31628088 -TTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
31628112 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
31628137 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
31628155 ATTTTGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
18 15 0.21
19 1 0.01
24 1 0.01
25 56 0.77
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:31628095 original size:37 final size:36
Alignment explanation
Indices: 31628044--31628196 Score: 149
Period size: 37 Copynumber: 4.3 Consensus size: 36
31628034 TGGCATTCAC
* * *
31628044 ATTCTGATTTTGATTCTGCTACCTGATTCTAATTTTG
1 ATTCTGATTCTGATTCTG-TACCTGATTCTGATTCTG
*
31628081 ATTCTGGTTCTGA---T-T--CTGATTCTG-TTACCTG
1 ATTCTGATTCTGATTCTGTACCTGATTCTGATT--CTG
* *
31628112 ATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTG-TACCTGATTCTGATTCTG
*
31628149 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGT-ACCTGATTCTGATTCTG
31628186 ATTCTGATTCT
1 ATTCTGATTCT
31628197 CATTTTGATT
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
29 2 0.02
30 8 0.09
31 13 0.14
32 1 0.01
34 2 0.02
36 2 0.02
37 56 0.60
38 8 0.09
39 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (36 bp):
ATTCTGATTCTGATTCTGTACCTGATTCTGATTCTG
Found at i:31628097 original size:6 final size:6
Alignment explanation
Indices: 31628044--31628217 Score: 140
Period size: 6 Copynumber: 28.3 Consensus size: 6
31628034 TGGCATTCAC
* * * * * *
31628044 ATTCTG ATTTTG ATTCTG CTACCTG ATTCTA ATTTTG ATTCTG GTTCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
31628093 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* *
31628143 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
31628192 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
31628218 AGTGTTTCTT
Statistics
Matches: 132, Mismatches: 24, Indels: 24
0.73 0.13 0.13
Matches are distributed among these distances:
5 6 0.05
6 109 0.83
7 13 0.10
8 4 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:31628110 original size:43 final size:41
Alignment explanation
Indices: 31628045--31628217 Score: 158
Period size: 43 Copynumber: 4.2 Consensus size: 41
31628035 GGCATTCACA
* * * *
31628045 TTCTGATTTTGATTCTGCTACCTGATTCTAATTTTGATTCTGG
1 TTCTGATTCTGATTCTGAT-TCTGATTCTGATTTTGATTCT-G
* *
31628088 TTCTGATTCTGATTCTG-TTACCTGATACTGATTCTGATTCTG
1 TTCTGATTCTGATTCTGATT--CTGATTCTGATTTTGATTCTG
* *
31628130 -T-T-A-CCTAATTCTGATTCTGATTCTGATTTTGATTCTG
1 TTCTGATTCTGATTCTGATTCTGATTCTGATTTTGATTCTG
* *
31628167 TCACCTGATTCTGATTCTGATTCTGATTCTCATTTTGATTCTAG
1 T--TCTGATTCTGATTCTGATTCTGATTCTGATTTTGATTCT-G
31628211 TTCTGAT
1 TTCTGAT
31628218 AGTGTTTCTT
Statistics
Matches: 106, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
37 19 0.18
38 8 0.08
39 3 0.03
40 1 0.01
41 2 0.02
42 8 0.08
43 63 0.59
44 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (41 bp):
TTCTGATTCTGATTCTGATTCTGATTCTGATTTTGATTCTG
Found at i:31628126 original size:31 final size:31
Alignment explanation
Indices: 31628079--31628196 Score: 143
Period size: 31 Copynumber: 3.8 Consensus size: 31
31628069 ATTCTAATTT
*
31628079 TGATTCTGGTTCTGATTCTGATTCTGTTACC
1 TGATTCTGATTCTGATTCTGATTCTGTTACC
* *
31628110 TGATACTGATTCTGATTCTG-TTACCTAATT--C
1 TGATTCTGATTCTGATTCTGATT--CT-GTTACC
* *
31628141 TGATTCTGATTCTGATTTTGATTCTGTCACC
1 TGATTCTGATTCTGATTCTGATTCTGTTACC
31628172 TGATTCTGATTCTGATTCTGATTCT
1 TGATTCTGATTCTGATTCTGATTCT
31628197 CATTTTGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 62 0.85
32 4 0.05
33 2 0.03
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (31 bp):
TGATTCTGATTCTGATTCTGATTCTGTTACC
Found at i:31630432 original size:27 final size:27
Alignment explanation
Indices: 31630379--31630450 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
31630369 CACGCTAGAA
31630379 TTATTTTACCACATA-GGGCAAAACAG
1 TTATTTTACCACATAGGGGCAAAACAG
31630405 TTATTTTACCACATAGGGGCAAAACAG
1 TTATTTTACCACATAGGGGCAAAACAG
* *
31630432 TCATTTTACCACAGAGGGG
1 TTATTTTACCACATAGGGG
31630451 GTCTAGGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 15 0.35
27 28 0.65
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
TTATTTTACCACATAGGGGCAAAACAG
Found at i:31634096 original size:26 final size:27
Alignment explanation
Indices: 31634025--31634136 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
31634015 ATATATACAT
* * *
31634025 CACAT-AGGGCAAAGCAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
31634051 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
31634078 CACATAA-GGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
31634104 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
31634131 CACATA
1 CACATA
31634137 GGGGGCCTAG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 29 0.38
27 48 0.62
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:31634105 original size:53 final size:53
Alignment explanation
Indices: 31634025--31634136 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 53
31634015 ATATATACAT
* * * *
31634025 CACATAGGGCAAAGCAATCATCTTACCATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGCAAAACAATCATCTTACCACATAAGGGCAAAACAGTCATTTTAC
* *
31634078 CACATAAGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGCAAAACAATCATCTTACCACATAAGGGCAAAACAGTCATTTTAC
31634131 CACATA
1 CACATA
31634137 GGGGGCCTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.23
Consensus pattern (53 bp):
CACATAAGGCAAAACAATCATCTTACCACATAAGGGCAAAACAGTCATTTTAC
Found at i:31640470 original size:53 final size:53
Alignment explanation
Indices: 31640295--31640497 Score: 145
Period size: 53 Copynumber: 3.8 Consensus size: 53
31640285 GGGTTTAAGG
* * * * * * * **
31640295 ATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAATGCAAGG
1 ATACCACGTAAGACCATGGCAAGACATGGCAATGGTAAG-TTCATAAGGCAAAC
* * * * * * * * *
31640349 AAATCATGTAAGACCATGTCAAGAGATGGCATTGATAAACTACTATAAGGCAAAC
1 ATACCACGTAAGACCATGGCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAAC
* * * * * **
31640404 ATCCCATGTAAGACTATGGCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGG
1 ATACCACGTAAGACCATGGCAAGACATGGCAATGGTAAGTTCATAAGGCAAAC
*
31640457 ATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATACCACGTAAGACCATGGCAAGACATGGCAATGGTAAGTT
31640498 TAAAAAGGAA
Statistics
Matches: 113, Mismatches: 34, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
53 44 0.39
54 33 0.29
55 36 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
ATACCACGTAAGACCATGGCAAGACATGGCAATGGTAAGTTCATAAGGCAAAC
Found at i:31650937 original size:7 final size:7
Alignment explanation
Indices: 31650925--31650958 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
31650915 TTCAATTTAT
31650925 AATAATA
1 AATAATA
31650932 AATAATA
1 AATAATA
31650939 AATAATTA
1 AATAA-TA
31650947 AATAATA
1 AATAATA
31650954 GAATA
1 -AATA
31650959 TAATAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:31650968 original size:18 final size:16
Alignment explanation
Indices: 31650926--31650969 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
31650916 TCAATTTATA
31650926 ATAATAAATAATAAAT
1 ATAATAAATAATAAAT
*
31650942 A-ATTAAATAATAGAAT
1 ATAATAAATAATA-AAT
31650958 ATAATAGAATAA
1 ATAATA-AATAA
31650970 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 5 0.22
17 3 0.13
18 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAATAAATAATAAAT
Found at i:31652790 original size:32 final size:32
Alignment explanation
Indices: 31652754--31652815 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
31652744 AGCTTTTGGT
31652754 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
31652786 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
31652816 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:31656412 original size:7 final size:7
Alignment explanation
Indices: 31656400--31656424 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31656390 TCTTTATTTA
31656400 TTTTATT
1 TTTTATT
31656407 TTTTATT
1 TTTTATT
31656414 TTTTATT
1 TTTTATT
31656421 TTTT
1 TTTT
31656425 TCTCTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:31658708 original size:13 final size:15
Alignment explanation
Indices: 31658673--31658711 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
31658663 TATCTTTATC
31658673 TTATTTATATTCTATT
1 TTATTTAT-TTCTATT
31658689 TTATTTATTTCT-TT
1 TTATTTATTTCTATT
31658703 TT-TTTATTT
1 TTATTTATTT
31658712 ATCCATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTCTATT
Found at i:31675398 original size:40 final size:40
Alignment explanation
Indices: 31675314--31675505 Score: 223
Period size: 40 Copynumber: 4.8 Consensus size: 40
31675304 TTGAATGATG
* * *
31675314 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
31675353 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31675394 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31675433 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
31675472 AACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
31675506 AGTTATATCC
Statistics
Matches: 132, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
39 36 0.27
40 86 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:31675450 original size:79 final size:80
Alignment explanation
Indices: 31675314--31675505 Score: 239
Period size: 79 Copynumber: 2.4 Consensus size: 80
31675304 TTGAATGATG
* *
31675314 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31675378 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * **
31675393 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
31675456 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* * *
31675473 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
31675506 AGTTATATCC
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.59
80 39 0.40
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:31675520 original size:79 final size:79
Alignment explanation
Indices: 31675315--31675531 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 79
31675305 TGAATGATGT
* * * * * **
31675315 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
31675378 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* *
31675395 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
31675460 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
31675474 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
31675532 TACGTGATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 72 0.62
80 42 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:31677304 original size:27 final size:27
Alignment explanation
Indices: 31677273--31677327 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
31677263 TTCAGAAAGA
31677273 TGATAGTGAGTTGCAAGCCAAAAGAGC
1 TGATAGTGAGTTGCAAGCCAAAAGAGC
31677300 TGATAGTGAGTTGCAAGCCAAAAGAGC
1 TGATAGTGAGTTGCAAGCCAAAAGAGC
31677327 T
1 T
31677328 CAGTGTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (27 bp):
TGATAGTGAGTTGCAAGCCAAAAGAGC
Found at i:31677335 original size:27 final size:27
Alignment explanation
Indices: 31677275--31677337 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
31677265 CAGAAAGATG
*
31677275 ATAGTGAGTTGCAAGCCAAAAGAGCTG
1 ATAGTGAGTTGCAAGCCAAAAGAGCTC
31677302 ATAGTGAGTTGCAAGCCAAAAGAGCTC
1 ATAGTGAGTTGCAAGCCAAAAGAGCTC
31677329 AGT-GTGAGT
1 A-TAGTGAGT
31677338 CGGGTATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (27 bp):
ATAGTGAGTTGCAAGCCAAAAGAGCTC
Found at i:31679817 original size:54 final size:54
Alignment explanation
Indices: 31679654--31679842 Score: 209
Period size: 54 Copynumber: 3.5 Consensus size: 54
31679644 GGTTAGATCG
* *
31679654 TGCCAAGGCATGGCATTGGTAGGTTTTACAAGGCAAGGAAATCATGTAAGACCA
1 TGCCAAGACATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCA
* * * * ** * ** *
31679708 TGTCAAGACATGACATTGATAAACTACTAGAAGGC-AGAGATCTCAGGTAAGACCA
1 TGCCAAGACATGGCATTGGT-AAGTTTTACAAGGCAAG-GAAATCATGTAAGACCA
* *
31679763 TGCCAAGGCATGGCATTGGTAGGTTTTACAAGGCAAGGAAATCATGTAAGACCA
1 TGCCAAGACATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCA
* *
31679817 TGTCAAGACATGGCAATGGTAAGTTT
1 TGCCAAGACATGGCATTGGTAAGTTT
31679843 AAAAAGGAAA
Statistics
Matches: 104, Mismatches: 28, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
54 63 0.61
55 41 0.39
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (54 bp):
TGCCAAGACATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCA
Found at i:31681331 original size:9 final size:9
Alignment explanation
Indices: 31681312--31681385 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
31681302 AGTTCATTTA
31681312 TTTAA-GTG
1 TTTAATGTG
31681320 TTTAATGTG
1 TTTAATGTG
31681329 TTT--TGTG
1 TTTAATGTG
*
31681336 TTTAAGAAGTG
1 TTT-A-ATGTG
31681347 TTTAAATGTG
1 TTT-AATGTG
*
31681357 TTTAATATG
1 TTTAATGTG
31681366 -TT--TGT-
1 TTTAATGTG
31681371 TTTAATGTG
1 TTTAATGTG
31681380 TTTAAT
1 TTTAAT
31681386 TGCAGGTGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
6 4 0.08
7 7 0.13
8 10 0.19
9 17 0.32
10 7 0.13
11 8 0.15
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.55
Consensus pattern (9 bp):
TTTAATGTG
Found at i:31682188 original size:30 final size:30
Alignment explanation
Indices: 31682154--31682210 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
31682144 CGCCTTAGTA
*
31682154 AATTATCCTTTTTCTTTGTTTAAACCAAGT
1 AATTATCCATTTTCTTTGTTTAAACCAAGT
*
31682184 AATTATCCATTTTCTTTGTTTTAACCA
1 AATTATCCATTTTCTTTGTTTAAACCA
31682211 CTTTGCTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (30 bp):
AATTATCCATTTTCTTTGTTTAAACCAAGT
Found at i:31683428 original size:18 final size:18
Alignment explanation
Indices: 31683407--31683466 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
31683397 GATTGAGAGC
31683407 GAAAAAGAATGTGAGAAA
1 GAAAAAGAATGTGAGAAA
* *
31683425 G-AAAAGAAAGTTGAAAAA
1 GAAAAAGAATG-TGAGAAA
*
31683443 GAAAGAGAGAT-TGAAGAAA
1 GAAAAAGA-ATGTG-AGAAA
31683462 GAAAA
1 GAAAA
31683467 GAAAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
17 8 0.25
18 10 0.31
19 13 0.41
20 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (18 bp):
GAAAAAGAATGTGAGAAA
Found at i:31685158 original size:50 final size:52
Alignment explanation
Indices: 31685104--31685212 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 52
31685094 AATAAAGTAA
* **
31685104 TGCATTATGTGACTTTCATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAA-GACT
* * *
31685154 TGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTATTAAATTAAGTCT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
31685206 TGCATTA
1 TGCATTA
31685213 AATAACTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 21 0.42
51 12 0.24
52 14 0.28
53 3 0.06
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (52 bp):
TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
Found at i:31685219 original size:52 final size:50
Alignment explanation
Indices: 31685120--31685220 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 50
31685110 ATGTGACTTT
**
31685120 CATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTATGTAACTCC
1 CATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTAAATAACTCC
* * *
31685170 CATGTTAGTTTAAGTCTGCATTATTAAATTAA-GTCTTGCATTAAATAACTC
1 CATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACTTGCATTAAATAACTC
31685221 ATTTGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
50 8 0.19
51 12 0.28
52 20 0.47
53 3 0.07
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (50 bp):
CATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTAAATAACTCC
Found at i:31687034 original size:105 final size:104
Alignment explanation
Indices: 31686881--31687116 Score: 418
Period size: 105 Copynumber: 2.3 Consensus size: 104
31686871 GCTCGTGTGA
31686881 GCCCACACGCCCGTGTGGCCCACACGGGCCCAAATTGGCCTTGGCCGTGTGGATCACACGGCCTA
1 GCCCACACGCCCGTGTGGCCCACACGGGCCCAAATTGGCCTTGGCCGTGTGGATCACACGGCCTA
31686946 GCACAAAATTCCACACGCCCATGTGGTGCACCAATATGG
66 GCACAAAATTCCACACGCCCATGTGGTGCACCAATATGG
31686985 GCCCACACGCCCCGTGTGGCCCACACGGGCCCAAATTGGCCTTGGCCGTGTGGATCACACGGCCT
1 GCCCACACG-CCCGTGTGGCCCACACGGGCCCAAATTGGCCTTGGCCGTGTGGATCACACGGCCT
* * *
31687050 AGCCCAAAATTCCACATGCCCATGTGGTGCCCCAATATGG
65 AGCACAAAATTCCACACGCCCATGTGGTGCACCAATATGG
* *
31687090 GCCCACATGCCCGTGTGGCCTACACGG
1 GCCCACACGCCCGTGTGGCCCACACGG
31687117 CCTAATTGGT
Statistics
Matches: 126, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
104 26 0.21
105 100 0.79
ACGTcount: A:0.20, C:0.37, G:0.26, T:0.17
Consensus pattern (104 bp):
GCCCACACGCCCGTGTGGCCCACACGGGCCCAAATTGGCCTTGGCCGTGTGGATCACACGGCCTA
GCACAAAATTCCACACGCCCATGTGGTGCACCAATATGG
Found at i:31688531 original size:22 final size:23
Alignment explanation
Indices: 31688461--31688570 Score: 113
Period size: 22 Copynumber: 4.9 Consensus size: 23
31688451 AATATATCAT
*
31688461 CTCGTA-AGAGCTTACTGTTTTTAG
1 CTCGTATAGAGCTTACTG--TTCAG
* * *
31688485 CTCAT-TGGAGCTTACCGATTCAG
1 CTCGTATAGAGCTTACTG-TTCAG
31688508 CTCGTAT-GAGCTTACTGTTCAG
1 CTCGTATAGAGCTTACTGTTCAG
31688530 CTCG-ATAGAGCTTACTGTTCAG
1 CTCGTATAGAGCTTACTGTTCAG
*
31688552 CTCG-ATAGAGCTTAATGTT
1 CTCGTATAGAGCTTACTGTT
31688571 TCTCAACTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.03
22 42 0.56
23 17 0.23
24 14 0.19
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (23 bp):
CTCGTATAGAGCTTACTGTTCAG
Found at i:31688763 original size:20 final size:20
Alignment explanation
Indices: 31688738--31688816 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 20
31688728 ATAACCTATG
* *
31688738 TTGAAATGGATAAATTACTT
1 TTGAAACGGATAAATTACTA
* * *
31688758 TTGAAATGAATGAATTACTA
1 TTGAAACGGATAAATTACTA
** * *
31688778 TTGTTACGGATGAATTACTG
1 TTGAAACGGATAAATTACTA
*
31688798 TTGATACGGATAAATTACT
1 TTGAAACGGATAAATTACT
31688817 GTTATTACTG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGAAACGGATAAATTACTA
Found at i:31688795 original size:40 final size:40
Alignment explanation
Indices: 31688745--31688837 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
31688735 ATGTTGAAAT
* * * * *
31688745 GGATAAATTACTTTTGAAATGAATGAATTACTATTGTTAC
1 GGATGAATTACTGTTGAAACGAATAAATTACTATTATTAC
* * *
31688785 GGATGAATTACTGTTGATACGGATAAATTACTGTTATTAC
1 GGATGAATTACTGTTGAAACGAATAAATTACTATTATTAC
*
31688825 TGATGAATTACTG
1 GGATGAATTACTG
31688838 GTTATATGGA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (40 bp):
GGATGAATTACTGTTGAAACGAATAAATTACTATTATTAC
Found at i:31688817 original size:20 final size:20
Alignment explanation
Indices: 31688767--31688856 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 20
31688757 TTTGAAATGA
* *
31688767 ATGAATTACTATTGTTACGG
1 ATGAATTACTGTTGATACGG
31688787 ATGAATTACTGTTGATACGG
1 ATGAATTACTGTTGATACGG
* *
31688807 ATAAATTACTGTT-ATTACTG
1 ATGAATTACTGTTGA-TACGG
*
31688827 ATGAATTACTGGTT-ATATGG
1 ATGAATTACT-GTTGATACGG
*
31688847 ATGAACTACT
1 ATGAATTACT
31688857 AGTTATATGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.02
20 55 0.92
21 4 0.07
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (20 bp):
ATGAATTACTGTTGATACGG
Found at i:31688861 original size:20 final size:20
Alignment explanation
Indices: 31688826--31688871 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
31688816 TGTTATTACT
* *
31688826 GATGAATTACTGGTTATATG
1 GATGAACTACTAGTTATATG
31688846 GATGAACTACTAGTTATATG
1 GATGAACTACTAGTTATATG
*
31688866 AATGAA
1 GATGAA
31688872 TTGTAGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (20 bp):
GATGAACTACTAGTTATATG
Found at i:31692802 original size:49 final size:49
Alignment explanation
Indices: 31692745--31692842 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
31692735 TCTTGAAATG
* *
31692745 ATTGTTTTGATTTCCAAATTGAATGAAAGTATGGTTTTATATGTGAGCT
1 ATTGTTTTGATTACCAAATTGAATGAAAGTATGGTGTTATATGTGAGCT
31692794 ATTGTTTTGATTACCAAATTGAATGAAAGTATGGTGTTATATGTGAGCT
1 ATTGTTTTGATTACCAAATTGAATGAAAGTATGGTGTTATATGTGAGCT
31692843 TAGGTGATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (49 bp):
ATTGTTTTGATTACCAAATTGAATGAAAGTATGGTGTTATATGTGAGCT
Found at i:31695314 original size:49 final size:49
Alignment explanation
Indices: 31695255--31695486 Score: 295
Period size: 49 Copynumber: 4.7 Consensus size: 49
31695245 CTGGTATGCA
*
31695255 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
* * ** *
31695304 TATTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGATACACG
* * * * *
31695354 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA-CCGGGTACCCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCC-GATACACG
* *
31695405 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
*
31695454 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
31695487 TCACAATAGA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 70 0.45
50 51 0.32
51 36 0.23
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
Found at i:31695473 original size:100 final size:99
Alignment explanation
Indices: 31695255--31695486 Score: 306
Period size: 100 Copynumber: 2.3 Consensus size: 99
31695245 CTGGTATGCA
* * * *
31695255 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTATTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
* *
31695320 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* * *
31695354 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA-CCGGGTACCCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCC-GATACACATAGTAGCCTGCAC
* ** *
31695418 TTAGTACTACACATGCGACC-AATTATCCGGTACACG
63 TTAGTACTACACACGCGACCTAACCATCCGATACACG
31695454 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
31695487 TCACAATAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 30 0.26
100 48 0.41
101 38 0.33
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:31698180 original size:25 final size:27
Alignment explanation
Indices: 31698150--31698199 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
31698140 ATTAAGCATT
31698150 AAACAATA-ACTTAA-AACACTCATAA
1 AAACAATATACTTAATAACACTCATAA
*
31698175 AAACAATATATTTAATAACACTCAT
1 AAACAATATACTTAATAACACTCAT
31698200 GCACACGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 5 0.23
27 9 0.41
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (27 bp):
AAACAATATACTTAATAACACTCATAA
Found at i:31698449 original size:52 final size:50
Alignment explanation
Indices: 31698385--31698513 Score: 159
Period size: 50 Copynumber: 2.5 Consensus size: 50
31698375 ATGAACAAAT
* * *
31698385 GAGTTACTTAATGCATGACTTAATTCAATGATGGAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATT-AATGATGCAAAC-TTAACTAACATGA
* * * *
31698437 GAGTTACATAATGCATGTCATAATTTATAATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTAATGATGCAAACTTAACTAACATGA
* *
31698487 GAGTTACATAATGCTTGACTTTATTAA
1 GAGTTACATAATGCATGACTTAATTAA
31698514 ATGCAGAACA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 34 0.52
51 9 0.14
52 22 0.34
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTAATGATGCAAACTTAACTAACATGA
Found at i:31702418 original size:17 final size:18
Alignment explanation
Indices: 31702386--31702420 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31702376 TCGTGGTCGA
*
31702386 AATAGGCTGTGTGGGCCC
1 AATAGGCTGCGTGGGCCC
31702404 AATAGGCT-CGTGGGCCC
1 AATAGGCTGCGTGGGCCC
31702421 CACACAGATT
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:0.17, C:0.26, G:0.37, T:0.20
Consensus pattern (18 bp):
AATAGGCTGCGTGGGCCC
Found at i:31709830 original size:40 final size:40
Alignment explanation
Indices: 31709780--31709983 Score: 264
Period size: 40 Copynumber: 5.1 Consensus size: 40
31709770 ACAAATCAGA
*
31709780 TATATGTGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
* * *
31709820 TATACATGGCACTTAGTGTGCGATTCAACATAGCTTCTGC
1 TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
31709860 TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
* * * * **
31709900 TATATATGACACTTAGTGTACGAGATCGAGATAGCTTCAAC
1 TATATATGGCACTTAGTGTGCGA-TTCGACATAGCTTCGGC
* * * * *
31709941 TATATATGGCACTTAATGTGTGATTTGAGATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
31709981 TAT
1 TAT
31709984 GAACGGTAAT
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 111 0.78
41 32 0.22
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGC
Found at i:31725174 original size:39 final size:39
Alignment explanation
Indices: 31725131--31725222 Score: 175
Period size: 39 Copynumber: 2.4 Consensus size: 39
31725121 TTTTCTAGAC
31725131 TATGACATAATTAAAATCCCTTACTAAAGATGTTCAGAT
1 TATGACATAATTAAAATCCCTTACTAAAGATGTTCAGAT
*
31725170 TATGACATAATTAAAATCCCTTATTAAAGATGTTCAGAT
1 TATGACATAATTAAAATCCCTTACTAAAGATGTTCAGAT
31725209 TATGACATAATTAA
1 TATGACATAATTAA
31725223 GACTCAAACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (39 bp):
TATGACATAATTAAAATCCCTTACTAAAGATGTTCAGAT
Found at i:31732718 original size:6 final size:6
Alignment explanation
Indices: 31732700--31732789 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
31732690 AAGAAACATT
* *
31732700 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
31732749 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCATA ATCA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA
31732790 ATATCAGGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.06
6 56 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:31732721 original size:18 final size:18
Alignment explanation
Indices: 31732700--31732789 Score: 69
Period size: 19 Copynumber: 4.9 Consensus size: 18
31732690 AAGAAACATT
31732700 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
31732718 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
31732735 GTGACAAAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
31732755 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
* *
31732774 ATCAAAATCATAATCA
1 ATCAGAATCAGAATCA
31732790 ATATCAGGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.40
19 28 0.49
20 3 0.05
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:31732803 original size:31 final size:31
Alignment explanation
Indices: 31732709--31732819 Score: 134
Period size: 31 Copynumber: 3.5 Consensus size: 31
31732699 TATCAGAACT
* *
31732709 AGAATCAGAATCAGAATCAGA-ATCAGGTGAC
1 AGAATCAAAATCAGAATCA-ATATCAGGTAAC
* * *
31732740 AAAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAATATCAGGTAAC
*
31732771 AGAATCAAAATCATAATCAATATCAGGTAAC
1 AGAATCAAAATCAGAATCAATATCAGGTAAC
*
31732802 AGAATTAAAAATCAGAAT
1 AGAA-TCAAAATCAGAAT
31732820 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
31 58 0.84
32 11 0.16
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAATATCAGGTAAC
Found at i:31732998 original size:27 final size:26
Alignment explanation
Indices: 31732956--31733057 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
31732946 GCTCAGTTAT
* *
31732956 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
31732983 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
31733009 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
31733037 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
31733058 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:31733244 original size:22 final size:22
Alignment explanation
Indices: 31733216--31733280 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
31733206 GCAAATACGT
*
31733216 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
31733238 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
31733260 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
31733281 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:31733800 original size:27 final size:27
Alignment explanation
Indices: 31733770--31733912 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 27
31733760 TACTCTATAG
*
31733770 GGGTATTTCGGTATTTTTGCAAATCGA
1 GGGTATTTCGGTAATTTTGCAAATCGA
*** * * *
31733797 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTATTTCGGTAATTTTGCAAATCGA
* *
31733824 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGGTAATTTTGCAAATCGA
** * ** *
31733851 GGGTATTTCAATAATTTTACAGGTTGA
1 GGGTATTTCGGTAATTTTGCAAATCGA
* **
31733878 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCGGTAATTTTGCAAATCGA
31733904 GAGGTATTT
1 G-GGTATTT
31733913 TGACAGCTAG
Statistics
Matches: 89, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
26 5 0.06
27 84 0.94
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGCAAATCGA
Found at i:31735894 original size:25 final size:25
Alignment explanation
Indices: 31735830--31735880 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31735820 AACATGTCAT
31735830 TCACTTTAAACATATTTGCTTACCA
1 TCACTTTAAACATATTTGCTTACCA
31735855 TCACTTTAAACATATTTGCTTACCA
1 TCACTTTAAACATATTTGCTTACCA
31735880 T
1 T
31735881 ATTGTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (25 bp):
TCACTTTAAACATATTTGCTTACCA
Found at i:31736933 original size:25 final size:25
Alignment explanation
Indices: 31736899--31736968 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
31736889 AACCAAAATG
*
31736899 AAAATCAGAATCAGAATCAGGTGAC
1 AAAATTAGAATCAGAATCAGGTGAC
* *
31736924 AGAATTAGAATCAGAATTAGGTGAC
1 AAAATTAGAATCAGAATCAGGTGAC
*
31736949 AAAATTAGAATCAGGATCAG
1 AAAATTAGAATCAGAATCAG
31736969 TATCAGGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.20
Consensus pattern (25 bp):
AAAATTAGAATCAGAATCAGGTGAC
Found at i:31736938 original size:31 final size:31
Alignment explanation
Indices: 31736901--31737002 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 31
31736891 CCAAAATGAA
31736901 AATCAGAATCAGAATCAGGTGACAGAATTAG
1 AATCAGAATCAGAATCAGGTGACAGAATTAG
*
31736932 AATCAGAAT-----T-AGGTGACAAAATTAG
1 AATCAGAATCAGAATCAGGTGACAGAATTAG
* * * * *
31736957 AATCAGGATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATTAG
*
31736988 AATCAGAATCTGAAT
1 AATCAGAATCAGAAT
31737003 GCAATCCCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
25 22 0.39
26 1 0.02
30 1 0.02
31 32 0.57
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAATTAG
Found at i:31737163 original size:27 final size:26
Alignment explanation
Indices: 31737115--31737174 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
31737105 GCGAGGCTGC
*
31737115 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
31737142 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
31737168 CATATAT
1 CAGATAT
31737175 ATATGTGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31737263 original size:27 final size:26
Alignment explanation
Indices: 31737216--31737266 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
31737206 CGAGGCTGCC
*
31737216 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
31737242 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
31737267 TTGTAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:31737758 original size:134 final size:135
Alignment explanation
Indices: 31737502--31737803 Score: 428
Period size: 134 Copynumber: 2.2 Consensus size: 135
31737492 TAACACCCTA
* * *
31737502 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATA
1 AGGGTAAAATGGCAATTTTATAAATCGACGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
* * * * *
31737567 GTAATTCTATAAATTGAGGGTAAAATAGTAATTTTATAAATCGATGGTAAAATAGTAATACTATA
66 GTAATTCTATAAATTAAGGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAGTAATACTATA
31737632 AATCG
131 AATCG
* *
31737637 AGGGTAAATTGGCAA-TTTATAAATTGACGGTAAAATAGTAATTTT-TAAAATCGAGGGTAAAAT
1 AGGGTAAAATGGCAATTTTATAAATCGACGGTAAAATAGTAATTTTGT-AAATCGAGGGTAAAAT
* * *
31737700 AGTAATTCTGTAAATTAAGGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTGT
65 AGTAATTCTATAAATTAAGGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAGTAATACTAT
31737765 AAATCG
130 AAATCG
* * * *
31737771 AGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AGGGTAAAATGGCAATTTTATAAATCGACGGTA
31737804 CTTTGGTAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
133 1 0.01
134 118 0.81
135 27 0.18
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (135 bp):
AGGGTAAAATGGCAATTTTATAAATCGACGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
GTAATTCTATAAATTAAGGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAGTAATACTATA
AATCG
Found at i:31737814 original size:27 final size:27
Alignment explanation
Indices: 31737502--31737803 Score: 356
Period size: 27 Copynumber: 11.2 Consensus size: 27
31737492 TAACACCCTA
*
31737502 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTTTATAAATCG
* *
31737529 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTATAAATCG
* *
31737556 AGGGTAAAATAGTAATTCTATAAATTG
1 AGGGTAAAATAGTAATTTTATAAATCG
31737583 AGGGTAAAATAGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTTTATAAATCG
* **
31737610 ATGGTAAAATAGTAATACTATAAATCG
1 AGGGTAAAATAGTAATTTTATAAATCG
* * * *
31737637 AGGGTAAATTGGCAA-TTTATAAATTG
1 AGGGTAAAATAGTAATTTTATAAATCG
*
31737663 ACGGTAAAATAGTAATTTT-TAAAATCG
1 AGGGTAAAATAGTAATTTTAT-AAATCG
* * **
31737690 AGGGTAAAATAGTAATTCTGTAAATTA
1 AGGGTAAAATAGTAATTTTATAAATCG
* *
31737717 AGGGTAAAACAGTAATTTTATAAATCA
1 AGGGTAAAATAGTAATTTTATAAATCG
* * *
31737744 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTTTATAAATCG
** *
31737771 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTTTATAAATCG
31737798 AGGGTA
1 AGGGTA
31737804 CTTTGGTAAT
Statistics
Matches: 237, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 20 0.08
27 216 0.91
28 1 0.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTTTATAAATCG
Found at i:31737825 original size:27 final size:27
Alignment explanation
Indices: 31737781--31737949 Score: 164
Period size: 27 Copynumber: 6.3 Consensus size: 27
31737771 AGGGTAAAAC
* * *
31737781 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
31737808 GGTAATTTTA-AAAGTCGAGGATATTTC
1 GGTAATTTTACAAA-TCGAGGGTATTTT
* * **
31737835 AGTAATTTTATAGGTCGAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
31737862 AGTAATTTCACAAATC-AGAGGTATTTT
1 GGTAATTTTACAAATCGAG-GGTATTTT
*
31737889 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
31737916 GGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
31737943 GGTAATT
1 GGTAATT
31737950 CTACCCTACA
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.05
27 110 0.92
28 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:31737975 original size:54 final size:54
Alignment explanation
Indices: 31737857--31737976 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 54
31737847 GGTCGAGGGT
* * *
31737857 ATTTTAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGT
1 ATTTTAGTAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACTAGGGGC
* * **
31737911 ATTTTGGTAATTTTACAAACCA-AGGGTATTTTGGTAATTCTACCCTAC-AGGGGC
1 ATTTTAGTAATTTCACAAACCAGA-GGTATTTTGGTAATTCTA-CAAACTAGGGGC
*
31737965 ATTTCAGTAATT
1 ATTTTAGTAATT
31737977 CTACCCTACA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 51 0.93
55 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (54 bp):
ATTTTAGTAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACTAGGGGC
Found at i:31737995 original size:27 final size:27
Alignment explanation
Indices: 31737944--31738013 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
31737934 GGGTATTTTG
*
31737944 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
**
31737971 GTAATTCTACCCTACAAGGTTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
31737998 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
31738014 GATATGAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:31739883 original size:6 final size:6
Alignment explanation
Indices: 31739874--31739971 Score: 67
Period size: 6 Copynumber: 15.8 Consensus size: 6
31739864 AACCAAAATG
* * *
31739874 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAAT--C
* * *
31739924 AGAATT AGAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
31739972 ATGAATGCAA
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 4 0.06
6 56 0.79
7 8 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:31739907 original size:25 final size:25
Alignment explanation
Indices: 31739874--31739943 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
31739864 AACCAAAATG
31739874 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
31739899 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
31739924 AGAATTAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
31739944 TATCAGGTAA
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:0.46, C:0.13, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:31739911 original size:31 final size:30
Alignment explanation
Indices: 31739874--31739971 Score: 116
Period size: 31 Copynumber: 3.4 Consensus size: 30
31739864 AACCAAAATG
31739874 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
31739905 AGAATCAGAAT----T-AGGTGACAGAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
*
31739930 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
31739961 AAAATCAGAAT
1 AGAATCAGAAT
31739972 ATGAATGCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 23 0.40
26 1 0.02
30 1 0.02
31 32 0.56
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:31739958 original size:25 final size:25
Alignment explanation
Indices: 31739874--31739968 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
31739864 AACCAAAATG
*
31739874 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
31739899 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
31739924 AGAATTAGAATCAGAATCA-GTATC
1 AGAATCAGAATCAGAATCAGGTAAC
*
31739948 AGGTAA-CAGAATCAAAATCAG
1 A-G-AATCAGAATCAGAATCAG
31739969 AATATGAATG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.07
25 54 0.90
26 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:31740506 original size:27 final size:27
Alignment explanation
Indices: 31740476--31740912 Score: 563
Period size: 27 Copynumber: 16.2 Consensus size: 27
31740466 AACACTCTAG
* *
31740476 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
31740503 GGGTAAAA-CGATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
31740530 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
31740557 GGGTAAAATAGTAACTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
31740584 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * * *
31740611 TGGTAAAATGGTGATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
31740638 GGGTAAAA-CGATAATTTTTTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
31740665 GCGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
31740692 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
31740719 GGGTAAAACAGTAATTTTGTAAATAGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
31740746 GGGTAAAATTGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
31740773 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
31740800 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
31740827 GGGTAAAACAGTAATTTTGTAAATAGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
31740854 GGGTAAAATTGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
31740881 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
31740908 GGGTA
1 GGGTA
31740913 CTTTGGTAAT
Statistics
Matches: 358, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 354 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:31740934 original size:27 final size:28
Alignment explanation
Indices: 31740904--31741058 Score: 140
Period size: 27 Copynumber: 5.7 Consensus size: 28
31740894 ATTCTGTAAA
*
31740904 TCGAGGGTACTTTGGTAATTTTA-AAAG
1 TCGAGGGTATTTTGGTAATTTTACAAAG
* * *
31740931 TCGAGGGTATTTTAGTAATTTTA-TAGG
1 TCGAGGGTATTTTGGTAATTTTACAAAG
** * *
31740958 TCGAGGGTATTTCAGTAATTTCACAAAT
1 TCGAGGGTATTTTGGTAATTTTACAAAG
* *
31740986 TAGA-GGTATTTTGGTAATTTTACAAAC
1 TCGAGGGTATTTTGGTAATTTTACAAAG
* *
31741013 TAG-GGGTATTTTGGTAATTTTACTAA-
1 TCGAGGGTATTTTGGTAATTTTACAAAG
* * *
31741039 CCAAGTGTATTTTGGTAATT
1 TCGAGGGTATTTTGGTAATT
31741059 CTACCCTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
27 102 0.96
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (28 bp):
TCGAGGGTATTTTGGTAATTTTACAAAG
Found at i:31740966 original size:108 final size:108
Alignment explanation
Indices: 31740476--31740939 Score: 630
Period size: 108 Copynumber: 4.3 Consensus size: 108
31740466 AACACTCTAG
* * * **
31740476 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAG-TAATTTTGTAAATAGAGGGTAAAATT
* * * *
31740540 GTAATTCTGTAAATCGAGGGTAAAATAGTAACTT-TATAAATTGA
65 GTAATTTTGTAAATCGAGGGTAAAATGGTAA-TTCTGTAAATCGA
* * * ** * * * * *
31740584 GGGTAAAATAGTAATTCTGTAAATCGATGGTAAAATGGTGATTCTATAAATCGAGGGTAAAA-CG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAATTG
* * *
31740648 ATAATTTTTTAAATCGAGCGTAAAATAGTAATTCTGTAAATCGA
66 -TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
31740692 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAATTG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAATTG
31740757 TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
66 TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
31740800 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAATTG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAATTG
31740865 TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
66 TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
*** *
31740908 GGGTACTTTGGTAATTTTA-AAAGTCGAGGGTA
1 GGGTAAAATAGTAATTTTATAAA-TCGAGGGTA
31740940 TTTTAGTAAT
Statistics
Matches: 321, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
107 6 0.02
108 313 0.98
109 2 0.01
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (108 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAATTG
TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
Found at i:31741020 original size:54 final size:54
Alignment explanation
Indices: 31740962--31741085 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 54
31740952 TATAGGTCGA
** *
31740962 GGGTATTTCAGTAATTTCACAAATTAGAG-GTATTTTGGTAATTTTA-CAAACTAG
1 GGGTATTTCAGTAATTTCACAAACCA-AGTGTATTTTGGTAATTCTACCAAAC-AG
** * * **
31741016 GGGTATTTTGGTAATTTTACTAACCAAGTGTATTTTGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTTCACAAACCAAGTGTATTTTGGTAATTCTACCAAACAG
*
31741070 GGGCATTTCAGTAATT
1 GGGTATTTCAGTAATT
31741086 CTACCCTACA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
53 2 0.04
54 51 0.91
55 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTCACAAACCAAGTGTATTTTGGTAATTCTACCAAACAG
Found at i:31741077 original size:27 final size:27
Alignment explanation
Indices: 31741053--31741111 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
31741043 GTGTATTTTG
*
31741053 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
31741080 GTAATTCTACCCTACAAGGGTATTTCT
1 GTAATTCTACCCTACAAGGGCATTTCA
31741107 GTAAT
1 GTAAT
31741112 GCTAGCTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:31749960 original size:27 final size:26
Alignment explanation
Indices: 31749912--31749963 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31749902 GCGAGGCTGC
*
31749912 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
31749938 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
31749964 TTGCAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31750538 original size:27 final size:27
Alignment explanation
Indices: 31750200--31750527 Score: 365
Period size: 27 Copynumber: 12.2 Consensus size: 27
31750190 AACACCCTAG
*
31750200 GGGTAAAATGGTAA-TCTTATAAATCGA
1 GGGTAAAATGGTAATTC-TGTAAATCGA
*
31750227 GGGTAAAATGGTAATTCTCTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** *
31750254 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
31750281 GGGTAAAATAGTAATTTTATAAAAT-GA
1 GGGTAAAATGGTAATTCTGT-AAATCGA
* * * *
31750308 GGGTAAAATAGTAATTTTGCAAATCTA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
31750335 GGG-AAAATGGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * * *
31750361 GGGTAAAACGGTAATTTTTTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
31750388 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* ** * * *
31750415 TGGTAAAACAGTAATTTTATAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
**
31750442 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
31750469 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
31750496 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
31750523 GGGTA
1 GGGTA
31750528 CTTTGATAAT
Statistics
Matches: 263, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 24 0.09
27 233 0.89
28 6 0.02
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:31750578 original size:27 final size:27
Alignment explanation
Indices: 31750519--31750621 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 27
31750509 ATTCTGTAAA
*
31750519 TCGAGGGTACTTTGA-TAATTTTACAAG
1 TCGAGGGTA-TTTCAGTAATTTTACAAG
* * *
31750546 TTGAGGGTATTTCAGTAATTTTATAGG
1 TCGAGGGTATTTCAGTAATTTTACAAG
* *
31750573 TCGAGGGTATTTCAGTAATTTCACAAA
1 TCGAGGGTATTTCAGTAATTTTACAAG
**
31750600 TC-AGAGGTATTTTGGTAATTTT
1 TCGAG-GGTATTTCAGTAATTTT
31750622 GCAAACCAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
TCGAGGGTATTTCAGTAATTTTACAAG
Found at i:31750626 original size:27 final size:27
Alignment explanation
Indices: 31750576--31750642 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
31750566 TTATAGGTCG
** *
31750576 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTCACAAACCA
**
31750602 AGAGGTATTTTGGTAATTTTGCAAACCA
1 AG-GGTATTTTGGTAATTTCACAAACCA
31750630 AGGGTATTTTGGT
1 AGGGTATTTTGGT
31750643 GATTCTACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 30 0.88
28 2 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTCACAAACCA
Found at i:31752042 original size:6 final size:6
Alignment explanation
Indices: 31752033--31752108 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 6
31752023 AACCAAAATG
* * *
31752033 AGAATC AGAATC AGAATC AG-CTGAC AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAAT--C
* *
31752083 AGAATT AGAATC AGAATC AGTATC AG
1 AGAATC AGAATC AGAATC AGAATC AG
31752109 GTAACAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
5 2 0.04
6 46 0.84
7 5 0.09
8 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:31752066 original size:25 final size:25
Alignment explanation
Indices: 31752033--31752102 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
31752023 AACCAAAATG
31752033 AGAATCAGAATCAGAATCAGCTGAC
1 AGAATCAGAATCAGAATCAGCTGAC
* *
31752058 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGCTGAC
*
31752083 AGAATTAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
31752103 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGCTGAC
Found at i:31752070 original size:31 final size:30
Alignment explanation
Indices: 31752033--31752120 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
31752023 AACCAAAATG
*
31752033 AGAATCAGAATCAGAATCAGCTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
31752064 AGAATCAGAAT----T-AGGTGACAGAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
*
31752089 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
31752120 A
1 A
31752121 AAAAAATCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
25 22 0.47
26 1 0.02
30 1 0.02
31 23 0.49
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:31752763 original size:27 final size:27
Alignment explanation
Indices: 31752733--31753088 Score: 381
Period size: 27 Copynumber: 13.2 Consensus size: 27
31752723 AACACCCTAG
*
31752733 GGGTAAAATGGTAATCTTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
31752760 GGGTAAAATGGTAATTCTCTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * * *
31752787 GGGTAAAATAGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
31752814 GGGTAAAATAGTAATCTTATAAATTGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
31752841 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*
31752868 GGGTAAAACGGT-ATTTCTATAAATCGA
1 GGGTAAAATGGTAATTT-TATAAATCGA
* * * *
31752895 TGGTAAAACGGTAATTTTTTAATTCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*
31752922 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
** *
31752949 GGGTAAAACAGTAATTTTATAAATCAA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
31752976 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * * *
31753003 GAGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
31753030 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*** * *
31753057 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
31753084 GGGTA
1 GGGTA
31753089 TTTCAGTAAT
Statistics
Matches: 284, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 3 0.01
27 277 0.98
28 4 0.01
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTATAAATCGA
Found at i:31753071 original size:81 final size:81
Alignment explanation
Indices: 31752733--31753088 Score: 426
Period size: 81 Copynumber: 4.4 Consensus size: 81
31752723 AACACCCTAG
* * * *
31752733 GGGTAAAATGGTAATCTTATAAATCGAGGGTAAAATGGTAATTCTCTAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
* * *
31752798 TAATTCTGTAAATTGA
66 TAATTTTATAAATCGA
* * * *
31752814 GGGTAAAATAGTAATCTTATAAATTGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
31752879 T-ATTTCTATAAATCGA
66 TAATTT-TATAAATCGA
* * * * * *
31752895 TGGTAAAACGGTAATTTTTTAATTCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
*
31752960 TAATTTTATAAATCAA
66 TAATTTTATAAATCGA
* * * ** *
31752976 GGGTAAAATAGTAATTTTGTAAATCGAGAGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
*
31753041 TAATTTTGTAAATCGA
66 TAATTTTATAAATCGA
*** * *
31753057 GGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTA
31753089 TTTCAGTAAT
Statistics
Matches: 232, Mismatches: 41, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
80 3 0.01
81 225 0.97
82 4 0.02
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (81 bp):
GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTTTATAAATCGA
Found at i:31753117 original size:26 final size:27
Alignment explanation
Indices: 31753053--31753185 Score: 105
Period size: 27 Copynumber: 5.0 Consensus size: 27
31753043 ATTTTGTAAA
*
31753053 TCGAGGGTACTTT-GGTAATTTTACAAG
1 TCGAGGGTA-TTTCAGTAATTTTACAAG
* *
31753080 TCGAGGGTATTTCAGTAATTTTATAGG
1 TCGAGGGTATTTCAGTAATTTTACAAG
* *
31753107 TC-AGGGTATTTCAGTAATTTCACAAA
1 TCGAGGGTATTTCAGTAATTTTACAAG
*
31753133 T-TAGAGGTATTTTC-GTAATTTTACAA-
1 TCGAG-GGTA-TTTCAGTAATTTTACAAG
* * **
31753159 ACTAGGGGTATTTTGGTAATTTTACAA
1 TCGA-GGGTATTTCAGTAATTTTACAA
31753186 ACCAAGGGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 29 0.33
27 55 0.62
28 5 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
TCGAGGGTATTTCAGTAATTTTACAAG
Found at i:31753186 original size:27 final size:27
Alignment explanation
Indices: 31753110--31753206 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
31753100 TTATAGGTCA
** * *
31753110 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
31753137 AGGTATTTTCGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
31753164 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
31753191 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
31753207 CTACCCTACA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:31753225 original size:27 final size:27
Alignment explanation
Indices: 31753188--31753271 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
31753178 TTTTACAAAC
* *
31753188 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGCATTTTAGTAATTCTACCCTA
*
31753215 CAGGGGCATTTTAGTAATTCTACCCTA
1 CAAGGGCATTTTAGTAATTCTACCCTA
* * * *
31753242 CAAGGGTATTTCAGTAATGCTAGCCTA
1 CAAGGGCATTTTAGTAATTCTACCCTA
31753269 CAA
1 CAA
31753272 ATATGAGATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (27 bp):
CAAGGGCATTTTAGTAATTCTACCCTA
Found at i:31755135 original size:26 final size:26
Alignment explanation
Indices: 31755106--31755186 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
31755096 AATTAGCCGG
31755106 TACACGTAGTAGCCTACACTTAGTAC
1 TACACGTAGTAGCCTACACTTAGTAC
*
31755132 TACAC--ACGT-GACCTA-ACCATTTG-A-
1 TACACGTA-GTAG-CCTACA-C-TTAGTAC
*
31755156 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTACACTTAGTAC
31755182 TACAC
1 TACAC
31755187 ACGTGATCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
24 11 0.26
25 15 0.36
26 16 0.38
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACGTAGTAGCCTACACTTAGTAC
Found at i:31755170 original size:50 final size:50
Alignment explanation
Indices: 31755065--31755294 Score: 274
Period size: 50 Copynumber: 4.6 Consensus size: 50
31755055 TGGTACGCAT
**
31755065 GTAGCCTGCACTTAGTACT--ACACGTGCAACC-AATTAGCCGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTG--ACCTAATTATTCGGTACACGTA
* ** * *
31755114 GTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAATTATTCGGTACACGTA
* * *
31755164 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATTGGGT--ACGATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATTCGGTACACG-TA
* *
31755214 GTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAATTATTCGGTACACGTA
31755263 GTAGCCTGCACTTAGTACTACACACGTGACCT
1 GTAGCCTGCACTTAGTACTACACACGTGACCT
31755295 CACAATAGAT
Statistics
Matches: 154, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
48 7 0.05
49 58 0.38
50 77 0.50
51 12 0.08
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCTAATTATTCGGTACACGTA
Found at i:31755262 original size:99 final size:100
Alignment explanation
Indices: 31755112--31755291 Score: 290
Period size: 99 Copynumber: 1.8 Consensus size: 100
31755102 CCGGTACACG
**
31755112 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
31755177 AGTACTACACACGTGATCAAAGTTATTGGGTACGA
66 AGTACTACACACGTGATCAAAGTTATTGGGTACGA
* * ** *
31755212 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
31755276 AGTACTACACACGTGA
66 AGTACTACACACGTGA
31755292 CCTCACAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 42 0.58
100 31 0.42
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTATTGGGTACGA
Found at i:31755559 original size:27 final size:27
Alignment explanation
Indices: 31755519--31755572 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31755509 AAGTACAACC
* *
31755519 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
31755546 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
31755573 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:31786067 original size:35 final size:35
Alignment explanation
Indices: 31786016--31786085 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
31786006 TAAATCAAGT
*
31786016 ATGTTATTACAACCATCTCGTGATTGATTTTTGGG
1 ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
31786051 ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
1 ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
31786086 CATACTCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (35 bp):
ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
Found at i:31804278 original size:40 final size:40
Alignment explanation
Indices: 31804222--31804645 Score: 392
Period size: 40 Copynumber: 10.9 Consensus size: 40
31804212 CCTATATATC
* *
31804222 AACTCGCGCAAATGCCTGCGGGTCTTAACCCGGATATA-T
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * *
31804261 CAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATA-T
1 -AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
31804301 CAACTCGCACAAATGCCTTCGGGTCTTAGA-CCGGATATAGT
1 -AACTCGCACAAATGCCTTCGGGTCTTA-ACCCGGATATAGT
** * * *
31804342 AGTTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* *
31804382 AACTCGCACAAATGCCTTCGGGACTTAACCCGGAAATAGT
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
*
31804422 AACTCGCACAAATG-C--C--G------CCCGGAAATAGT
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
** * * *
31804451 AACTCGCACAAATGCCTTC-GAACTTAGCCTGGAAATAGT
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * * *
31804490 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAAAAAAT
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * * * *
31804530 CACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * * *
31804570 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAAT
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * * * *
31804610 CACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATA
31804646 GTTTAAGCAT
Statistics
Matches: 322, Mismatches: 48, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
29 26 0.08
30 1 0.00
32 1 0.00
35 1 0.00
37 1 0.00
39 31 0.10
40 260 0.81
41 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
AACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
Found at i:31804452 original size:29 final size:29
Alignment explanation
Indices: 31804410--31804466 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
31804400 CGGGACTTAA
31804410 CCCGGAAATAGTAACTCGCACAAATGCCG
1 CCCGGAAATAGTAACTCGCACAAATGCCG
31804439 CCCGGAAATAGTAACTCGCACAAATGCC
1 CCCGGAAATAGTAACTCGCACAAATGCC
31804467 TTCGAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.14
Consensus pattern (29 bp):
CCCGGAAATAGTAACTCGCACAAATGCCG
Found at i:31804539 original size:108 final size:109
Alignment explanation
Indices: 31804331--31804545 Score: 315
Period size: 108 Copynumber: 2.0 Consensus size: 109
31804321 GGGTCTTAGA
* ** *
31804331 CCGGATATAGTAGTTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCGGAAATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* * *
31804396 CCTTCGGGACTTAACCCGGAAATAGTAACTCGCACAAATGCCGC
66 CCTTCGGGACTTAACCCGGAAAAAATAACTAGCACAAATGCCGC
*
31804440 CCGGAAATAGTAACTCGCACAAATGCCTTCGA-ACTTAGCCTGGAAATAGTAACTCGCACAAATG
1 CCGGAAATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* * * *
31804504 CCTTCGGGTCTTAGCCCGGAAAAAATCACTAGCACAATTGCC
66 CCTTCGGGACTTAACCCGGAAAAAATAACTAGCACAAATGCC
31804546 TTCGGGTCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 65 0.69
109 29 0.31
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (109 bp):
CCGGAAATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAAATAGTAACTCGCACAAATG
CCTTCGGGACTTAACCCGGAAAAAATAACTAGCACAAATGCCGC
Found at i:31804558 original size:148 final size:149
Alignment explanation
Indices: 31804289--31804585 Score: 384
Period size: 148 Copynumber: 2.0 Consensus size: 149
31804279 TCGGGTCTTA
* ** * **
31804289 GCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGACCGGATATAGTAGTTCGCACAAA
1 GCCCGGAAATATCAACTCGCACAAATGCCTTCGGAACTTAGACCGGAAATAGTAACTCGCACAAA
* * * *
31804354 TGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAAT
66 TGCCTTCGAGACTTAGCCCGGAAAAAATAACTAGCACAAATGCCTTCGGGACTTAACCCGGAAAT
*
31804419 AGTAACTCGCACAAATGCC
131 AGCAACTCGCACAAATGCC
31804438 GCCCGGAAATAGT-AACTCGCACAAATGCCTTC-GAACTTAG-CCTGGAAATAGTAACTCGCACA
1 GCCCGGAAATA-TCAACTCGCACAAATGCCTTCGGAACTTAGACC-GGAAATAGTAACTCGCACA
* * * * * **
31804500 AATGCCTTCGGGTCTTAGCCCGGAAAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT
64 AATGCCTTCGAGACTTAGCCCGGAAAAAATAACTAGCACAAATGCCTTCGGGACTTAACCCGGAA
*
31804565 ATAGCAACTCGCACGAATGCC
129 ATAGCAACTCGCACAAATGCC
31804586 TTCGGGTCTT
Statistics
Matches: 127, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
147 2 0.02
148 95 0.75
149 29 0.23
150 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (149 bp):
GCCCGGAAATATCAACTCGCACAAATGCCTTCGGAACTTAGACCGGAAATAGTAACTCGCACAAA
TGCCTTCGAGACTTAGCCCGGAAAAAATAACTAGCACAAATGCCTTCGGGACTTAACCCGGAAAT
AGCAACTCGCACAAATGCC
Found at i:31804625 original size:188 final size:189
Alignment explanation
Indices: 31804262--31804625 Score: 448
Period size: 188 Copynumber: 1.9 Consensus size: 189
31804252 CGGATATATC
* * ** *
31804262 AACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCT
1 AACTCGCACAAATGCCTTCGGAACTTAGCCCGGAAATATCAACTCGCACAAATGCCTTCGGGTCT
* * * * * * *
31804327 TAGACCGGATATAGTAGTTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACA
66 TAGACCGGAAAAAATAGCTAGCACAAATGCCTTCGAGACTTAACCCGGATATAGCAACTCGCACA
* *
31804392 AATGCCTTCGGGACTTAACCCGGAAATAGTAACTCGCACAAATGCCGCCCGGAAATAGT
131 AATGCCTTCGGGACTTAACCCGGAAATAATAACTAGCACAAATGCCGCCCGGAAATAGT
*
31804451 AACTCGCACAAATGCCTTC-GAACTTAGCCTGGAAATAGT-AACTCGCACAAATGCCTTCGGGTC
1 AACTCGCACAAATGCCTTCGGAACTTAGCCCGGAAATA-TCAACTCGCACAAATGCCTTCGGGTC
* * * * *
31804514 TTAGCCCGGAAAAAATCA-CTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
65 TTAGACCGGAAAAAAT-AGCTAGCACAAATGCCTTCGAGACTTAACCCGGATATAGCAACTCGCA
* * * * *
31804578 CGAATGCCTTCGGGTCTTAGCCCGGATAA-AATCACTAGCATAAATGCC
129 CAAATGCCTTCGGGACTTAACCCGGA-AATAATAACTAGCACAAATGCC
31804626 TTCGGGACTT
Statistics
Matches: 147, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
188 126 0.86
189 21 0.14
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (189 bp):
AACTCGCACAAATGCCTTCGGAACTTAGCCCGGAAATATCAACTCGCACAAATGCCTTCGGGTCT
TAGACCGGAAAAAATAGCTAGCACAAATGCCTTCGAGACTTAACCCGGATATAGCAACTCGCACA
AATGCCTTCGGGACTTAACCCGGAAATAATAACTAGCACAAATGCCGCCCGGAAATAGT
Found at i:31811512 original size:49 final size:49
Alignment explanation
Indices: 31811445--31811743 Score: 355
Period size: 49 Copynumber: 5.9 Consensus size: 49
31811435 TAGCCAAAGC
* * * *
31811445 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
31811494 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
31811543 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC--G-C--GACCAAT
* * *
31811597 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
31811647 CATCTGATACACGTAGTAGCCTGCACTTTGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAT
* * * * *
31811698 TTTTTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
31811744 TCACAATAGA
Statistics
Matches: 216, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
49 87 0.40
50 43 0.20
51 38 0.18
52 3 0.01
54 45 0.21
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:31811619 original size:103 final size:103
Alignment explanation
Indices: 31811458--31811744 Score: 374
Period size: 103 Copynumber: 2.8 Consensus size: 103
31811448 CTGGTACGCA
*
31811458 TAGTAGCCTGCACATAGTACT--ACACATG-C-GACCAATTATCCGGTACACGTAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACATGACTGACCAATTATCCGGTACACGTAGTAGCCTGCA
**
31811519 CTTAGTACTACACACGCGACC-AATTATCT-AGTACACG
66 CTTAGTACTACACACGCGACCTAACCATCTGA-TACACG
31811556 TAGTAGCCTGCACTTAGTACTACACACATGACGTGACCAATTATCCGGTACACGTAGTAGCCTGC
1 TAGTAGCCTGCACTTAGTACTACACACATGAC-TGACCAATTATCCGGTACACGTAGTAGCCTGC
*
31811621 ACTTAGTACTACACACGTGACCTAACCATCTGATACACG
65 ACTTAGTACTACACACGCGACCTAACCATCTGATACACG
* * * * * ** * *
31811660 TAGTAGCCTGCACTTTGTACTACACACGTGA-TCA-CAGTTTTTTGGTACGCATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACATGACTGACCAATTATCCGGTACACGTAGTAGCCTGCA
*
31811723 CTTAGTACTACACATGCGACCT
66 CTTAGTACTACACACGCGACCT
31811745 CACAATAGAT
Statistics
Matches: 167, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
98 20 0.12
100 7 0.04
101 44 0.26
102 2 0.01
103 52 0.31
104 41 0.25
105 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (103 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACTGACCAATTATCCGGTACACGTAGTAGCCTGCA
CTTAGTACTACACACGCGACCTAACCATCTGATACACG
Found at i:31812077 original size:14 final size:16
Alignment explanation
Indices: 31812045--31812082 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
31812035 ATTTACATAA
*
31812045 CATATATCACATATTT
1 CATATATCACATATGT
31812061 CATATATCAC-T-TGT
1 CATATATCACATATGT
31812075 CATATATC
1 CATATATC
31812083 TTCATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:31817506 original size:32 final size:32
Alignment explanation
Indices: 31817469--31817539 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
31817459 ATCTTCTTAT
*
31817469 AATCCCTAAAACTTTTACGAATC-AAATCGTTG-
1 AATCCCTAAAACTATTACGAA-CAAAATCG-TGA
*
31817501 AATCCCTAAAACTATTAGGAACAAAATCGTGA
1 AATCCCTAAAACTATTACGAACAAAATCGTGA
31817533 AATCCCT
1 AATCCCT
31817540 TAGAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (32 bp):
AATCCCTAAAACTATTACGAACAAAATCGTGA
Found at i:31821336 original size:51 final size:51
Alignment explanation
Indices: 31821255--31821403 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
31821245 GTGCAACAGT
*
31821255 AACATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
* * * * *
31821306 AATATTATCCACTCCATCTGATGTTTCAAAATCATCAACATTTTCATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
*
31821357 AACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCAT
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
31821404 TACCAGCAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 86 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.31
Consensus pattern (51 bp):
AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
Found at i:31821564 original size:51 final size:51
Alignment explanation
Indices: 31821483--31821631 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
31821473 GTGCAACAGT
*
31821483 AACATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
* * * * *
31821534 AATATTATCCACTCCATCTGATGTTTCAAAATCATCAACATTTTCATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
*
31821585 AACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCAT
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
31821632 TACCAGCAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 86 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.31
Consensus pattern (51 bp):
AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
Found at i:31821610 original size:228 final size:228
Alignment explanation
Indices: 31821213--31821669 Score: 914
Period size: 228 Copynumber: 2.0 Consensus size: 228
31821203 CCCATACCTC
31821213 AATCTCATTTCCATCCTCCTCTTCTCCACTACGTGCAACAGTAACATTATCCAGTCCATCTGATG
1 AATCTCATTTCCATCCTCCTCTTCTCCACTACGTGCAACAGTAACATTATCCAGTCCATCTGATG
31821278 TTGCAAAATCACCAGCATATTCATCAGCAATATTATCCACTCCATCTGATGTTTCAAAATCATCA
66 TTGCAAAATCACCAGCATATTCATCAGCAATATTATCCACTCCATCTGATGTTTCAAAATCATCA
31821343 ACATTTTCATCAGCAACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCATTACC
131 ACATTTTCATCAGCAACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCATTACC
31821408 AGCAACTTCACTATCATTATCCTCTCCAGCAGT
196 AGCAACTTCACTATCATTATCCTCTCCAGCAGT
31821441 AATCTCATTTCCATCCTCCTCTTCTCCACTACGTGCAACAGTAACATTATCCAGTCCATCTGATG
1 AATCTCATTTCCATCCTCCTCTTCTCCACTACGTGCAACAGTAACATTATCCAGTCCATCTGATG
31821506 TTGCAAAATCACCAGCATATTCATCAGCAATATTATCCACTCCATCTGATGTTTCAAAATCATCA
66 TTGCAAAATCACCAGCATATTCATCAGCAATATTATCCACTCCATCTGATGTTTCAAAATCATCA
31821571 ACATTTTCATCAGCAACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCATTACC
131 ACATTTTCATCAGCAACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCATTACC
31821636 AGCAACTTCACTATCATTATCCTCTCCAGCAGT
196 AGCAACTTCACTATCATTATCCTCTCCAGCAGT
31821669 A
1 A
31821670 GTCCTTAAAC
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 229 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (228 bp):
AATCTCATTTCCATCCTCCTCTTCTCCACTACGTGCAACAGTAACATTATCCAGTCCATCTGATG
TTGCAAAATCACCAGCATATTCATCAGCAATATTATCCACTCCATCTGATGTTTCAAAATCATCA
ACATTTTCATCAGCAACATTATCCACTCCCTCTGATGTTGCAAAATCACCAGCATATTCATTACC
AGCAACTTCACTATCATTATCCTCTCCAGCAGT
Done.