Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 93 of 208
Found at i:31779243 original size:30 final size:30
Alignment explanation
Indices: 31779209--31779345 Score: 113
Period size: 30 Copynumber: 4.6 Consensus size: 30
31779199 TAGAAAATAT
*
31779209 GGGGCCAAAATGTAATTTCTTG-AAAGTTTA
1 GGGGCCAAAATGTAATTT-TTGAAAAATTTA
*
31779239 GGGGCTC-AAATGT-A-GTTT-ACAAAATTCTA
1 GGGGC-CAAAATGTAATTTTTGA-AAAATT-TA
* * * *
31779268 GGTGTCAAAATGTAAATTTAGAAAAATTTA
1 GGGGCCAAAATGTAATTTTTGAAAAATTTA
** *
31779298 GGGGTTAAAATGTAATTTTTGAAAAGTTTA
1 GGGGCCAAAATGTAATTTTTGAAAAATTTA
*
31779328 GGGGCTAAAATGTAATTT
1 GGGGCCAAAATGTAATTT
31779346 GTATTTTTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.02
28 7 0.08
29 12 0.14
30 56 0.64
31 9 0.10
32 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (30 bp):
GGGGCCAAAATGTAATTTTTGAAAAATTTA
Found at i:31780127 original size:19 final size:19
Alignment explanation
Indices: 31780098--31780137 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
31780088 ATCAAAATTT
31780098 TTAATATATTAATAGTAAAA
1 TTAATATATTAA-AGTAAAA
*
31780118 TTAA-ATATTAAATTAAAA
1 TTAATATATTAAAGTAAAA
31780136 TT
1 TT
31780138 TATTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAATATATTAAAGTAAAA
Found at i:31783425 original size:15 final size:14
Alignment explanation
Indices: 31783399--31783432 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
31783389 TTGTTTCACT
31783399 AAAAATAATTTTTG
1 AAAAATAATTTTTG
31783413 AAAAATAATTTTTG
1 AAAAATAATTTTTG
31783427 AAAAAT
1 AAAAAT
31783433 GACTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (14 bp):
AAAAATAATTTTTG
Found at i:31783730 original size:31 final size:31
Alignment explanation
Indices: 31783692--31783756 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
31783682 AAATTTATAA
31783692 TTGAAATAAGAAAAGTGATATGCATGAAAAT
1 TTGAAATAAGAAAAGTGATATGCATGAAAAT
31783723 TTGAAATAAGAAAAGTGATATGCATGAAAAT
1 TTGAAATAAGAAAAGTGATATGCATGAAAAT
31783754 TTG
1 TTG
31783757 TTATGTGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.28
Consensus pattern (31 bp):
TTGAAATAAGAAAAGTGATATGCATGAAAAT
Found at i:31795107 original size:27 final size:27
Alignment explanation
Indices: 31795077--31795130 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
31795067 CTTGGTATTG
*
31795077 CGATCACTGAATTCAAACCAATCACAT
1 CGATCACCGAATTCAAACCAATCACAT
31795104 CGATCACCGAATTCAAACCAATCACAT
1 CGATCACCGAATTCAAACCAATCACAT
31795131 ATTTCTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.20
Consensus pattern (27 bp):
CGATCACCGAATTCAAACCAATCACAT
Found at i:31797322 original size:42 final size:42
Alignment explanation
Indices: 31797231--31797322 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
31797221 GCATGCCCAA
*
31797231 GCCGTGTGTGTCACACGGGTAAAGACATGGGCATATGTCTAG
1 GCCGTGTGAGTCACACGGGTAAAGACATGGGCATATGTCTAG
* * *
31797273 GCTGTGTGAGTCACACGGG-AAAGGACATGGGCCTGTG-CTCAG
1 GCCGTGTGAGTCACACGGGTAAA-GACATGGGCATATGTCT-AG
31797315 GCCGTGTG
1 GCCGTGTG
31797323 GCATGGAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
41 5 0.12
42 38 0.88
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.22
Consensus pattern (42 bp):
GCCGTGTGAGTCACACGGGTAAAGACATGGGCATATGTCTAG
Found at i:31806007 original size:102 final size:105
Alignment explanation
Indices: 31805834--31806039 Score: 231
Period size: 102 Copynumber: 2.0 Consensus size: 105
31805824 GTCTAGGCTG
* * * ** * * * *
31805834 TGTAACTCACTGTTTGTGACTTAGAACCACACGGGCAAGGCACATGGGCATTTGTCCAGGCCGTG
1 TGTAACTCACTATTTATGACTCAGAACCACACGGGCAAGGCACATGAACATGTGCCCAAGCCATG
* *
31805899 TAAGTCAC-GA-GT-AGGACACGGGCATGTGTTCAGGCCA
66 TAAGTCACACAGGTAAGGACACGGGCATGTGTCCAGGCCA
* * *
31805936 TGTAACTCTCTATTTATGACTCAGAACCACATGGGCAGAGG-ACATGAACGTGTGCCCAAGCCAT
1 TGTAACTCACTATTTATGACTCAGAACCACACGGGCA-AGGCACATGAACATGTGCCCAAGCCAT
* *
31806000 GTGAGTCACACAGGTAAGGACATGGGCATGTGTCCAGGCC
65 GTAAGTCACACAGGTAAGGACACGGGCATGTGTCCAGGCC
31806040 GTGTGAGCCA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
102 56 0.67
103 4 0.05
104 2 0.02
105 22 0.26
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (105 bp):
TGTAACTCACTATTTATGACTCAGAACCACACGGGCAAGGCACATGAACATGTGCCCAAGCCATG
TAAGTCACACAGGTAAGGACACGGGCATGTGTCCAGGCCA
Found at i:31807674 original size:20 final size:20
Alignment explanation
Indices: 31807609--31807675 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
31807599 GAAGTCCAAA
*
31807609 CAGGGGCACAGATGTGCAAT
1 CAGGGGCACAAATGTGCAAT
* *
31807629 CAAGGGCACCAAA-GTGCAAAA
1 CAGGGGCA-CAAATGTGC-AAT
* *
31807650 AAGGGGCACAAATGTGCATT
1 CAGGGGCACAAATGTGCAAT
31807670 CAGGGG
1 CAGGGG
31807676 TACCGATGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (20 bp):
CAGGGGCACAAATGTGCAAT
Found at i:31807728 original size:40 final size:40
Alignment explanation
Indices: 31807593--31807831 Score: 180
Period size: 40 Copynumber: 6.0 Consensus size: 40
31807583 TGTGATTAGA
* * * * *
31807593 GGTACCGAAGTCCAAACAGGGGCACAG-ATGTGCAATCAAG
1 GGTACCAAAGTACAAACAGGGACAC-GTATGTGCATTTAAG
* * * * ** * *
31807633 GGCACCAAAGTGCAAAAAAGGGGCACAAATGTGCATTCAGG
1 GGTACCAAAGTAC-AAACAGGGACACGTATGTGCATTTAAG
* * * ** **
31807674 GGTACCGATGTACAAATAGGGACATATATGTGCATTTTGG
1 GGTACCAAAGTACAAACAGGGACACGTATGTGCATTTAAG
* *
31807714 GGTACCAAACTACAAACAGGGGCACGTATGTGCATTTAAG
1 GGTACCAAAGTACAAACAGGGACACGTATGTGCATTTAAG
*
31807754 TGTACCAAAGTACAAACA-GGAGCACGTATGTGCATTTAAG
1 GGTACCAAAGTACAAACAGGGA-CACGTATGTGCATTTAAG
* *
31807794 GGTACCGAAA-TACAAACAAAGG-CACGTGTGTGCATTTA
1 GGTACC-AAAGTACAAAC-AGGGACACGTATGTGCATTTA
31807832 GTAGCATTTT
Statistics
Matches: 162, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.01
40 123 0.76
41 35 0.22
42 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (40 bp):
GGTACCAAAGTACAAACAGGGACACGTATGTGCATTTAAG
Found at i:31807759 original size:80 final size:80
Alignment explanation
Indices: 31807593--31807831 Score: 205
Period size: 80 Copynumber: 3.0 Consensus size: 80
31807583 TGTGATTAGA
* * * * * * * * *
31807593 GGTACCGAAGTCCAAACAGGGGCACAGATGTGCAATCAAGGGCACC-AAAGTGCAAAAAAGGGGC
1 GGTACCAAAGTACAAACAGGAGCACATATGTGCATTTAAGGGTACCGAAA-TAC-AAACAGGGGC
** * *
31807657 ACAAATGTGCATTCAGG
64 ACGTATGTGCATTTAAG
* * * * **
31807674 GGTACCGATGTACAAATAGG-GACATATATGTGCATTTTGGGGTACC-AAACTACAAACAGGGGC
1 GGTACCAAAGTACAAACAGGAG-CACATATGTGCATTTAAGGGTACCGAAA-TACAAACAGGGGC
31807737 ACGTATGTGCATTTAAG
64 ACGTATGTGCATTTAAG
* * **
31807754 TGTACCAAAGTACAAACAGGAGCACGTATGTGCATTTAAGGGTACCGAAATACAAACAAAGGCAC
1 GGTACCAAAGTACAAACAGGAGCACATATGTGCATTTAAGGGTACCGAAATACAAACAGGGGCAC
*
31807819 GTGTGTGCATTTA
66 GTATGTGCATTTA
31807832 GTAGCATTTT
Statistics
Matches: 127, Mismatches: 28, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
80 84 0.66
81 43 0.34
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (80 bp):
GGTACCAAAGTACAAACAGGAGCACATATGTGCATTTAAGGGTACCGAAATACAAACAGGGGCAC
GTATGTGCATTTAAG
Found at i:31808365 original size:25 final size:25
Alignment explanation
Indices: 31808310--31808372 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
31808300 AAAAAACAAA
* * *
31808310 AGAACAGGACAGAGCAGAACATAAC
1 AGAACAGAATAGAGCAGAACAAAAC
31808335 AGAACAGAATAGAGCAGAACAAAAC
1 AGAACAGAATAGAGCAGAACAAAAC
31808360 TA-AACAGAATAGA
1 -AGAACAGAATAGA
31808373 ATAGAGCGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.57, C:0.16, G:0.21, T:0.06
Consensus pattern (25 bp):
AGAACAGAATAGAGCAGAACAAAAC
Found at i:31814218 original size:31 final size:33
Alignment explanation
Indices: 31814183--31814246 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
31814173 TTTTAGGCTT
* *
31814183 TTAGCAGCG-TT-TTTAAGCGCCGCTAAAAGTG
1 TTAGCAGCGCTTGTTAAAGCGCCGCAAAAAGTG
*
31814214 TTAGCGGCGCTTGTTAAAGCGCCGCAAAAAGTG
1 TTAGCAGCGCTTGTTAAAGCGCCGCAAAAAGTG
31814247 CCGCTGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 8 0.29
32 2 0.07
33 18 0.64
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (33 bp):
TTAGCAGCGCTTGTTAAAGCGCCGCAAAAAGTG
Found at i:31814341 original size:43 final size:43
Alignment explanation
Indices: 31814291--31814473 Score: 203
Period size: 43 Copynumber: 4.3 Consensus size: 43
31814281 TTATGTGAAA
*
31814291 AAACGCCGCTAAAGATCATGAACTTTAGTGGCGCTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
**
31814334 AAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
* * ** *
31814377 AAACGCCGCTAAAGATCATTACCTTTAGCAACACTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
* * ***
31814420 AAACACCACTATAAGA--ATG-ACTTTTAGCGGCGCTT-TTTGAC
1 AAACGCCGCTA-AAGATCATGAAC-TTTAGCGGCGCTTCTACCAC
31814461 AAACGCCGCTAAA
1 AAACGCCGCTAAA
31814474 AACATGACTT
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 13 0.11
42 12 0.10
43 87 0.74
44 4 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
Found at i:31823519 original size:23 final size:25
Alignment explanation
Indices: 31823473--31823524 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
31823463 AGCAAAAAGC
*
31823473 AAAAAGCAAAAAAAAACTAGAAAAT
1 AAAAAGCAAAAAAAAACCAGAAAAT
31823498 AAAAAGC-AAAAAAAACCA-AAAAT
1 AAAAAGCAAAAAAAAACCAGAAAAT
31823521 AAAA
1 AAAA
31823525 GAAAAGACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.35
24 10 0.38
25 7 0.27
ACGTcount: A:0.79, C:0.10, G:0.06, T:0.06
Consensus pattern (25 bp):
AAAAAGCAAAAAAAAACCAGAAAAT
Found at i:31823962 original size:9 final size:9
Alignment explanation
Indices: 31823948--31823989 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
31823938 ATACTTCACT
*
31823948 AAAAAAAACA
1 AAAAAAAA-G
31823958 AAAAAAAAG
1 AAAAAAAAG
31823967 AAAAAAAAG
1 AAAAAAAAG
*
31823976 AACAAAAAG
1 AAAAAAAAG
31823985 AAAAA
1 AAAAA
31823990 GGAGAGGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:31825413 original size:43 final size:43
Alignment explanation
Indices: 31825366--31825666 Score: 129
Period size: 44 Copynumber: 6.9 Consensus size: 43
31825356 CTCCCTGATT
*
31825366 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
* * * *** * **
31825409 ACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTC-TATCTCCCTGGGCA
* * ** * * * ***
31825453 ATAGTGGAGCAGGTCGAAGAC-GGTGAATTTTACCTCCCT-GATT
1 ACAGTGGAGTACATCGAAG-CTGGT-AGTTCTATCTCCCTGGGCA
* *
31825496 ATAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
* * * *** * **
31825539 ACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTC-TATCTCCCTGGGCA
** * * * * * * *
31825583 GTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGACT
1 ACAGTGGAGTACATCGAAGCTGGTAG-TTCTATCTCCCTG-GGCA
* * * **
31825628 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTG
31825667 TATTTGGCAG
Statistics
Matches: 179, Mismatches: 71, Indels: 15
0.68 0.27 0.06
Matches are distributed among these distances:
42 12 0.07
43 60 0.34
44 86 0.48
45 21 0.12
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
Found at i:31825446 original size:44 final size:44
Alignment explanation
Indices: 31825395--31825622 Score: 149
Period size: 44 Copynumber: 5.2 Consensus size: 44
31825385 CTGGTAGTTC
* *
31825395 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCT
1 TATCTCCCTGGGCAATAGTGGAGTAGATCGAAGATTACAGATCT
** * * * * *
31825439 TATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGT-GA-ATTT
1 TATCTCCCTGGGCAATAGTGGAGTAGATCGAAGA--TTACAGATCT
* *** * * * *** *
31825483 TACCTCCCT-GATTATAGTGGAGTACATTGAAGCTGGTAGTTC-
1 TATCTCCCTGGGCAATAGTGGAGTAGATCGAAGATTACAGATCT
* *
31825525 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCT
1 TATCTCCCTGGGCAATAGTGGAGTAGATCGAAGATTACAGATCT
** * ** *
31825569 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTGGGCAATAGTGGAGTAGATCGAAGATTACAGATCT
*
31825613 TACCTCCCTG
1 TATCTCCCTG
31825623 TGACTACAGT
Statistics
Matches: 131, Mismatches: 47, Indels: 12
0.69 0.25 0.06
Matches are distributed among these distances:
42 9 0.07
43 37 0.28
44 83 0.63
45 1 0.01
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGGCAATAGTGGAGTAGATCGAAGATTACAGATCT
Found at i:31825527 original size:130 final size:129
Alignment explanation
Indices: 31825303--31825666 Score: 575
Period size: 130 Copynumber: 2.8 Consensus size: 129
31825293 TGAAGATAGA
*
31825303 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGCGGATTTTACCTCCCTGATTAC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGG-GAATTTTACCTCCCTGATTAC
31825368 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTAC
65 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTAC
*
31825433 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGAATTTTACCTCCCTGATTAT
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGG-GAATTTTACCTCCCTGATTAC
31825498 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTAC
65 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTAC
* * * * * *
31825563 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGACT
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGGA-ATTTTACCTCCC--TGATT
* * **
31825628 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG
63 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG
31825667 TATTTGGCAG
Statistics
Matches: 217, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
129 1 0.00
130 178 0.82
132 38 0.18
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (129 bp):
AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGGAATTTTACCTCCCTGATTACA
GTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTAC
Found at i:31825678 original size:45 final size:45
Alignment explanation
Indices: 31825629--31825816 Score: 112
Period size: 45 Copynumber: 4.2 Consensus size: 45
31825619 CCTGTGACTA
*
31825629 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTACATTGAAGCCGATAACTCTACCTCCCTGTATTTGG
* * ** * * * *
31825674 CAGTGGAATAGATTGAAGATTGCAGATCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTACATTGAAG-CCG-ATAACTCTACCTCCCTGTATTTGG
* * * * * ** ** * * * *
31825720 CAGAGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGA-CT-A
1 CAGTGGAGTACATTGAAGCCGATA-ACTCTACCTCCCTGT-ATTTGG
*
31825765 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTACATTGAAGCCGATAACTCTACCTCCCTGTATTTGG
31825810 CAGTGGA
1 CAGTGGA
31825817 ATAGACTGAA
Statistics
Matches: 99, Mismatches: 37, Indels: 14
0.66 0.25 0.09
Matches are distributed among these distances:
43 1 0.01
44 14 0.14
45 41 0.41
46 38 0.38
47 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGTGGAGTACATTGAAGCCGATAACTCTACCTCCCTGTATTTGG
Found at i:31825758 original size:136 final size:136
Alignment explanation
Indices: 31825593--31826227 Score: 1148
Period size: 136 Copynumber: 4.7 Consensus size: 136
31825583 GTAGTGGAGT
31825593 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
31825658 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
31825723 AGAAGC
131 CGAAGC
31825729 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
31825794 ATCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
31825859 CGAAAC
131 CGAAGC
* * *
31825865 AGATCGAAGATGGCAGATTTTATCTCCC--TGACTACAATGGAGCACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
31825928 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
31825993 CGAAGC
131 CGAAGC
* *
31825999 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAACCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
31826064 ATCTCCCTGTATTTGGTAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
31826129 CGAAGC
131 CGAAGC
31826135 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
31826200 ATCTCCCTGTATTTGGCAGTAGAATAGA
66 ATCTCCCTGTATTTGGCAGTGGAATAGA
31826228 GCAAAAAAAC
Statistics
Matches: 475, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
134 126 0.27
136 349 0.73
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (136 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
CGAAGC
Found at i:31825899 original size:270 final size:271
Alignment explanation
Indices: 31825593--31826227 Score: 1137
Period size: 270 Copynumber: 2.3 Consensus size: 271
31825583 GTAGTGGAGT
31825593 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCC-GTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
31825658 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
31825723 AGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGAT
130 AGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAACCGAT
31825788 AACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATT
195 AACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATT
31825853 TGGCAGCGAAAC
260 TGGCAGCGAAAC
* * *
31825865 AGATCGAAGATGGCAGATTTTATCTCCC-TGACTACAATGGAGCACATTGAAGCCGATAACTCTA
1 AGATCGAAGATGGCAGATTTTACCTCCCGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
31825929 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGC
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGA
*
31825994 GAAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAACCGATA
131 GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAACCGATA
* * *
31826059 ACTCTATCTCCCTGTATTTGGTAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTT
196 ACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTT
*
31826124 GGCAGCGAAGC
261 GGCAGCGAAAC
31826135 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCC-GTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
31826200 ATCTCCCTGTATTTGGCAGTAGAATAGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGA
31826228 GCAAAAAAAC
Statistics
Matches: 346, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
270 259 0.75
272 87 0.25
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (271 bp):
AGATCGAAGATGGCAGATTTTACCTCCCGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGA
GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAACCGATA
ACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTT
GGCAGCGAAAC
Found at i:31826144 original size:46 final size:46
Alignment explanation
Indices: 31825660--31826165 Score: 220
Period size: 46 Copynumber: 11.2 Consensus size: 46
31825650 ATAACTCTAT
* * *
31825660 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC
* * * * *
31825706 CTTCCTGTATTTGGCAGAGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC
* * * * * ** * * *
31825752 CTCCCTGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGT-ATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC
* * ** *
31825796 CTCCCTGTATTTGGCAGTGGAA-TAGACTGAAGATTACAGATCTTGC
1 CTCCCTGTATTTGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC
* ** * * *
31825842 CTTCCTGTATTTGGCAGCGAAACAGATCGAAGATGGCAGATTTTAT
1 CTCCCTGTATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC
* * ** * * * ** * * *
31825888 CTCCCTG-A-CT-ACAATGGAGCACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC
* *
31825930 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGACT-GCAGATCTTGC
1 CTCCCTGTATTTGGCAG-CGAAGTAGATTGAAGA-TGGCAGATCTTAC
* * *
31825976 CTTCCTGTATTTGGCAGCGAAGCAGATTGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC
* * * * * ** * * *
31826022 CTCCCTGTGA-CT-ACAGTGGAGTACATTGAA-ACCG-ATAACTCTAT
1 CTCCCTGT-ATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC
* * * *
31826066 CTCCCTGTATTTGGTAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC
* * * *
31826112 CTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC
31826158 CTCCCTGT
1 CTCCCTGT
31826166 GACTACAGTG
Statistics
Matches: 324, Mismatches: 109, Indels: 54
0.67 0.22 0.11
Matches are distributed among these distances:
41 3 0.01
42 11 0.03
43 21 0.06
44 27 0.08
45 71 0.22
46 177 0.55
47 14 0.04
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC
Found at i:31826326 original size:82 final size:82
Alignment explanation
Indices: 31826236--31826759 Score: 779
Period size: 82 Copynumber: 6.4 Consensus size: 82
31826226 GAGCAAAAAA
31826236 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
* *
31826301 GCGGAGCGGACAAAACC
66 GTGGAGCAGACAAAACC
31826318 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
* *
31826383 GCGGAGCGGACAAAACC
66 GTGGAGCAGACAAAACC
31826400 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
31826465 GTGGAGCAGACAGAACC
66 GTGGAGCAGACAAAACC
* * * *
31826482 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAACAATA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
31826547 GTGGAGCAGACAGAACC
66 GTGGAGCAGACAAAACC
* * *
31826564 ATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
31826629 GTGGAGCAGATAAAACC
66 GTGGAGCAGACAAAACC
* * *
31826646 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCTGA-CAGAACCACAGATCTTAT-TCCCCTAAGC
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATC-GCATCA-AG-TCTTATCT-CCCTAAGC
* * *
31826709 AGTAGTGGAGTAGATC-ACATC
62 AGTAGTGGAGCAGA-CAAAACC
*
31826730 -CAG-TCTTATCTCCCTAAGCAGTAGTGGAGC
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGC
31826760 AGACTAAAAA
Statistics
Matches: 415, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
81 1 0.00
82 379 0.91
83 6 0.01
84 29 0.07
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (82 bp):
ACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
GTGGAGCAGACAAAACC
Found at i:31832196 original size:14 final size:14
Alignment explanation
Indices: 31832177--31832203 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31832167 CAGTTCAGTG
31832177 GAGGCAAAAAAAAA
1 GAGGCAAAAAAAAA
31832191 GAGGCAAAAAAAA
1 GAGGCAAAAAAAA
31832204 CCAAAAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.22, T:0.00
Consensus pattern (14 bp):
GAGGCAAAAAAAAA
Found at i:31832216 original size:16 final size:16
Alignment explanation
Indices: 31832197--31832252 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
31832187 AAAAGAGGCA
* *
31832197 AAAAAAACCAAAAACC
1 AAAAAAACAAAAAAAC
* *
31832213 AAAAACACAAAAAAAG
1 AAAAAAACAAAAAAAC
*
31832229 AACAAAACAAAAAAAC
1 AAAAAAACAAAAAAAC
31832245 AAAAAAAC
1 AAAAAAAC
31832253 TCTACTGGGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAAAAC
Found at i:31832224 original size:24 final size:25
Alignment explanation
Indices: 31832197--31832252 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
31832187 AAAAGAGGCA
* *
31832197 AAAAAAACCAA-AAACCAAAAACAC
1 AAAAAAACCAACAAAACAAAAAAAC
*
31832221 AAAAAAA-GAACAAAACAAAAAAAC
1 AAAAAAACCAACAAAACAAAAAAAC
31832245 AAAAAAAC
1 AAAAAAAC
31832253 TCTACTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAAAACCAACAAAACAAAAAAAC
Found at i:31832691 original size:12 final size:12
Alignment explanation
Indices: 31832674--31832715 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
31832664 ATACTCCACT
31832674 TGAAAAAAAAAA
1 TGAAAAAAAAAA
31832686 TGAAAAGAAAAAA
1 TGAAAA-AAAAAA
31832699 -G--AAAAAAAA
1 TGAAAAAAAAAA
31832708 TGAAAAAA
1 TGAAAAAA
31832716 GAAGAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.23
10 3 0.12
12 11 0.42
13 6 0.23
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (12 bp):
TGAAAAAAAAAA
Found at i:31832697 original size:17 final size:17
Alignment explanation
Indices: 31832675--31832747 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
31832665 TACTCCACTT
31832675 GAAAAAAAAAATGAAAA-
1 GAAAAAAAAAA-GAAAAG
*
31832692 GAAAAAAGAAAA-AAAAT
1 GAAAAAA-AAAAGAAAAG
*
31832709 G-AAAAAAGAAGAAAAG
1 GAAAAAAAAAAGAAAAG
* * *
31832725 GAAAAAAAGAACAAAAA
1 GAAAAAAAAAAGAAAAG
31832742 GAAAAA
1 GAAAAA
31832748 GGAGAGGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
15 3 0.06
16 14 0.29
17 27 0.56
18 4 0.08
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAAAGAAAAG
Found at i:31832702 original size:24 final size:25
Alignment explanation
Indices: 31832675--31832747 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 25
31832665 TACTCCACTT
31832675 GAAAAAAAAAATGAAAAGAAAAAA-
1 GAAAAAAAAAATGAAAAGAAAAAAG
31832699 G--AAAAAAAATGAAAAAAGAAGAAAAG
1 GAAAAAAAAAATG--AAAAGAA-AAAAG
* **
31832725 GAAAAAAAGAACAAAAAGAAAAA
1 GAAAAAAAAAATGAAAAGAAAAA
31832748 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
22 10 0.25
24 8 0.20
25 7 0.17
26 8 0.20
28 7 0.17
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (25 bp):
GAAAAAAAAAATGAAAAGAAAAAAG
Found at i:31832705 original size:9 final size:9
Alignment explanation
Indices: 31832693--31832747 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
31832683 AAATGAAAAG
31832693 AAAAAAGAA
1 AAAAAAGAA
31832702 AAAAAATG--
1 AAAAAA-GAA
31832710 AAAAAAG-A
1 AAAAAAGAA
* *
31832718 AGAAAAGGA
1 AAAAAAGAA
31832727 AAAAAAGAA
1 AAAAAAGAA
*
31832736 CAAAAAGAA
1 AAAAAAGAA
31832745 AAA
1 AAA
31832748 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.03
8 12 0.32
9 24 0.63
10 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:31832729 original size:33 final size:33
Alignment explanation
Indices: 31832677--31832747 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
31832667 CTCCACTTGA
31832677 AAAAAAAAATGAAAAG-AAAAAAGAAAAAAAATG
1 AAAAAAAAATGAAAAGAAAAAAAGAAAAAAAA-G
* *
31832710 AAAAAAGAA-GAAAAGGAAAAAAAGAACAAAAAG
1 AAAAAAAAATGAAAA-GAAAAAAAGAAAAAAAAG
31832743 AAAAA
1 AAAAA
31832748 GGAGAGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.15
33 15 0.44
34 14 0.41
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (33 bp):
AAAAAAAAATGAAAAGAAAAAAAGAAAAAAAAG
Found at i:31832748 original size:24 final size:25
Alignment explanation
Indices: 31832688--31832750 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
31832678 AAAAAAAATG
*
31832688 AAAAGAAAAAAGAAAAAAAATGAAAA
1 AAAAG-AAAAAGGAAAAAAATGAAAA
*
31832714 AAGAAG-AAAAGGAAAAAAA-GAACA
1 AA-AAGAAAAAGGAAAAAAATGAAAA
31832738 AAAAGAAAAAGGA
1 AAAAGAAAAAGGA
31832751 GAGGCCAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 13 0.39
25 12 0.36
26 2 0.06
27 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAGGAAAAAAATGAAAA
Found at i:31833776 original size:44 final size:45
Alignment explanation
Indices: 31833701--31833959 Score: 221
Period size: 44 Copynumber: 6.0 Consensus size: 45
31833691 AGTCACCAAG
* * ** *
31833701 GCAGATCTTGTCTTCATGTATTGG-CCTGAAGTAGATCGAATATA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * * * * *
31833745 GCCGGTCTTGTCTTCTTACATTGGTAG-GAAGTGGATCGAAGA-C
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * * * *
31833788 GCAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * * *
31833833 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * *
31833877 GCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * *
31833920 GCAGATATTGTCTTCCCATACT-G--GTGAAGTAGATCGAAGA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGA
31833960 AAATAGATCA
Statistics
Matches: 169, Mismatches: 41, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
41 14 0.08
42 1 0.01
43 36 0.21
44 97 0.57
45 20 0.12
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
Found at i:31833938 original size:132 final size:129
Alignment explanation
Indices: 31833701--31833961 Score: 405
Period size: 132 Copynumber: 2.0 Consensus size: 129
31833691 AGTCACCAAG
* * * * *
31833701 GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCGAATATAGCCGGTCTTGTCTTCTTACAT
1 GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTACAT
*
31833766 TGGTAGGAAGTGGATCGAAGACGCAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
66 TGGTAGGAAGTGGATCGAAGACGCAAATATTGTCTTCCCATAC---TGGTGAAGTAGATCGAAGA
31833831 AA
128 AA
* *
31833833 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTACAT
* *
31833898 TGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
66 TGGTAGGAAGTGGATCGAAGACGCAAATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
31833962 ATAGATCAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
129 21 0.18
132 98 0.82
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (129 bp):
GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTACAT
TGGTAGGAAGTGGATCGAAGACGCAAATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
Found at i:31834171 original size:50 final size:50
Alignment explanation
Indices: 31834003--31834258 Score: 143
Period size: 50 Copynumber: 5.2 Consensus size: 50
31833993 GCAGTGGAGC
* * * * *
31834003 AGATTAAAGCTACGACGGTGAATCTTG-TTCCCCGACATTGCAATTAAAG
1 AGATTGAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAG
* ** * * * **
31834052 AGATTGAAGCCACAACGGTGAATCTCACTT-CTCTGGCA--G-TAGTGGAG
1 AGATTGAAGCCACAACGGCGAATCTTGCTTCCTC-GACATTGCAATTAAAG
* * *
31834099 CAGATTAAAGCTACGACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAG
1 -AGATTGAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAG
* ** * * * * *
31834150 AGATTGAAGCCACAACAGCGAATCTCACTT-CTCTGGCAGTAC-AGTAGAG
1 AGATTGAAGCCACAACGGCGAATCTTGCTTCCTC-GACATTGCAATTAAAG
* * * *
31834199 TAGATTAAAGCTACGACGGCGATTCTTGCTTCC-CTGACATTGCAATTTAAA-
1 -AGATTGAAGCCACAACGGCGAATCTTGCTTCCTC-GACATTGCAA-TTAAAG
31834250 AGATTGAAG
1 AGATTGAAG
31834259 ATGGCGGATT
Statistics
Matches: 149, Mismatches: 46, Indels: 23
0.68 0.21 0.11
Matches are distributed among these distances:
47 4 0.03
48 28 0.19
49 35 0.23
50 73 0.49
51 6 0.04
52 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAG
Found at i:31834173 original size:98 final size:98
Alignment explanation
Indices: 31833995--31834258 Score: 408
Period size: 98 Copynumber: 2.7 Consensus size: 98
31833985 CTGACAGTGC
*
31833995 AGTGGAGCAGATTAAAGCTACGACGGTGAATCTTG-TTCCCCGACATTGCAATTAAAGAGATTGA
1 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTT-CCCGACATTGCAATTAAAGAGATTGA
* *
31834059 AGCCACAACGGTGAATCTCACTTCTCTGGCAGT-
65 AGCCACAACAGCGAATCTCACTTCTCTGGCAGTA
31834092 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAGAGATTGA
1 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCC-CGACATTGCAATTAAAGAGATTGA
31834157 AGCCACAACAGCGAATCTCACTTCTCTGGCAGTA
65 AGCCACAACAGCGAATCTCACTTCTCTGGCAGTA
* * *
31834191 CAGTAGAGTAGATTAAAGCTACGACGGCGATTCTTGCTTCCCTGACATTGCAATTTAAA-AGATT
1 -AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCC-GACATTGCAA-TTAAAGAGATT
31834255 GAAG
63 GAAG
31834259 ATGGCGGATT
Statistics
Matches: 155, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
97 36 0.23
98 57 0.37
99 1 0.01
100 56 0.36
101 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (98 bp):
AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCGACATTGCAATTAAAGAGATTGAA
GCCACAACAGCGAATCTCACTTCTCTGGCAGTA
Found at i:31834476 original size:43 final size:43
Alignment explanation
Indices: 31834417--31834610 Score: 122
Period size: 44 Copynumber: 4.4 Consensus size: 43
31834407 CCCTGAGATT
*
31834417 ACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCCCTAGGCA
1 ACAGTGGAGTAGATTGAAGCCGGTAGTTCTACTTCCCTAGGCA
* *** * * *
31834460 ACAGTGGAATAGATTGAAG-ATTTCAGATCTTA-TCTCCCTAAGTA
1 ACAGTGGAGTAGATTGAAGCCGGT-AGTTC-TACT-TCCCTAGGCA
** * * ** * * * ***
31834504 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATT
1 ACAGTGGAGTAGATTGAAGCCGGTAG-TTCTACTTCCCT-AGGCA
* *
31834549 ACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCCCTGGGCA
1 ACAGTGGAGTAGATTGAAGCCGGTAGTTCTACTTCCCTAGGCA
*
31834592 ACAGTGGAATAGATTGAAG
1 ACAGTGGAGTAGATTGAAG
31834611 ATTGCAGATC
Statistics
Matches: 105, Mismatches: 39, Indels: 14
0.66 0.25 0.09
Matches are distributed among these distances:
42 1 0.01
43 40 0.38
44 43 0.41
45 21 0.20
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGTAGATTGAAGCCGGTAGTTCTACTTCCCTAGGCA
Found at i:31834496 original size:132 final size:132
Alignment explanation
Indices: 31834256--31834702 Score: 643
Period size: 132 Copynumber: 3.4 Consensus size: 132
31834246 TAAAAGATTG
* * * * *
31834256 AAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGG-AATTCTACTTC
1 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGC-CGGTAGTTCTACTTC
*
31834320 CCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTGAAGCAAA
65 CCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTGAAGCAGA
31834385 TCA
130 TCA
*
31834388 AATATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCC
1 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCC
* * * *
31834453 CTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGAT
66 CTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTGAAGCAGAT
*
31834518 CG
131 CA
31834520 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCC
1 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCC
* ** * * *
31834585 CTGGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCT--GTATTTGGCAGCGAAGC
66 CTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTA-AT---AGTGAAGC
31834648 AGATCA
127 AGATCA
*
31834654 AAGATGGCAGATTTTACCTCCCT--GACTACAGTGGAGTACATTGAAGCCG
1 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCG
31834703 ATAACTCTAT
Statistics
Matches: 287, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
130 3 0.01
131 3 0.01
132 247 0.86
134 34 0.12
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTACTTCC
CTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTGAAGCAGAT
CA
Found at i:31834799 original size:40 final size:42
Alignment explanation
Indices: 31834746--31835300 Score: 174
Period size: 44 Copynumber: 12.9 Consensus size: 42
31834736 AGAGTGAAGA
*
31834746 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* * *
31834787 CATCAAG-TCTTATCTCCTTAAGCAGTAGTGGAGCAGA-CGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AG
* *
31834830 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA-
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* * * * * * *
31834871 AAGATGGC-AGATTTTACCTCCCTGA-CTA-CAGTGGAGTACAT-TG
1 AA-A---CAAGATCTTATCTCCCTAAGC-AGTAGTGGAGCAGATCAG
* * * * *
31834914 AAGC-CGATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAG-TGA--AG
1 AAACAAGAT--CT-TATCTCCC--TA---AGCAGTAG--TGGAGCAGATCAG
* *
31834962 AAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA-
1 -AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* *
31835004 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AG
* *
31835047 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA-
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* * * * * * *
31835088 AAGATGGC-AGATTTTACCTCCCTGA-CTA-CAGTGGAGTACAT-TG
1 AA-A---CAAGATCTTATCTCCCTAAGC-AGTAGTGGAGCAGATCAG
* * * ** *
31835131 AAGC-CGATAACTCTATCTCCCTGTATTTGGCAGTAGAATAAAG-TGA--AG
1 AAACAAGAT--CT-TATCTCCC--TA---AGCAGTAG--TGGAGCAGATCAG
*
31835179 AAAACTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-
1 -AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* *
31835221 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AG
* *
31835264 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
31835301 GTCGAAGATG
Statistics
Matches: 378, Mismatches: 73, Indels: 123
0.66 0.13 0.21
Matches are distributed among these distances:
39 11 0.03
40 95 0.25
41 22 0.06
42 34 0.09
43 40 0.11
44 117 0.31
45 8 0.02
47 18 0.05
48 12 0.03
49 8 0.02
50 13 0.03
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
Found at i:31834886 original size:217 final size:217
Alignment explanation
Indices: 31834645--31835906 Score: 2174
Period size: 217 Copynumber: 5.8 Consensus size: 217
31834635 TTGGCAGCGA
31834645 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
*
31834710 TATCTCCCTGTATTTGGCAGTAAAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
*
31834775 TGGAGCAGATCACATCAAGTCTTATCTCCTTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
31834840 TTATCTCCCTAAGCAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
31834862 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
*
31834927 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAATAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
31834992 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
31835057 TTATCTCCCTAAGCAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
31835079 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
* *
31835144 TATCTCCCTGTATTTGGCAGTAGAATAAAGTGAAGAAAACTAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
31835209 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
31835274 TTATCTCCCTAAGCAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
* * * *
31835296 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTAGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
31835361 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
*
31835426 TGGAGCAGATCACATCAAGTCTTATCTCCTTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
31835491 TTATCTCCCTAAGCAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
*
31835513 AGTAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
* *
31835578 TACCTCCCTTTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
*
31835643 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
*
31835708 TTATCTCCCTAAACAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
* * * * * * **
31835730 AGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA-AGGTGGAGTACATTAAAGCC-AGTAGT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-GTGGAGTACATTGAAGCCGA-TAAC
***** * **
31835793 TCTATCTCCCTG--GGCAACAGTGGAATAGAGTGAAGAGCA-CAGATCTTATCTCCCTAAGCAGT
64 TCTATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGT
* *
31835855 AGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGAC
129 AGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
31835907 TAAAAACACA
Statistics
Matches: 998, Mismatches: 45, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
214 72 0.07
215 19 0.02
216 2 0.00
217 905 0.91
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (217 bp):
AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
TTATCTCCCTAAGCAATAGTGG
Found at i:31839842 original size:17 final size:16
Alignment explanation
Indices: 31839799--31839844 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
31839789 TTGTCTGCTA
*
31839799 AAAATTATTAGTTAAGT
1 AAAATTATT-TTTAAGT
31839816 AAAATTATTTTTAAAGT
1 AAAATTATTTTT-AAGT
31839833 AAAATTATTTTT
1 AAAATTATTTTT
31839845 TGTGGTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 2 0.07
17 25 0.93
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (16 bp):
AAAATTATTTTTAAGT
Found at i:31840352 original size:41 final size:41
Alignment explanation
Indices: 31840295--31840381 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
31840285 TTATATGGAT
31840295 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
*
31840336 AAAATTTTTATATGGATATGCCCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
31840377 AAAAT
1 AAAAT
31840382 CGTAGAACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (41 bp):
AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
Found at i:31840810 original size:32 final size:32
Alignment explanation
Indices: 31840769--31840831 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
31840759 TTTAAATCCC
31840769 TGAGCATTAGCGGCGCTTTCTCAAAAACGCCT
1 TGAGCATTAGCGGCGCTTTCTCAAAAACGCCT
*
31840801 TGAGCATTAGCGGCGCTTTCTTAAAAACGCC
1 TGAGCATTAGCGGCGCTTTCTCAAAAACGCC
31840832 GTTAAAGCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (32 bp):
TGAGCATTAGCGGCGCTTTCTCAAAAACGCCT
Found at i:31840879 original size:41 final size:41
Alignment explanation
Indices: 31840801--31840882 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
31840791 AAAAACGCCT
* * **
31840801 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGTTAAAGCCC
1 TGAGCATTAGCGGCCCTTTCTTAAAAACACCACTAAAGCCC
*
31840842 TGAGCATTAGCGGCCCTTTCTTAAAAACATCACTAAAGCCC
1 TGAGCATTAGCGGCCCTTTCTTAAAAACACCACTAAAGCCC
31840883 CGAAAGCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
TGAGCATTAGCGGCCCTTTCTTAAAAACACCACTAAAGCCC
Found at i:31840967 original size:39 final size:39
Alignment explanation
Indices: 31840918--31840993 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
31840908 GGGCTTAGGT
* *
31840918 TTTTTTGCGGCGCTTTCTGGAAAA-CGCAGCTAATGCTTA
1 TTTTTAGCGGCGCTTTCT-AAAAAGCGCAGCTAATGCTTA
* *
31840957 TTTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCT
1 TTTTTAGCGGCGCTTTCTAAAAAGCGCAGCTAATGCT
31840994 CGACATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.12
39 28 0.88
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTCTAAAAAGCGCAGCTAATGCTTA
Found at i:31841318 original size:22 final size:22
Alignment explanation
Indices: 31841280--31841322 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31841270 CAATCAACAT
*
31841280 TAAATATTATACAAATATAAAA
1 TAAATATTAGACAAATATAAAA
31841302 TAAAT-TTAGACACAATATAAA
1 TAAATATTAGACA-AATATAAA
31841323 TGATCACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAATATTAGACAAATATAAAA
Found at i:31841442 original size:3 final size:3
Alignment explanation
Indices: 31841414--31841456 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
31841404 GCATGCATAT
*
31841414 ATA A-A ATA TATA TATA ATA ATT ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31841457 TCAAGCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 27 0.75
4 7 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:31847103 original size:13 final size:13
Alignment explanation
Indices: 31847085--31847109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31847075 GATTAGTACT
31847085 ATTATTATTATTA
1 ATTATTATTATTA
31847098 ATTATTATTATT
1 ATTATTATTATT
31847110 GTTATCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:31847980 original size:108 final size:105
Alignment explanation
Indices: 31847788--31847996 Score: 337
Period size: 108 Copynumber: 2.0 Consensus size: 105
31847778 TTTCTAAATA
*
31847788 AGGCAATATTTTGCTTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
1 AGGCAATATTTTGCTTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
*
31847853 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAGCG
66 TTCGACCAAATAACCAAATAT-CTTTTT-AACTTTCAAAGCG
* * *
31847895 AGGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AGGCAATATTTTGC-TTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
*
31847960 GTTCGACCAAATAACTAAATATCTTTTTAACTTTCAA
65 GTTCGACCAAATAACCAAATATCTTTTTAACTTTCAA
31847997 TCAATATTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 9 0.09
107 19 0.20
108 67 0.71
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (105 bp):
AGGCAATATTTTGCTTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
TTCGACCAAATAACCAAATATCTTTTTAACTTTCAAAGCG
Found at i:31851207 original size:24 final size:24
Alignment explanation
Indices: 31851180--31851231 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
31851170 CTAATGTATT
*
31851180 TATTTTGAGACGAGATTATTAAAA
1 TATTTTGAGACGAAATTATTAAAA
31851204 TA--TTGAGACGAAATTATTAAAA
1 TATTTTGAGACGAAATTATTAAAA
31851226 TATTTT
1 TATTTT
31851232 TATTGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 21 0.84
24 4 0.16
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (24 bp):
TATTTTGAGACGAAATTATTAAAA
Found at i:31851209 original size:22 final size:22
Alignment explanation
Indices: 31851184--31851229 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
31851174 TGTATTTATT
*
31851184 TTGAGACGAGATTATTAAAATA
1 TTGAGACGAAATTATTAAAATA
31851206 TTGAGACGAAATTATTAAAATA
1 TTGAGACGAAATTATTAAAATA
31851228 TT
1 TT
31851230 TTTATTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (22 bp):
TTGAGACGAAATTATTAAAATA
Found at i:31853494 original size:24 final size:23
Alignment explanation
Indices: 31853463--31853516 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
31853453 AATTTAGAAA
31853463 AAATTTAATAGTATTTAAAATTTT
1 AAATTTAATAG-ATTTAAAATTTT
*
31853487 AATTTTAATAGATTTAAAATTTT
1 AAATTTAATAGATTTAAAATTTT
31853510 AAATTTA
1 AAATTTA
31853517 GAAACAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
AAATTTAATAGATTTAAAATTTT
Found at i:31867975 original size:40 final size:40
Alignment explanation
Indices: 31867903--31867986 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
31867893 TTATATGGAT
31867903 AAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCCA
1 AAATTTTTATATGGATAAGCCCGTATAACAAAGTCGG-CCA
*
31867944 AAATTTTTATATGGA-ATGCCCGTATAACAAAGTCGGCCA
1 AAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCA
31867983 AAAT
1 AAAT
31867987 CGTAGAACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 7 0.17
40 20 0.48
41 15 0.36
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (40 bp):
AAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCA
Found at i:31868884 original size:22 final size:22
Alignment explanation
Indices: 31868846--31868887 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31868836 CAATCAACAT
*
31868846 TAAATATTATACAAATATAAAA
1 TAAATATTAGACAAATATAAAA
31868868 TAAAT-TTAGACACAATATAA
1 TAAATATTAGACA-AATATAA
31868888 TGATCACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAATATTAGACAAATATAAAA
Found at i:31874595 original size:13 final size:13
Alignment explanation
Indices: 31874577--31874601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31874567 GATTAGTACT
31874577 ATTATTATTATTA
1 ATTATTATTATTA
31874590 ATTATTATTATT
1 ATTATTATTATT
31874602 GTTATCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:31875471 original size:108 final size:105
Alignment explanation
Indices: 31875279--31875487 Score: 337
Period size: 108 Copynumber: 2.0 Consensus size: 105
31875269 TTTCTAAATA
*
31875279 AGGCAATATTTTGCTTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
1 AGGCAATATTTTGCTTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
*
31875344 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAGCG
66 TTCGACCAAATAACCAAATAT-CTTTTT-AACTTTCAAAGCG
* * *
31875386 AGGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AGGCAATATTTTGC-TTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
*
31875451 GTTCGACCAAATAACTAAATATCTTTTTAACTTTCAA
65 GTTCGACCAAATAACCAAATATCTTTTTAACTTTCAA
31875488 TCAATATTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 9 0.09
107 19 0.20
108 67 0.71
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (105 bp):
AGGCAATATTTTGCTTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
TTCGACCAAATAACCAAATATCTTTTTAACTTTCAAAGCG
Found at i:31878705 original size:24 final size:24
Alignment explanation
Indices: 31878678--31878729 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
31878668 TAATGTATTT
*
31878678 TATTTTGAGACGAGATTATTAAAA
1 TATTTTGAGACGAAATTATTAAAA
31878702 TA--TTGAGACGAAATTATTAAAA
1 TATTTTGAGACGAAATTATTAAAA
31878724 TATTTT
1 TATTTT
31878730 TATTGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 21 0.84
24 4 0.16
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (24 bp):
TATTTTGAGACGAAATTATTAAAA
Found at i:31878709 original size:22 final size:22
Alignment explanation
Indices: 31878682--31878727 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
31878672 GTATTTTATT
*
31878682 TTGAGACGAGATTATTAAAATA
1 TTGAGACGAAATTATTAAAATA
31878704 TTGAGACGAAATTATTAAAATA
1 TTGAGACGAAATTATTAAAATA
31878726 TT
1 TT
31878728 TTTATTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (22 bp):
TTGAGACGAAATTATTAAAATA
Found at i:31881029 original size:25 final size:23
Alignment explanation
Indices: 31880997--31881052 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
31880987 ATTTAGAAAA
31880997 AAATTTAATAGTATTTAAAAATTTT
1 AAATTTAATAG-ATTT-AAAATTTT
*
31881022 AATTTTAAATAGATTTAAAATTTT
1 AAATTT-AATAGATTTAAAATTTT
31881046 AAATTTA
1 AAATTTA
31881053 GAAACAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 13 0.46
25 9 0.32
26 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTTAATAGATTTAAAATTTT
Found at i:31882935 original size:14 final size:14
Alignment explanation
Indices: 31882911--31882945 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
31882901 ATAAAGATTA
*
31882911 AAAGCAAAATAAAAT
1 AAAG-AAAATAAAAG
31882926 AAAGAAAATAAAAG
1 AAAGAAAATAAAAG
31882940 AAAGAA
1 AAAGAA
31882946 TGAGCAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAGAAAATAAAAG
Found at i:31885141 original size:16 final size:15
Alignment explanation
Indices: 31885098--31885141 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 15
31885088 TATATTGGTT
*
31885098 TAATAAAATAATATA
1 TAATAAAATAATAAA
31885113 TAATAAAAT--TAAA
1 TAATAAAATAATAAA
31885126 TAATAATAATAATAAA
1 TAATAA-AATAATAAA
31885142 GTAACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.36
14 3 0.12
15 9 0.36
16 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:31886514 original size:22 final size:22
Alignment explanation
Indices: 31886461--31886502 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
31886451 AGGATAAGAA
*
31886461 TCTGCATCTGTATCTGATATGT
1 TCTGCATCTATATCTGATATGT
31886483 TCTGCATCTATATCTGATAT
1 TCTGCATCTATATCTGATAT
31886503 TCTCTGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (22 bp):
TCTGCATCTATATCTGATATGT
Found at i:31887998 original size:25 final size:25
Alignment explanation
Indices: 31887948--31887998 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
31887938 AAAACCAAAG
* *
31887948 TTTAATTTTAATATAATATTTATAT
1 TTTAATTGTAATATAATACTTATAT
*
31887973 TTTAATTGTATTATGAATACTT-TAT
1 TTTAATTGTAATAT-AATACTTATAT
31887998 T
1 T
31887999 ATCTCCATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTAATTGTAATATAATACTTATAT
Found at i:31888993 original size:17 final size:18
Alignment explanation
Indices: 31888963--31888997 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
31888953 TTAGATCCCA
31888963 TTTGAAGAAATTTTATTT
1 TTTGAAGAAATTTTATTT
31888981 TTTGAAG-AATTTTATTT
1 TTTGAAGAAATTTTATTT
31888998 ATTTATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTGAAGAAATTTTATTT
Found at i:31891229 original size:33 final size:34
Alignment explanation
Indices: 31891157--31891236 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
31891147 CCGTGTGCCA
* *
31891157 GGCCGTGTGGG-CTACATGGGCAAGGCCATTTTG
1 GGCCGTGTGGGCCCACATAGGCAAGGCCATTTTG
31891190 GG-CGTGTGGGCCCACATAGGCAA-GCCATTTTG
1 GGCCGTGTGGGCCCACATAGGCAAGGCCATTTTG
*
31891222 GGCCGTGTAGGCCCA
1 GGCCGTGTGGGCCCA
31891237 AATTTCATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 19 0.45
33 23 0.55
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (34 bp):
GGCCGTGTGGGCCCACATAGGCAAGGCCATTTTG
Found at i:31894772 original size:13 final size:15
Alignment explanation
Indices: 31894739--31894771 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
31894729 CATTTAACAG
31894739 TTTTATTATTATTATT
1 TTTTATT-TTATTATT
31894755 TTTTATTTT-TTATT
1 TTTTATTTTATTATT
31894769 TTT
1 TTT
31894772 ACTTTTACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTATT
Found at i:31903319 original size:32 final size:32
Alignment explanation
Indices: 31903283--31903353 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
31903273 CCAAGCCATG
* * * *
31903283 TGGGCTACACGGGCAAGGTCATTTTGG-GTGTA
1 TGGGCCACACGAGCAA-GACATTTGGGAGTGTA
31903315 TGGGCCCACACGAGCAAGACATTTGGGAGTGTA
1 TGGG-CCACACGAGCAAGACATTTGGGAGTGTA
31903348 TGGGCC
1 TGGGCC
31903354 CAAATTTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.21, C:0.20, G:0.37, T:0.23
Consensus pattern (32 bp):
TGGGCCACACGAGCAAGACATTTGGGAGTGTA
Found at i:31909923 original size:13 final size:13
Alignment explanation
Indices: 31909884--31909947 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
31909874 AGTTCTTCAT
31909884 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
31909897 TG-TTGTGTAAAAG
1 TGCTTTTG-AAAAG
*
31909910 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
31909923 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
31909936 TGCTTTTGAAAA
1 TGCTTTTGAAAA
31909948 TTTTGAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.09
13 35 0.81
14 4 0.09
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:31910775 original size:255 final size:255
Alignment explanation
Indices: 31910319--31910823 Score: 904
Period size: 255 Copynumber: 2.0 Consensus size: 255
31910309 TTATCCACAG
*
31910319 GAACAAAGATGGTTATGGTCAATCTCTAGAAGAAAATGTAAAAGAACTAGCGTGTGTGTTGGCTA
1 GAACAAAGATGGTTATGGTCAATCTCTAGAAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCTA
31910384 AAAAGGTAAAAGACCAGCCCAAAAGCACTTTTTGGCTGAAAAAGTTAAAAAATTTTGCATTTTCA
66 AAAAGGTAAAAGACCAGCCCAAAAGCACTTTTTGGCTGAAAAAGTTAAAAAATTTTGCATTTTCA
* * *
31910449 TCTGTCCAAAAACACTTTAAATAAGTTAAAAATTTACTACCACCGAAGTTTGTTCTTTATTACTT
131 TCTGCCCAAAAACACTTTAAAAAAGTTAAAAATTTACTACCACCGAAGTTTGTTCTTTATTACTC
*
31910514 TTCACCCAAAAGCACTTTTATATGTAAAAGTACTTTCCAAACGCCCAAAATAACACATCC
196 TTCACCCAAAAGCACTTTTATATGTAAAAATACTTTCCAAACGCCCAAAATAACACATCC
*
31910574 GAACAAAGATGGTTATGGTCAATCT-TCAGGAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCT
1 GAACAAAGATGGTTATGGTCAATCTCT-AGAAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCT
*
31910638 AAAAAGGTAAAAGACCAGCCCAAAAGCACTTTTTGGCTGAAAAAGTTAAAAAATTTTGCGTTTTC
65 AAAAAGGTAAAAGACCAGCCCAAAAGCACTTTTTGGCTGAAAAAGTTAAAAAATTTTGCATTTTC
* *
31910703 ATCTGCCCAAAAGCACTTTAAAAAAGTTAAAAATTTATTACCACCGAAGTTTGTTCTTTATTACT
130 ATCTGCCCAAAAACACTTTAAAAAAGTTAAAAATTTACTACCACCGAAGTTTGTTCTTTATTACT
*
31910768 CTTCACCCAAAAGCACTTTTATATGTAAAAATACTTTTCAAACGCCCAAAATAACA
195 CTTCACCCAAAAGCACTTTTATATGTAAAAATACTTTCCAAACGCCCAAAATAACA
31910824 AAAGAACTCA
Statistics
Matches: 239, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
254 1 0.00
255 238 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (255 bp):
GAACAAAGATGGTTATGGTCAATCTCTAGAAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCTA
AAAAGGTAAAAGACCAGCCCAAAAGCACTTTTTGGCTGAAAAAGTTAAAAAATTTTGCATTTTCA
TCTGCCCAAAAACACTTTAAAAAAGTTAAAAATTTACTACCACCGAAGTTTGTTCTTTATTACTC
TTCACCCAAAAGCACTTTTATATGTAAAAATACTTTCCAAACGCCCAAAATAACACATCC
Found at i:31920293 original size:24 final size:24
Alignment explanation
Indices: 31920266--31920322 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
31920256 GCTCAATTGA
* * * *
31920266 TTTTTTTAATTTTTGATTGAGGAC
1 TTTTTTTAATTTATCATTAAGCAC
*
31920290 TTTTTTTTATTTATCATTAAGCAC
1 TTTTTTTAATTTATCATTAAGCAC
31920314 TTTTTTTAA
1 TTTTTTTAA
31920323 CAATTAAGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (24 bp):
TTTTTTTAATTTATCATTAAGCAC
Found at i:31922143 original size:30 final size:31
Alignment explanation
Indices: 31922083--31922143 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
31922073 GGGAGGGGAG
* **
31922083 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGAAAAAGT
31922114 GGGA-AGGAGTAAAAGTTTTGAGGAAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGAAAAAGT
31922144 AAAAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGAAAAAGT
Found at i:31922206 original size:9 final size:9
Alignment explanation
Indices: 31922192--31922228 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31922182 TATAGTTTGA
31922192 TATTCGAAT
1 TATTCGAAT
31922201 TATTCGAAT
1 TATTCGAAT
*
31922210 TATTCGAGT
1 TATTCGAAT
31922219 TATTCGAAT
1 TATTCGAAT
31922228 T
1 T
31922229 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31922835 original size:29 final size:29
Alignment explanation
Indices: 31922814--31922869 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
31922804 ATTATAGTTG
*
31922814 GAATGAAAATAGTAATAAAATTCAAACAT
1 GAATGAAAATAATAATAAAATTCAAACAT
31922843 GAATGAAAATAATAATAAAATTCAAAC
1 GAATGAAAATAATAATAAAATTCAAAC
31922870 TTCTTTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (29 bp):
GAATGAAAATAATAATAAAATTCAAACAT
Found at i:31923847 original size:3 final size:3
Alignment explanation
Indices: 31923839--31923896 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
31923829 ATTTAAGGTG
31923839 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
31923887 ACT ACT ACT A
1 ACT ACT ACT A
31923897 GTTGACTTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:31925724 original size:22 final size:22
Alignment explanation
Indices: 31925699--31925751 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
31925689 AAAATTTCAA
31925699 AAAAAATTATTA-AAA-AAAGTAT
1 AAAAAATTA-TACAAAGAAAGT-T
*
31925721 AAAAAAATATACAAAGAAAGTT
1 AAAAAATTATACAAAGAAAGTT
31925743 AAAAAATTA
1 AAAAAATTA
31925752 AAAACTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 20 0.74
23 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAAATTATACAAAGAAAGTT
Found at i:31926369 original size:94 final size:93
Alignment explanation
Indices: 31926259--31926445 Score: 331
Period size: 94 Copynumber: 2.0 Consensus size: 93
31926249 GTCCCCTGCA
31926259 TGGAGCATTTTCTCTCTAGCCATTTCAACCACCCCAACTTGATTGCTTTTGAGCCCTGCAACCCA
1 TGGAGCATTTTCTCTCTAGCCATTTCAACCACCCCAACTTGATTGCTTTTGAGCCCTGCAACCCA
31926324 GGATTCCCGA-GATAATTTTCCCCCTTTAT
66 GGATT-CCGAGGATAA-TTTCCCCCTTTAT
31926353 TGGAGCATTTTCTCTCTAGCCATTTCAACCACCCCAACTTGATTGCTTTTGAGCCCTGCAACCCA
1 TGGAGCATTTTCTCTCTAGCCATTTCAACCACCCCAACTTGATTGCTTTTGAGCCCTGCAACCCA
* *
31926418 GGATTCCTAGGATAATTTCTCCCTTTAT
66 GGATTCCGAGGATAATTTCCCCCTTTAT
31926446 ACCCCGCCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
93 15 0.17
94 75 0.83
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (93 bp):
TGGAGCATTTTCTCTCTAGCCATTTCAACCACCCCAACTTGATTGCTTTTGAGCCCTGCAACCCA
GGATTCCGAGGATAATTTCCCCCTTTAT
Found at i:31928623 original size:29 final size:29
Alignment explanation
Indices: 31928591--31928651 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
31928581 TTTGTGATTA
31928591 AAATTATAATATTGAATAATTGAATAATT
1 AAATTATAATATTGAATAATTGAATAATT
* * ** *
31928620 AAATTGTAATTTTTCATAATTGAGTAATT
1 AAATTATAATATTGAATAATTGAATAATT
31928649 AAA
1 AAA
31928652 ATGTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.43
Consensus pattern (29 bp):
AAATTATAATATTGAATAATTGAATAATT
Found at i:31928656 original size:29 final size:29
Alignment explanation
Indices: 31928606--31928661 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
31928596 ATAATATTGA
*
31928606 ATAATTGAATAATTAAATTGTAATTTTTC
1 ATAATTGAATAATTAAAATGTAATTTTTC
*
31928635 ATAATTGAGTAATTAAAATGTAATTTT
1 ATAATTGAATAATTAAAATGTAATTTT
31928662 ACGCATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (29 bp):
ATAATTGAATAATTAAAATGTAATTTTTC
Found at i:31931634 original size:2 final size:2
Alignment explanation
Indices: 31931627--31931652 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31931617 GTAAAAATTT
31931627 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
31931653 ACAAGACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31945669 original size:41 final size:41
Alignment explanation
Indices: 31945612--31945694 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
31945602 TGTCGGTAAT
31945612 CTTTCACAAGCAATAGCAAAAACAAAGTAGTAAAGCAACAA
1 CTTTCACAAGCAATAGCAAAAACAAAGTAGTAAAGCAACAA
31945653 CTTTCACAAGCAATAGCAAAAACAAAGTAGTAAAGCAACAA
1 CTTTCACAAGCAATAGCAAAAACAAAGTAGTAAAGCAACAA
31945694 C
1 C
31945695 CTATGTTGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.14
Consensus pattern (41 bp):
CTTTCACAAGCAATAGCAAAAACAAAGTAGTAAAGCAACAA
Found at i:31950347 original size:3 final size:3
Alignment explanation
Indices: 31950339--31950369 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
31950329 TTCTGTAGTT
31950339 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31950370 AATATTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31959754 original size:6 final size:6
Alignment explanation
Indices: 31959743--31959778 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
31959733 TTAGTGATTT
31959743 AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
31959779 TAATTACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:31964185 original size:89 final size:90
Alignment explanation
Indices: 31964085--31964249 Score: 219
Period size: 89 Copynumber: 1.8 Consensus size: 90
31964075 TTAGGGCTTG
* * * * *
31964085 AATTTGATTGTGATAATGGT-GGCAATGTGTTCA-TCGTTTAAAAGTATGATTGTGATTAG-TAT
1 AATTTGATTGTGACAATGGTAGGAAAT-TGTGCAGT-GTTTAAAAGTATGACTGTGATCAGTTAT
31964147 ATTGTTTAAAAGTGTGATTTAGACTCA
64 ATTGTTTAAAAGTGTGATTTAGACTCA
* * *
31964174 AATTTGATTGTGACAGTGGTAGTAAATTGTGCAGTGTTTAAAAGTGTGACTGTGATCAGTTATAT
1 AATTTGATTGTGACAATGGTAGGAAATTGTGCAGTGTTTAAAAGTATGACTGTGATCAGTTATAT
31964239 TGTTTAAAAGT
66 TGTTTAAAAGT
31964250 ACGATTGGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
89 44 0.68
90 21 0.32
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (90 bp):
AATTTGATTGTGACAATGGTAGGAAATTGTGCAGTGTTTAAAAGTATGACTGTGATCAGTTATAT
TGTTTAAAAGTGTGATTTAGACTCA
Found at i:31964284 original size:90 final size:87
Alignment explanation
Indices: 31964190--31964472 Score: 253
Period size: 90 Copynumber: 3.3 Consensus size: 87
31964180 ATTGTGACAG
* *
31964190 TGGTAGTAAATTGTGCAGTGTTTAAAAGTGTGACTGTGATCAGTTATATTGTTTAAAAGTACGAT
1 TGGTAGCAAATTGTGCATTGTTT-AAAG-GTGA-TGTGATCAGTTATATTGTTTAAAAGTACGAT
*
31964255 TGGGGATTGAATTC-AATCATGATAA
63 TTGGGATTGAATTCGAA-CATGATAA
* * * * * *
31964280 TGGTAGCGAATTGTGCATTATTTAAAGGT-ATG-GATGCA--AATAGTGATT---GGTACGATTT
1 TGGTAGCAAATTGTGCATTGTTTAAAGGTGATGTGAT-CAGTTATATTGTTTAAAAGTACGATTT
31964338 GGGATTGAATTCGAACATGATAA
65 GGGATTGAATTCGAACATGATAA
* * * * *
31964361 TGGTAGCAAATTATGCATTGTTTGAAGGCATGGTTGTGATTAGTTATATTGTTTAAAAGTAAGAT
1 TGGTAGCAAATTGTGCATTGTTTAAAGG--T-GATGTGATCAGTTATATTGTTTAAAAGTACGAT
*
31964426 TTGGGATTGAATAT-GATCATTGAT-A
63 TTGGGATTGAAT-TCGAACA-TGATAA
* *
31964451 TGGTGGCGAATTGTGCATTGTT
1 TGGTAGCAAATTGTGCATTGTT
31964473 GATTCGTTAT
Statistics
Matches: 155, Mismatches: 24, Indels: 28
0.75 0.12 0.14
Matches are distributed among these distances:
81 52 0.34
82 2 0.01
83 1 0.01
84 7 0.05
85 6 0.04
86 7 0.05
87 8 0.05
88 2 0.01
89 4 0.03
90 61 0.39
91 5 0.03
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.37
Consensus pattern (87 bp):
TGGTAGCAAATTGTGCATTGTTTAAAGGTGATGTGATCAGTTATATTGTTTAAAAGTACGATTTG
GGATTGAATTCGAACATGATAA
Found at i:31973793 original size:17 final size:17
Alignment explanation
Indices: 31973760--31973831 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 17
31973750 ACATCATTAC
*
31973760 TAATTCAATTGAT-TAAA
1 TAATTCAA-TAATATAAA
31973777 TAATTCAATAATATAAA
1 TAATTCAATAATATAAA
* *
31973794 TAATACAA-AATGTAAAA
1 TAATTCAATAATAT-AAA
*
31973811 TTTAATTTAATAATATAAA
1 --TAATTCAATAATATAAA
31973830 TA
1 TA
31973832 GTATATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.16
17 24 0.55
19 9 0.20
20 4 0.09
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATTCAATAATATAAA
Found at i:31974411 original size:30 final size:31
Alignment explanation
Indices: 31974368--31974454 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 31
31974358 CCGAATATAA
31974368 TAAATATATATTTTTTATTTTTAAAAATA-TTT
1 TAAA-ATA-ATTTTTTATTTTTAAAAATATTTT
31974400 TAAAATAATTTTTTATTTTT-AAAATATTTT
1 TAAAATAATTTTTTATTTTTAAAAATATTTT
*
31974430 TAAAATACTTTTTTAATTTTCTAAA
1 TAAAATAATTTTTT-ATTTT-TAAA
31974455 TTTTTTTGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
29 6 0.12
30 29 0.58
31 8 0.16
32 5 0.10
33 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TAAAATAATTTTTTATTTTTAAAAATATTTT
Found at i:31977734 original size:90 final size:90
Alignment explanation
Indices: 31977583--31977746 Score: 224
Period size: 90 Copynumber: 1.8 Consensus size: 90
31977573 TTAAAAGTAT
* * * *
31977583 GATTGTGATTAGTTATATTGTTTAAAAGGGTGATTTAGATTTGATTTTGATTCTGACAATGGTAA
1 GATTGTGATAAGTTATATTGTTCAAAAGGGTGATTTAGATTTGAATTTGATTCTCACAATGGTAA
*
31977648 TAAATTGTGTAGTTTTTAGAAATAC
66 CAAATTGTGTAGTTTTTAGAAATAC
* *
31977673 GATTGTGATAAGTTATATTGTTCAAAAGTGTGATTTGAGA-TTGAATTTGA-TCATCATAATGGT
1 GATTGTGATAAGTTATATTGTTCAAAAGGGTGATTT-AGATTTGAATTTGATTC-TCACAATGGT
*
31977736 AACGAATTGTG
64 AACAAATTGTG
31977747 CATTGTTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 2 0.03
90 59 0.92
91 3 0.05
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (90 bp):
GATTGTGATAAGTTATATTGTTCAAAAGGGTGATTTAGATTTGAATTTGATTCTCACAATGGTAA
CAAATTGTGTAGTTTTTAGAAATAC
Found at i:31978960 original size:18 final size:18
Alignment explanation
Indices: 31978939--31978993 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
31978929 TTAAAATATA
31978939 TATAAT-TTTTGAAATTTT
1 TATAATATTTTG-AATTTT
31978957 TATAAATATTTTGAATTTT
1 TAT-AATATTTTGAATTTT
* *
31978976 GAAAATATTTTGAATTTT
1 TATAATATTTTGAATTTT
31978994 AGTTGGGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 18 0.55
19 10 0.30
20 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (18 bp):
TATAATATTTTGAATTTT
Found at i:31985938 original size:34 final size:34
Alignment explanation
Indices: 31985893--31985982 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
31985883 ACTTATACAA
*
31985893 ATATCATATCAGAATTTCATATTACCAAAAACAT
1 ATATCATATCAGAATGTCATATTACCAAAAACAT
* * **
31985927 ATATCAGATCAGAATGTCATATTTCCAAATGCAT
1 ATATCATATCAGAATGTCATATTACCAAAAACAT
*
31985961 ATATCATATCAGGATGTCATAT
1 ATATCATATCAGAATGTCATAT
31985983 CAAATCAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTACCAAAAACAT
Found at i:31991773 original size:27 final size:27
Alignment explanation
Indices: 31991725--31991931 Score: 159
Period size: 27 Copynumber: 7.7 Consensus size: 27
31991715 AGTACCGAGA
* **
31991725 CCCTCATAGGGTAAAATAACCGTAATGT
1 CCCT-ATAGGGTAAAATGACCGTAATAC
*
31991753 CCCTATAAGGTAAAATGACCGTAATAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* * * * *
31991780 CCCTGTAGGATAAAATGACAGAAAAAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* * *
31991807 CCCCAT-GGGTAAAATGATCGTAATGC
1 CCCTATAGGGTAAAATGACCGTAATAC
* *
31991833 CCCTGTAGGGTAAAATGAACGTAATAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* * *
31991860 TCCC-ATAGGGTTAAATAACCGAAATAC
1 -CCCTATAGGGTAAAATGACCGTAATAC
* * * * *
31991887 CCCTGTAAGGTAAATTGGCTGTAATAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* *
31991914 TCCTAAAGGGT-AAATGAC
1 CCCTATAGGGTAAAATGAC
31991932 TATTTTGCCC
Statistics
Matches: 135, Mismatches: 41, Indels: 8
0.73 0.22 0.04
Matches are distributed among these distances:
26 26 0.19
27 102 0.76
28 7 0.05
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
CCCTATAGGGTAAAATGACCGTAATAC
Found at i:31991823 original size:53 final size:54
Alignment explanation
Indices: 31991761--31991893 Score: 162
Period size: 53 Copynumber: 2.5 Consensus size: 54
31991751 GTCCCTATAA
31991761 GGTAAAATGACCGTAATACCCCTGTAGGATAAAATG-ACAGAAAAACCCCCAT-G
1 GGTAAAATGACCGTAATACCCCTGTAGGATAAAATGAAC-GAAAAACCCCCATAG
* * * * * *
31991814 GGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGAACGTAATACTCCCATAG
1 GGTAAAATGACCGTAATACCCCTGTAGGATAAAATGAACGAAAAACCCCCATAG
* * *
31991868 GGTTAAATAACCGAAATACCCCTGTA
1 GGTAAAATGACCGTAATACCCCTGTA
31991894 AGGTAAATTG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
53 43 0.64
54 24 0.36
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCCTGTAGGATAAAATGAACGAAAAACCCCCATAG
Found at i:31991889 original size:80 final size:81
Alignment explanation
Indices: 31991724--31991889 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 81
31991714 AAGTACCGAG
* * * *
31991724 ACCCTCATAGGGTAAAATAACCGTAATGTCCCTATAAGGTAAAATGACCGTAATACCCCTGTAGG
1 ACCCCCATAGGGTAAAATAACCGTAATGCCCCTATAAGGTAAAATGAACGTAATACCCCTATAGG
*
31991789 ATAAAATGACAGAAAA
66 ATAAAATAACAGAAAA
* * * *
31991805 ACCCCCAT-GGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGAACGTAATACTCCC-ATAG
1 ACCCCCATAGGGTAAAATAACCGTAATGCCCCTATAAGGTAAAATGAACGTAATAC-CCCTATAG
* * * *
31991868 GGTTAAATAACCGAAAT
65 GATAAAATAACAGAAAA
31991885 ACCCC
1 ACCCC
31991890 TGTAAGGTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 61 0.86
81 10 0.14
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (81 bp):
ACCCCCATAGGGTAAAATAACCGTAATGCCCCTATAAGGTAAAATGAACGTAATACCCCTATAGG
ATAAAATAACAGAAAA
Found at i:31992015 original size:24 final size:24
Alignment explanation
Indices: 31991950--31992021 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
31991940 CCCACGAGTG
* * * *
31991950 TAAATGATTGATTTGTCCGTAATG
1 TAAATGACTGATTTGTCTGTGATT
*
31991974 TAAATGTCTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*
31991998 TAAATGACTGATTTGTCTGCGATT
1 TAAATGACTGATTTGTCTGTGATT
31992022 GGTATAACTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:31992031 original size:24 final size:24
Alignment explanation
Indices: 31991981--31992037 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
31991971 ATGTAAATGT
* * *
31991981 CTGATTTGTCTGTGATTTAAATGA
1 CTGATTTGTCTGCGATTGAAATAA
**
31992005 CTGATTTGTCTGCGATTGGTATAA
1 CTGATTTGTCTGCGATTGAAATAA
31992029 CTGATTTGT
1 CTGATTTGT
31992038 ATGACTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.46
Consensus pattern (24 bp):
CTGATTTGTCTGCGATTGAAATAA
Found at i:31992181 original size:27 final size:26
Alignment explanation
Indices: 31992128--31992216 Score: 61
Period size: 26 Copynumber: 3.3 Consensus size: 26
31992118 CTAGTGGTTC
* * **
31992128 GGCCACAATCACTGTTACTGGTGGCTT
1 GGCCACGAT-ACTGTTACGGGCAGCTT
* *
31992155 GGCCACATATACTTTTACGGGCAGCTT
1 GGCCAC-GATACTGTTACGGGCAGCTT
* * *
31992182 TGCTACGATACTGTTACTGGCAGCTT
1 GGCCACGATACTGTTACGGGCAGCTT
* *
31992208 TGCTACGAT
1 GGCCACGAT
31992217 GCTATTGATG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
26 26 0.51
27 23 0.45
28 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (26 bp):
GGCCACGATACTGTTACGGGCAGCTT
Found at i:31992198 original size:26 final size:26
Alignment explanation
Indices: 31992163--31992216 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
31992153 TTGGCCACAT
*
31992163 ATACTTTTACGGGCAGCTTTGCTACG
1 ATACTGTTACGGGCAGCTTTGCTACG
*
31992189 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTGTTACGGGCAGCTTTGCTACG
31992215 AT
1 AT
31992217 GCTATTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTGTTACGGGCAGCTTTGCTACG
Found at i:31992265 original size:32 final size:32
Alignment explanation
Indices: 31992222--31992361 Score: 149
Period size: 32 Copynumber: 4.4 Consensus size: 32
31992212 ACGATGCTAT
*
31992222 TGATGGATTTGTATCGATCATATTACCGTTAC
1 TGATGGCTTTGTATCGATCATATTACCGTTAC
* * * *
31992254 TGATGGCTTTGTGTTGGTCATATTACCGTTAT
1 TGATGGCTTTGTATCGATCATATTACCGTTAC
**
31992286 TGATGGCTTTGTGCCGATCATATTACCGTTAC
1 TGATGGCTTTGTATCGATCATATTACCGTTAC
* * * *
31992318 TGATGG-TTT-TATGCCGATCATATCACTGCTAT
1 TGATGGCTTTGTAT--CGATCATATTACCGTTAC
31992350 TGATGGCTTTGT
1 TGATGGCTTTGT
31992362 GCCAATAATA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
30 1 0.01
31 3 0.03
32 81 0.91
33 3 0.03
34 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.42
Consensus pattern (32 bp):
TGATGGCTTTGTATCGATCATATTACCGTTAC
Found at i:31992320 original size:64 final size:63
Alignment explanation
Indices: 31992217--31992391 Score: 199
Period size: 64 Copynumber: 2.8 Consensus size: 63
31992207 TTGCTACGAT
* ** ** * *
31992217 GCTATTGATGGATTTGTATCGATCATATTACCGTTACTGATGGCTTTGTGTTGGTCATATTACC
1 GCTATTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGG-TTTGTGCCGATCATATCACC
* * *
31992281 GTTATTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGTTTTATGCCGATCATATCACT
1 GCTATTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGG-TTTGTGCCGATCATATCACC
* * * *
31992345 GCTATTGATGGCTTTGTGCCAATAATATTACAG-TACTTATGGTTTGT
1 GCTATTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGTTTGT
31992392 AGCCATTCTG
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 4 0.04
63 8 0.09
64 82 0.87
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (63 bp):
GCTATTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGTTTGTGCCGATCATATCACC
Found at i:31997610 original size:324 final size:324
Alignment explanation
Indices: 31996999--31997633 Score: 818
Period size: 324 Copynumber: 2.0 Consensus size: 324
31996989 GGTGTTGCTA
* **
31996999 TTTCTCTTTTATTTTTAATAATAATTTTTGGCCATTTATTTTTCCTTTATTTTTGCAAGTATAGT
1 TTTCTCTTTTATTTTTAATAAT-ATTTTTGGCCATTTATTTTCCCTTTATTTTTGCAAGTATAAC
* * *
31997064 AGTTCCTTCCCCAGGTTCACAAGAAAAATAGGAAGGCAGACATCGTAGTAGGAACCTATAATGGT
65 AATTCCTTCCCCAGGTTCACAAGAAAAATAGGAAGGCAAACATCATAGTAGGAACCTATAATGGT
* * * * *
31997129 CGAGTAGACACAAAATAATGATGTGACATTAGTATTTATAACCCCTCTCAACCACACAATATTCA
130 CGAGTAAACACAAAATAAGGATGTGACATTAGTATTGATAACCCATCTCAACCACACAATAGTCA
* * * *
31997194 TAGTCAATGTGGGTCTATTCTGTAGGCCTTATCTTCACAAGTACTTGTTATTAGTATGTCGGTTC
195 TAGTCAATGTGGGTCTATTCTGTAAGCCTTACCTTCACAAGTACTTGTTATTAGCATGTCGATTC
31997259 ACAATCCTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTT-TATTTACTATTTCACATTGCC
260 ACAATCCTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTTCT-TTTACTATTTCACATTGCC
31997323 T
324 T
*
31997324 TTTCTCTTTTA-TTTTAAT-AT-TTTTTGGTCATTTATTTTCCCTTTCA-TTTTGCAAGTATAAC
1 TTTCTCTTTTATTTTTAATAATATTTTTGGCCATTTATTTTCCCTTT-ATTTTTGCAAGTATAAC
** * *
31997385 AATTCCTCATTCTTCAGGTTTACAAGTAAAAA-AGGAAGGTAAACATCATAGTAGGAACCTATAA
65 AATT-C-C-TTCCCCAGGTTCACAAG-AAAAATAGGAAGGCAAACATCATAGTAGGAACCTATAA
* * * *
31997449 TGGTCGGGTAAACACAGAAA-AAGGATGTGACATTAGTATTGATAATCCATCTCCACCACACTAT
126 TGGTCGAGTAAACACA-AAATAAGGATGTGACATTAGTATTGATAACCCATCTCAACCACACAAT
* * * * * *
31997513 AGTCACT-GTCGATGTTGGTTTATTTTGTAAGTCTTACCTTCACAAGTACTTGTTATTGGCATGT
190 AGTCA-TAGTCAATGTGGGTCTATTCTGTAAGCCTTACCTTCACAAGTACTTGTTATTAGCATGT
* * * **
31997577 TGATTCACAATCTTTCTAGCGAAATTTATTTTATTTCTAATTTGAACTTCTTTTACT
254 CGATTCACAATCCTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTTCTTTTACT
31997634 GTTTTGAAAT
Statistics
Matches: 267, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
321 38 0.14
322 2 0.01
323 3 0.01
324 203 0.76
325 21 0.08
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (324 bp):
TTTCTCTTTTATTTTTAATAATATTTTTGGCCATTTATTTTCCCTTTATTTTTGCAAGTATAACA
ATTCCTTCCCCAGGTTCACAAGAAAAATAGGAAGGCAAACATCATAGTAGGAACCTATAATGGTC
GAGTAAACACAAAATAAGGATGTGACATTAGTATTGATAACCCATCTCAACCACACAATAGTCAT
AGTCAATGTGGGTCTATTCTGTAAGCCTTACCTTCACAAGTACTTGTTATTAGCATGTCGATTCA
CAATCCTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTTCTTTTACTATTTCACATTGCCT
Found at i:32007686 original size:29 final size:29
Alignment explanation
Indices: 32007653--32007709 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
32007643 GACAGCAGAG
32007653 CAGGGGTAAGTTTGAAGATTTTACTATAA
1 CAGGGGTAAGTTTGAAGATTTTACTATAA
32007682 CAGGGGTAAGTTTGAAGATTTTACTATA
1 CAGGGGTAAGTTTGAAGATTTTACTATA
32007710 CTTATTGGTT
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:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (29 bp):
CAGGGGTAAGTTTGAAGATTTTACTATAA
Found at i:32014818 original size:22 final size:22
Alignment explanation
Indices: 32014785--32014830 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
32014775 ACTTATTGCC
*
32014785 ATCGATGTATTATGCTAATATA
1 ATCGATGTATTATGCCAATATA
32014807 ATCGAT-TGATTATGCCAATATA
1 ATCGATGT-ATTATGCCAATATA
32014829 AT
1 AT
32014831 TGAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (22 bp):
ATCGATGTATTATGCCAATATA
Found at i:32019184 original size:12 final size:12
Alignment explanation
Indices: 32019167--32019194 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32019157 GACAAAGTTA
32019167 CAACACTAGGCT
1 CAACACTAGGCT
32019179 CAACACTAGGCT
1 CAACACTAGGCT
32019191 CAAC
1 CAAC
32019195 CCATAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (12 bp):
CAACACTAGGCT
Found at i:32023928 original size:21 final size:21
Alignment explanation
Indices: 32023890--32023929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32023880 ATCCCTTGCC
* **
32023890 TTATTTTATTGTTTAATTTAT
1 TTATTTTATTATGAAATTTAT
32023911 TTATTTTATTATGAAATTT
1 TTATTTTATTATGAAATTT
32023930 TACTTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTTTATTATGAAATTTAT
Found at i:32024088 original size:18 final size:19
Alignment explanation
Indices: 32024065--32024112 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
32024055 TTTTTTCTCA
*
32024065 CTATTGTTATTAT-TTTAT
1 CTATTGTTATTATCATTAT
32024083 CTATTGTTATTATCATTAT
1 CTATTGTTATTATCATTAT
32024102 CTATT-TTATTA
1 CTATTGTTATTA
32024113 CAAATTGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (19 bp):
CTATTGTTATTATCATTAT
Found at i:32024298 original size:12 final size:12
Alignment explanation
Indices: 32024283--32024307 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32024273 TTATCATTGC
32024283 TATTATTTATTT
1 TATTATTTATTT
32024295 TATTATTTATTT
1 TATTATTTATTT
32024307 T
1 T
32024308 TTCCTTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:32030118 original size:10 final size:10
Alignment explanation
Indices: 32030103--32030132 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32030093 AGTACATATC
32030103 AATCACATTT
1 AATCACATTT
*
32030113 AATCACATTC
1 AATCACATTT
32030123 AATCACATTT
1 AATCACATTT
32030133 TATGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (10 bp):
AATCACATTT
Found at i:32032359 original size:220 final size:224
Alignment explanation
Indices: 32031951--32032362 Score: 602
Period size: 220 Copynumber: 1.8 Consensus size: 224
32031941 AAAACCTGAC
* * *
32031951 CAAATCCTCATATTTCAAACCACTAGAACCACATATACCAACTATCCCCAATGTTAGGACTCTAT
1 CAAATCCTCATATGTCAAACCACTAGAACCACATATACCAACCATCCCCAATGTTAGGAATCTAT
*
32032016 CCCCCATCAAACTCTTCTAATATTCAGTAACCACTATCCCCCCTCAACACACAATCCTTCTTTAC
66 CCCCCATCAAACTCTTCTAATATTCAG--A-CACTATCCCCCCTCAACACACAACCCTTCTTTAC
*
32032081 ACTCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGTACATAAAAAGAAAAGAAAGAAACAAA
128 ACTCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGGACATAAAAAGAAAAGAAAGAAACAAA
32032146 AAAAAAACCTACTTGACTTTGAAGTGAAAGAG
193 AAAAAAACCTACTTGACTTTGAAGTGAAAGAG
* *
32032178 CAAATCCTCAT-TCGTCAAA-CACTAGAACCACATATATCAACCATCTCCAATGTT-GGAAATCT
1 CAAATCCTCATAT-GTCAAACCACTAGAACCACATATACCAACCATCCCCAATGTTAGG-AATCT
* * * * *
32032240 A-GCCCCATCAAACTTTTCTACTATTCAG-CTC-ATCCCCCCTCAACCCACAACCCTTCTTTACA
64 ATCCCCCATCAAACTCTTCTAATATTCAGACACTATCCCCCCTCAACACACAACCCTTCTTTACA
* * *
32032302 CTCGAAACCAACTCAAGCTCGACAATCATACAAGAAGGGCATACAAAGAAAAGAAAGAAAC
129 CTCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGGACATAAAAAGAAAAGAAAGAAAC
32032363 CAAATAATAA
Statistics
Matches: 168, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
220 86 0.51
221 2 0.01
225 26 0.15
226 38 0.23
227 16 0.10
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (224 bp):
CAAATCCTCATATGTCAAACCACTAGAACCACATATACCAACCATCCCCAATGTTAGGAATCTAT
CCCCCATCAAACTCTTCTAATATTCAGACACTATCCCCCCTCAACACACAACCCTTCTTTACACT
CGAAACCAACTCAAGCTCGAAAATCATACAAGAAGGACATAAAAAGAAAAGAAAGAAACAAAAAA
AAAACCTACTTGACTTTGAAGTGAAAGAG
Found at i:32041726 original size:25 final size:24
Alignment explanation
Indices: 32041677--32041731 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
32041667 TTATTAAATT
32041677 ATATATTTTAATTATAATATATTTA
1 ATATATTTTAATTAT-ATATATTTA
*
32041702 ATATATTTAATAATTAT-TATGTTTA
1 ATATATTT--TAATTATATATATTTA
32041727 A-ATAT
1 ATATAT
32041732 GATTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 16 0.59
27 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATATTTTAATTATATATATTTA
Found at i:32041958 original size:45 final size:44
Alignment explanation
Indices: 32041869--32041963 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
32041859 TTACACCTCT
* *
32041869 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACCTCTATTCC
*
32041913 ATTACATTCAACCAAACA-ATTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACA--GATTTACTATTACACCTCTATTCC
32041958 ATTACA
1 ATTACA
32041964 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.39
45 27 0.59
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACCTCTATTCC
Found at i:32041963 original size:16 final size:16
Alignment explanation
Indices: 32041944--32041995 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
32041934 GATTTGCTAT
* *
32041944 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
32041960 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32041976 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32041992 TACA
1 TACA
32041996 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:32042916 original size:17 final size:16
Alignment explanation
Indices: 32042888--32042940 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
32042878 TTTGGTTCGC
32042888 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32042904 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
32042921 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32042937 TGTA
1 TGTA
32042941 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:32043004 original size:44 final size:45
Alignment explanation
Indices: 32042921--32043011 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
32042911 GGATTAGAGG
* * *
32042921 TGTATTGGATTAGAGGTGTAATAGCTAATCTACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCTACTGTTTGGTTGAA
**
32042966 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCTACTGTTTGGTTGAA
32043010 TG
1 TG
32043012 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCTACTGTTTGGTTGAA
Found at i:32043026 original size:39 final size:43
Alignment explanation
Indices: 32042921--32043034 Score: 128
Period size: 45 Copynumber: 2.7 Consensus size: 43
32042911 GGATTAGAGG
* *
32042921 TGTATTGGATTAGAGGTGTAATAGCTAATCTACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCTAATCTACTGTTTGGTT--A
* **
32042966 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCTAATCTACTGTTTGGTTA
32043006 TG-AATGGAATAGAGGTGTAATAGCATAAT
1 TGTAATGGAATAGAGGTGTAATAGC-TAAT
32043035 GGAAAAAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 20 0.33
40 2 0.03
41 4 0.07
43 1 0.02
44 13 0.21
45 21 0.34
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCTAATCTACTGTTTGGTTA
Found at i:32043197 original size:18 final size:19
Alignment explanation
Indices: 32043176--32043212 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
32043166 TTATTATTAA
32043176 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
32043194 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
32043213 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:32043319 original size:59 final size:58
Alignment explanation
Indices: 32043156--32043439 Score: 161
Period size: 59 Copynumber: 4.7 Consensus size: 58
32043146 TTAATCATAT
* * * *
32043156 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATAT-A-A-TTTATAATAAAA
1 TTTAA-ATAATTATTATTAAATATATTTTAATAAAAATATATGATACTATAAAATATAA
* * * * * *
32043212 TTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAATATA
1 TT-TAAATAAT---TATTATTAAATATATTT--T--AATAAAAATATATGATACTATAAAATATA
32043277 A
58 A
* * * *
32043278 TTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGAT-TTAATAAAATTCTTAA
1 TTT-AAATAATTATTATTAAATATATTTTAATAAAAATATATGATACT-ATAAAA-T-ATAA
* * * *
32043339 TATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCATAATATATAATACTATAAAATATAA
1 T-TTAAATAATTATTAT-TAAATATATTTTAATAA--A-AATATATGATACTATAAAATATAA
**
32043398 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATAAAAATATAT
32043440 AATTTATCAT
Statistics
Matches: 171, Mismatches: 31, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
56 7 0.04
57 2 0.01
58 6 0.04
59 56 0.33
60 19 0.11
61 32 0.19
62 5 0.03
63 24 0.14
64 1 0.01
65 2 0.01
66 17 0.10
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (58 bp):
TTTAAATAATTATTATTAAATATATTTTAATAAAAATATATGATACTATAAAATATAA
Found at i:32043377 original size:120 final size:120
Alignment explanation
Indices: 32043156--32043445 Score: 447
Period size: 120 Copynumber: 2.4 Consensus size: 120
32043146 TTAATCATAT
32043156 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
32043221 ATCAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
32043278 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
32043342 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
32043398 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
32043446 TCATCATACT
Statistics
Matches: 153, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
119 2 0.01
120 108 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:32057930 original size:22 final size:22
Alignment explanation
Indices: 32057899--32057940 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32057889 AGTTTCCATA
*
32057899 TCATATAATAAAAAGACCAACT
1 TCATACAATAAAAAGACCAACT
* *
32057921 TCATACAATAACAAGGCCAA
1 TCATACAATAAAAAGACCAA
32057941 ATTTTTCGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.19
Consensus pattern (22 bp):
TCATACAATAAAAAGACCAACT
Found at i:32063282 original size:37 final size:37
Alignment explanation
Indices: 32063238--32063314 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
32063228 AAATGTTAGT
*
32063238 ATTGTCAAAATTCTTTTATTAAATTAATTATTGTTAC
1 ATTGTCAAAATTCTTTTATTAAATTAATTATTGTGAC
*
32063275 ATTGTCAAAATTCTTTTATTAAATTTATTATTGTGAC
1 ATTGTCAAAATTCTTTTATTAAATTAATTATTGTGAC
32063312 ATT
1 ATT
32063315 TTGACAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (37 bp):
ATTGTCAAAATTCTTTTATTAAATTAATTATTGTGAC
Found at i:32065510 original size:27 final size:25
Alignment explanation
Indices: 32065458--32065521 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 25
32065448 TTTTAAATTT
*
32065458 AAAAAAT-AAAAAATTAAATTCCTA
1 AAAAAATAAAAAAATTAAATTCATA
*
32065482 AAAAAATAAAAATAATTTAAATTTATA
1 AAAAAATAAAAA-AA-TTAAATTCATA
*
32065509 AAATATATAAAAA
1 AAA-AAATAAAAA
32065522 CCAACACCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 7 0.21
25 4 0.12
26 2 0.06
27 12 0.36
28 8 0.24
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAAATAAAAAAATTAAATTCATA
Found at i:32068982 original size:24 final size:25
Alignment explanation
Indices: 32068955--32069001 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
32068945 AATTTCAGAC
32068955 ATGTTT-TTACAATAGG-TATAATTA
1 ATGTTTGTTA-AATAGGATATAATTA
*
32068979 ATGTTTGTTAAATTGGATATAAT
1 ATGTTTGTTAAATAGGATATAAT
32069002 CCCTGGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (25 bp):
ATGTTTGTTAAATAGGATATAATTA
Done.