Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 72 of 125
Found at i:14296357 original size:21 final size:21
Alignment explanation
Indices: 14296331--14296370 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14296321 ATGCAAGCCC
*
14296331 TAATCAATAAGTATTAAACTG
1 TAATCAATAAGTACTAAACTG
14296352 TAATCAATAAGTACTAAAC
1 TAATCAATAAGTACTAAAC
14296371 CAAATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (21 bp):
TAATCAATAAGTACTAAACTG
Found at i:14296443 original size:16 final size:16
Alignment explanation
Indices: 14296422--14296452 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14296412 ATTACCCTAA
14296422 AAATGAAATAAAAAAC
1 AAATGAAATAAAAAAC
14296438 AAATGAAATAAAAAA
1 AAATGAAATAAAAAA
14296453 TAAGTGCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (16 bp):
AAATGAAATAAAAAAC
Found at i:14306903 original size:35 final size:35
Alignment explanation
Indices: 14306856--14306925 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
14306846 TTACAATCAC
* *
14306856 TAACTTTTAAGGCCACGGTATAACCTCTAAAACCT
1 TAACTTTCAAGGCCAAGGTATAACCTCTAAAACCT
* *
14306891 TAACTTTCAAGGCCAATGTATGACCTCTAAAACCT
1 TAACTTTCAAGGCCAAGGTATAACCTCTAAAACCT
14306926 ACCATACAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (35 bp):
TAACTTTCAAGGCCAAGGTATAACCTCTAAAACCT
Found at i:14307686 original size:17 final size:19
Alignment explanation
Indices: 14307650--14307686 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14307640 CTCTCTTTAG
*
14307650 TTTAGGTTCTCTTTAGTTT
1 TTTAGGTTCTCTTTACTTT
14307669 TTTAGGTTCT-TTT-CTTT
1 TTTAGGTTCTCTTTACTTT
14307686 T
1 T
14307687 CATTTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 3 0.18
19 10 0.59
ACGTcount: A:0.08, C:0.11, G:0.14, T:0.68
Consensus pattern (19 bp):
TTTAGGTTCTCTTTACTTT
Found at i:14318064 original size:5 final size:5
Alignment explanation
Indices: 14318047--14318083 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
14318037 TACCTTGATC
*
14318047 TTTGT CTTG- TTTGT TTTGT TTTGT TTTGT TTTGT TTT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTT
14318084 AGGAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.00, C:0.03, G:0.19, T:0.78
Consensus pattern (5 bp):
TTTGT
Found at i:14319862 original size:37 final size:37
Alignment explanation
Indices: 14319821--14319891 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
14319811 AGATATTGTC
* *
14319821 TTAAATGTTGATTT-GCCAAAT-CCCTCGGATATGGACT
1 TTAAATGTAG-TTTAGCCAAATACCC-CAGATATGGACT
14319858 TTAAATGTAGTTTAGCCAAATACCCCAGATATGG
1 TTAAATGTAGTTTAGCCAAATACCCCAGATATGG
14319892 TATTCAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.10
37 24 0.80
38 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (37 bp):
TTAAATGTAGTTTAGCCAAATACCCCAGATATGGACT
Found at i:14327740 original size:136 final size:136
Alignment explanation
Indices: 14327568--14327839 Score: 368
Period size: 136 Copynumber: 2.0 Consensus size: 136
14327558 AGAGATTATT
* * * * *
14327568 TTGATAATCTCTTTAATGGCAATTTTGAGTATGATATAGGTAGGCTT-GACATACCTTTTAAAGA
1 TTGATAATATCTTTAATGGCAATTTTAAGCAAGATATAGGTAGGCTTAG-CATACATTTTAAAGA
* * *
14327632 TGTAAATCA-TATGTTTAAATAGAATATTAAAAGATATGAGCTTAAAGAGACTAAGAAAGACGAA
65 TATAAAT-AGTATGTTTAAATAGAATATTAAAAGACATGAGCTTAAAGAGACTAAAAAAGACGAA
14327696 AGCAAAGA
129 AGCAAAGA
* * * * *
14327704 TTGATAGTATCTTTAATGGTAATTTTAAGCAAGATATAGGTGGGCTTAGCATATATTTTAAGGAT
1 TTGATAATATCTTTAATGGCAATTTTAAGCAAGATATAGGTAGGCTTAGCATACATTTTAAAGAT
* * *
14327769 ATAAATAGTGTGTTTAAATAGAATATTAAAAGACATGAGGTTAAAGAGACTAAAAAAGATGAAAG
66 ATAAATAGTATGTTTAAATAGAATATTAAAAGACATGAGCTTAAAGAGACTAAAAAAGACGAAAG
14327834 CAAAGA
131 CAAAGA
14327840 AAGCTGTAGG
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
135 1 0.01
136 116 0.98
137 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (136 bp):
TTGATAATATCTTTAATGGCAATTTTAAGCAAGATATAGGTAGGCTTAGCATACATTTTAAAGAT
ATAAATAGTATGTTTAAATAGAATATTAAAAGACATGAGCTTAAAGAGACTAAAAAAGACGAAAG
CAAAGA
Found at i:14329134 original size:16 final size:16
Alignment explanation
Indices: 14329113--14329144 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14329103 AATCTACCAC
14329113 CTAAAGGTTTAAGTTT
1 CTAAAGGTTTAAGTTT
14329129 CTAAAGGTTTAAGTTT
1 CTAAAGGTTTAAGTTT
14329145 TCAAGAGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
CTAAAGGTTTAAGTTT
Found at i:14331332 original size:26 final size:27
Alignment explanation
Indices: 14331291--14331364 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
14331281 AATAATTACA
* * *
14331291 CCAAGAATTCATTGAATCATTGATTCCT
1 CCAA-AATTCATTGAATCATTAACTACT
* *
14331319 -CAAAATTCATTGAAACTTTAACTACT
1 CCAAAATTCATTGAATCATTAACTACT
*
14331345 CCAAAATTCATTAAATCATT
1 CCAAAATTCATTGAATCATT
14331365 TACTTATACT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.35
Consensus pattern (27 bp):
CCAAAATTCATTGAATCATTAACTACT
Found at i:14333695 original size:32 final size:32
Alignment explanation
Indices: 14333650--14333710 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
14333640 CATAAAGAAG
* *
14333650 CAAGAAAATTAAATAACTTGAAAATTAAATTA
1 CAAGAAAAGTAAATAACATGAAAATTAAATTA
* *
14333682 CAAGTAAAGTAAATAACATGATAATTAAA
1 CAAGAAAAGTAAATAACATGAAAATTAAA
14333711 ATTGCATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.08, T:0.26
Consensus pattern (32 bp):
CAAGAAAAGTAAATAACATGAAAATTAAATTA
Found at i:14333723 original size:16 final size:17
Alignment explanation
Indices: 14333698--14333746 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
14333688 AAGTAAATAA
*
14333698 CATGATAATTAAAATTG
1 CATGAAAATTAAAATTG
*
14333715 CAT-AAAATTTAAATTG
1 CATGAAAATTAAAATTG
*
14333731 CTTGAAAATATAAAAT
1 CATGAAAAT-TAAAAT
14333747 GAATGTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 13 0.50
17 8 0.31
18 5 0.19
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (17 bp):
CATGAAAATTAAAATTG
Found at i:14344947 original size:22 final size:21
Alignment explanation
Indices: 14344921--14344971 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
14344911 TTATTTATAA
14344921 AAAATTTAATAAATTAAAATTTT
1 AAAATTTAAT-AATTAAAA-TTT
* * *
14344944 AAATTTTAATATTTGAAATTT
1 AAAATTTAATAATTAAAATTT
14344965 AAAATTT
1 AAAATTT
14344972 TATTCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAATTTAATAATTAAAATTT
Found at i:14344952 original size:15 final size:14
Alignment explanation
Indices: 14344930--14344973 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
14344920 AAAAATTTAA
14344930 TAAA-TTAAAATTT
1 TAAATTTAAAATTT
*
14344943 TAAATTTTAATATTT
1 TAAA-TTTAAAATTT
*
14344958 GAAATTTAAAATTT
1 TAAATTTAAAATTT
14344972 TA
1 TA
14344974 TTCTCAGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 4 0.16
14 10 0.40
15 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TAAATTTAAAATTT
Found at i:14347130 original size:14 final size:15
Alignment explanation
Indices: 14347111--14347139 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14347101 TTATTTTTTC
14347111 AAAAGG-ATTAAAAT
1 AAAAGGAATTAAAAT
14347125 AAAAGGAATTAAAAT
1 AAAAGGAATTAAAAT
14347140 TAAATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (15 bp):
AAAAGGAATTAAAAT
Found at i:14348368 original size:20 final size:20
Alignment explanation
Indices: 14348328--14348385 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
14348318 GGTTAAAGGG
* *
14348328 TTAGGTTTTAACTTT-GATT
1 TTAGGGTTTAACTTTGGTTT
14348347 TTAGGGTTTAACTTTGGTTT
1 TTAGGGTTTAACTTTGGTTT
*
14348367 TTAGGGTTTGACTTTGGTT
1 TTAGGGTTTAACTTTGGTT
14348386 GTTTGGGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.16, C:0.05, G:0.24, T:0.55
Consensus pattern (20 bp):
TTAGGGTTTAACTTTGGTTT
Found at i:14348472 original size:13 final size:13
Alignment explanation
Indices: 14348454--14348496 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
14348444 TTAGTGTTTT
14348454 GATTTAGGTTTAG
1 GATTTAGGTTTAG
*
14348467 GGTTTAGGGTTT-G
1 GATTTA-GGTTTAG
*
14348480 GATTTAGGTTTAC
1 GATTTAGGTTTAG
14348493 GATT
1 GATT
14348497 CAAGGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 5 0.20
13 15 0.60
14 5 0.20
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (13 bp):
GATTTAGGTTTAG
Found at i:14348503 original size:26 final size:26
Alignment explanation
Indices: 14348449--14348504 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
14348439 TTGCTTTAGT
* * * * *
14348449 GTTTTGATTTAGGTTTAGGGTTTAGG
1 GTTTGGATTTAGGTTTACGATTCAAG
14348475 GTTTGGATTTAGGTTTACGATTCAAG
1 GTTTGGATTTAGGTTTACGATTCAAG
14348501 GTTT
1 GTTT
14348505 AAAGTTAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.04, G:0.30, T:0.48
Consensus pattern (26 bp):
GTTTGGATTTAGGTTTACGATTCAAG
Found at i:14348561 original size:21 final size:20
Alignment explanation
Indices: 14348500--14348566 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
14348490 TACGATTCAA
*
14348500 GGTTTAAAGTTAAGGGTTAG
1 GGTTTAAGGTTAAGGGTTAG
*
14348520 GGTTTTAAGGTTAAGGCTTAG
1 GG-TTTAAGGTTAAGGGTTAG
* *
14348541 GGTTTACGGTTTTAGGGTTAG
1 GGTTTAAGG-TTAAGGGTTAG
*
14348562 AGTTT
1 GGTTT
14348567 TGATTGCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
20 8 0.21
21 31 0.79
ACGTcount: A:0.22, C:0.03, G:0.34, T:0.40
Consensus pattern (20 bp):
GGTTTAAGGTTAAGGGTTAG
Found at i:14360817 original size:17 final size:16
Alignment explanation
Indices: 14360795--14360836 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14360785 GTGGAGCTTG
* *
14360795 AAAAAGAATGGGAAAAC
1 AAAAAGAA-AGGAAAAA
14360812 AAAAAGAAAGGAAAAA
1 AAAAAGAAAGGAAAAA
14360828 AAAAAGAAA
1 AAAAAGAAA
14360837 AAGAAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAGGAAAAA
Found at i:14363690 original size:14 final size:14
Alignment explanation
Indices: 14363659--14363707 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
14363649 AAGTTTTGGG
* *
14363659 TTAAGGCTTAAAGC
1 TTAAGGCTTAAGGT
*
14363673 TTAAGGCTGAAGGT
1 TTAAGGCTTAAGGT
14363687 TTAAGG-TTAAGGT
1 TTAAGGCTTAAGGT
*
14363700 TTAGGGCT
1 TTAAGGCT
14363708 AATGTTTAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.33
Consensus pattern (14 bp):
TTAAGGCTTAAGGT
Found at i:14363727 original size:13 final size:13
Alignment explanation
Indices: 14363682--14363771 Score: 65
Period size: 13 Copynumber: 6.8 Consensus size: 13
14363672 CTTAAGGCTG
*
14363682 AAGGTTTAAGGTT
1 AAGGTTTAGGGTT
*
14363695 AAGGTTTAGGGCT
1 AAGGTTTAGGGTT
*
14363708 AATGTTTAGGGTT
1 AAGGTTTAGGGTT
*
14363721 -AGAGTTTAGAGTAT
1 AAG-GTTTAGGGT-T
* *
14363735 GAGGTTTAGGATTT
1 AAGGTTTAGG-GTT
* *
14363749 AAGGTTAAGGTTT
1 AAGGTTTAGGGTT
*
14363762 AAGCTTTAGG
1 AAGGTTTAGG
14363772 CTTGAGGGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
12 1 0.02
13 41 0.67
14 16 0.26
15 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.38
Consensus pattern (13 bp):
AAGGTTTAGGGTT
Found at i:14363821 original size:13 final size:13
Alignment explanation
Indices: 14363805--14363836 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14363795 AATTTTATGT
14363805 TTAAGGTTTAGAG
1 TTAAGGTTTAGAG
*
14363818 TTAAGGTTTAGGG
1 TTAAGGTTTAGAG
14363831 TTAAGG
1 TTAAGG
14363837 GGTTATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (13 bp):
TTAAGGTTTAGAG
Found at i:14363910 original size:13 final size:15
Alignment explanation
Indices: 14363879--14363915 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
14363869 AGGGTTATGG
14363879 TAAAGTGTTTTAGGTT
1 TAAAG-GTTTTAGGTT
14363895 T-AAGGTTTTA-GTT
1 TAAAGGTTTTAGGTT
14363908 TAAAGGTT
1 TAAAGGTT
14363916 AAGGTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 12 0.60
15 3 0.15
16 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (15 bp):
TAAAGGTTTTAGGTT
Found at i:14363930 original size:35 final size:35
Alignment explanation
Indices: 14363851--14363930 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
14363841 ATGGCTTTTA
* *
14363851 TTTTAGGGTTAAAGGTTTAGGGTTATGGTAAAGTG
1 TTTTAGGGTTTAAGGTTTAGGGTTAAGGTAAAGTG
* *
14363886 TTTTA-GGTTTAAGGTTTTA-GTTTAAAGGTTAAG-G
1 TTTTAGGGTTTAAGG-TTTAGGGTT-AAGGTAAAGTG
14363920 TTTTAGGGTTT
1 TTTTAGGGTTT
14363931 CACTTTGTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
34 17 0.45
35 21 0.55
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (35 bp):
TTTTAGGGTTTAAGGTTTAGGGTTAAGGTAAAGTG
Found at i:14372286 original size:157 final size:157
Alignment explanation
Indices: 14372018--14372567 Score: 560
Period size: 157 Copynumber: 3.5 Consensus size: 157
14372008 TGTAAAGTAA
** * *
14372018 AAACTATTGCATAACTTATTTTGTGATTTT-GCTTGTGTATTGTGATTGTTCATGAAA-TAGATA
1 AAACTATTGCATAACTTGCTTTGTGATTTTGGC-TGTATATTGTGATTGTTGATGAAATTAGATA
* * *
14372081 GTGTACTAATTGAAAAACTAAACATTGCGGGATGAATGATATTGAACTATATAGTGTTTTGTGCT
65 GTGTAGTAATTG-AAAACTAAACATTGCAGGACGAATGATATTGAACTATATAGTGTTTTGTGCT
* * * *
14372146 TGTCGTGATGGAATGACTTTTGTGAAGGTG
129 TATTGAGATGAAATGA-TTTTGTGAAGGTG
*
14372176 -AACTATTGCATAACTTGCTTTGTGATTTTGGCTGTATATTGTGATTATTGAT-AAATTAGATAG
1 AAACTATTGCATAACTTGCTTTGTGATTTTGGCTGTATATTGTGATTGTTGATGAAATTAGATAG
* * * * * * * *
14372239 TGTTGTAATTGAAAGACTAAACATTGTAAGACGAACGGTATTAAACTATATAGTGTTTTATGTTT
66 TGTAGTAATTGAAA-ACTAAACATTGCAGGACGAATGATATTGAACTATATAGTGTTTTGTGCTT
* *
14372304 ATTGAGATGTAATGATTTTGAGAAGGTG
130 ATTGAGATGAAATGATTTTGTGAAGGTG
* * * * *
14372332 AAAACTATTGCATAACTTGCTTTGTTATTCTAG-T-TATGCATTGTGATTGTTTATGAAGTT-GA
1 -AAACTATTGCATAACTTGCTTTGTGATTTTGGCTGTAT--ATTGTGATTGTTGATGAAATTAGA
* * * *
14372394 TAATGTAGTAATTGGAAAACTAAACATTGCAGGGCGATTGATGTTGAACTATAT-GTGTTTTGTG
63 TAGTGTAGTAATT-GAAAACTAAACATTGCAGGACGAATGATATTGAACTATATAGTGTTTTGTG
*
14372458 CTTATTGAGATGAAATGATTTTTTGAAGGTG
127 CTTATTGAGATGAAATGATTTTGTGAAGGTG
* * * * * * ** * * * *
14372489 AAAACTATTACTTAATTTGTTTTTTGATTATGATTGTGTATTATGATTGTTGATG-AATCAAATA
1 -AAACTATTGCATAACTTGCTTTGTGATTTTGGCTGTATATTGTGATTGTTGATGAAATTAGATA
14372553 GTGTAGTAATTGAAA
65 GTGTAGTAATTGAAA
14372568 TCCTAAAAAC
Statistics
Matches: 322, Mismatches: 58, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
156 27 0.08
157 200 0.62
158 85 0.26
159 10 0.03
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (157 bp):
AAACTATTGCATAACTTGCTTTGTGATTTTGGCTGTATATTGTGATTGTTGATGAAATTAGATAG
TGTAGTAATTGAAAACTAAACATTGCAGGACGAATGATATTGAACTATATAGTGTTTTGTGCTTA
TTGAGATGAAATGATTTTGTGAAGGTG
Found at i:14373425 original size:143 final size:141
Alignment explanation
Indices: 14373228--14373496 Score: 328
Period size: 143 Copynumber: 1.9 Consensus size: 141
14373218 ATATCTTGAA
* * * **
14373228 AGGTGTGAAATTACTAGAATACTTTTTAGGGGTATTTTTGTAATTTAATGTTTTTAAGGTCA-AT
1 AGGTGAGAAATTACTAAAATACTTTTTAGGGGTATTTCTGTAATTTAACCTTTTTAAGGTCAGA-
** * * *
14373292 TTTTCATGAATCTTTTCAGATCAT-AATTTTATAATATTTGATGATTTTTGGTGAATTCAAAATC
65 TTTTCATGAAAATTTTCAAATC-TCAATTTCATAATATTTCATGATTTTTGGTG-ATTCAAAATC
14373356 ACAATAGTGCCAGG
128 ACAATAGTGCCAGG
* * * *
14373370 AGGTGAGAAATTA-TCAAAATACCTTTTTAGGGTTATTTCTGTAATTTGACCTTTTTGAGGTTAG
1 AGGTGAGAAATTACT-AAAATA-CTTTTTAGGGGTATTTCTGTAATTTAACCTTTTTAAGGTCAG
* *
14373434 ATTTTCATGAAAATTTTCAAATCTCAATTTCATAGTATTTCATGATTTTTTGTGATTCAAAAT
64 ATTTTCATGAAAATTTTCAAATCTCAATTTCATAATATTTCATGATTTTTGGTGATTCAAAAT
14373497 TCCAAAAATG
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
141 1 0.01
142 27 0.25
143 78 0.73
144 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (141 bp):
AGGTGAGAAATTACTAAAATACTTTTTAGGGGTATTTCTGTAATTTAACCTTTTTAAGGTCAGAT
TTTCATGAAAATTTTCAAATCTCAATTTCATAATATTTCATGATTTTTGGTGATTCAAAATCACA
ATAGTGCCAGG
Found at i:14375224 original size:13 final size:13
Alignment explanation
Indices: 14375208--14375248 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
14375198 TTGACACACC
14375208 AAATCCAAACCCT
1 AAATCCAAACCCT
* *
14375221 AAATCAAAATCCT
1 AAATCCAAACCCT
14375234 AAAT-CAAACCCT
1 AAATCCAAACCCT
14375246 AAA
1 AAA
14375249 AACAAAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATCCAAACCCT
Found at i:14375358 original size:19 final size:20
Alignment explanation
Indices: 14375334--14375391 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
14375324 AAATCCAATC
*
14375334 CCTAAACCCTAAGCCTAAG-
1 CCTAAACCCTAACCCTAAGT
*
14375353 CCTAAAACCTAACCCTAAGT
1 CCTAAACCCTAACCCTAAGT
*
14375373 CCTAAACCTTAAACCCTAA
1 CCTAAACCCT-AACCCTAA
14375392 AACTTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
20 8 0.24
21 8 0.24
ACGTcount: A:0.40, C:0.36, G:0.05, T:0.19
Consensus pattern (20 bp):
CCTAAACCCTAACCCTAAGT
Found at i:14383610 original size:31 final size:31
Alignment explanation
Indices: 14383575--14383634 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
14383565 GCCCGGATGC
14383575 TTTCATGAAGGAGAATTAGTCCTAAAGAGAA
1 TTTCATGAAGGAGAATTAGTCCTAAAGAGAA
* *
14383606 TTTCATGAAGGGGAATTAGTCTTAAAGAG
1 TTTCATGAAGGAGAATTAGTCCTAAAGAG
14383635 GATATTGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (31 bp):
TTTCATGAAGGAGAATTAGTCCTAAAGAGAA
Found at i:14383821 original size:13 final size:12
Alignment explanation
Indices: 14383801--14383831 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
14383791 TAATACACCT
14383801 AAAAAAAGAAAA
1 AAAAAAAGAAAA
14383813 AAGAAAAAGAAAA
1 AA-AAAAAGAAAA
14383826 AAAAAA
1 AAAAAA
14383832 GAGAGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:14385284 original size:16 final size:16
Alignment explanation
Indices: 14385257--14385301 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
14385247 TTTTCTTTGA
*
14385257 AAAAAAATAAAAAACC
1 AAAAAACTAAAAAACC
*
14385273 -AAAAACTAAAAACCC
1 AAAAAACTAAAAAACC
14385288 AAAAAACTAAAAAA
1 AAAAAACTAAAAAA
14385302 ATCCTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAAACTAAAAAACC
Found at i:14385465 original size:47 final size:47
Alignment explanation
Indices: 14385396--14385578 Score: 201
Period size: 47 Copynumber: 3.9 Consensus size: 47
14385386 ATAGATCAAC
* *
14385396 CCTTTTCTAGATAGATTTTTTAAAGTTTGAAGCCTATTTTATAGGAG
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGGAG
* * *
14385443 CCTTTTCCCA-ATAGGTTTTTTAAAGGTTGATGCCTA-TTTATAGAAG
1 CCTTTT-CCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGGAG
* * * *
14385489 -CTCTTTCCATACAGATTTTTTAAAGTTTGATGTCTATTTTGTAGGAG
1 CCT-TTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGGAG
* ** * *
14385536 CCCTTTATAGATAGATATTTTAAAGTTTCATGCCTATTTTATA
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATA
14385579 AAAGCCAGAT
Statistics
Matches: 111, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 5 0.05
46 34 0.31
47 69 0.62
48 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (47 bp):
CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGGAG
Found at i:14385569 original size:93 final size:92
Alignment explanation
Indices: 14385408--14385739 Score: 325
Period size: 93 Copynumber: 3.7 Consensus size: 92
14385398 TTTTCTAGAT
* * * * * *
14385408 AGATTTTTTAAAGTTTGAAGCCTATTTTATAGGAGCCTTTTCCCA-ATAGGTTTTTTAAAGGTTG
1 AGATTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCCTTT-CTAGATAGATATTTTAAAGTTTG
14385472 ATGCCTA-TTTATAGAAGCTCTTTCCATAC
65 ATGCCTATTTTATAGAAG-TCTTTCCA-AC
* * * *
14385501 AGATTTTTTAAAGTTTGATGTCTATTTTGTAGGAGCCCTTTATAGATAGATATTTTAAAGTTTCA
1 AGATTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCCTTTCTAGATAGATATTTTAAAGTTTGA
*
14385566 TGCCTATTTTATAAAAG------C--C
66 TGCCTATTTTATAGAAGTCTTTCCAAC
* *
14385585 AGATTTTTTAAAGTTTGATGCCTATTTTAT-GGAAGCCCTTTCTAGACA-A-ACTTTTACAGTTT
1 AGATTTTTTAAAGTTTGATGCCTATTTTATAGG-AGCCCTTTCTAGATAGATA-TTTTAAAGTTT
** *
14385647 GATGCCTATTTTATAGGGGTCTTTCCCAAAT
64 GATGCCTATTTTATAGAAGTCTTT-CC-AAC
* *
14385678 AGATTTTTTAAAGTTTGATG--TATTTTATAGGAGCCCTTTTTTAGATAGATTTTTTAAAGTTT
1 AGATTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCC-TTTCTAGATAGATATTTTAAAGTTT
14385740 ATTTTATATG
Statistics
Matches: 196, Mismatches: 25, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
82 1 0.01
83 28 0.14
84 42 0.21
87 1 0.01
90 1 0.01
91 13 0.07
92 11 0.06
93 90 0.46
94 9 0.05
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (92 bp):
AGATTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCCTTTCTAGATAGATATTTTAAAGTTTGA
TGCCTATTTTATAGAAGTCTTTCCAAC
Found at i:14385691 original size:130 final size:128
Alignment explanation
Indices: 14385458--14385706 Score: 295
Period size: 130 Copynumber: 1.9 Consensus size: 128
14385448 TCCCAATAGG
* * ** *
14385458 TTTTTTAAAGGTTGATGCCTATTTATAGAAGCTCTTTCCATACAGATTTTTTAAAGTTTGATGTC
1 TTTTTTAAAGGTTGATGCCTATTTATAGAAGCCCTTTCCAGACAGAACTTTTAAAGTTTGATGCC
* * *
14385523 TATTTTGTAGGAGCCCTTTATAGATAGATATTTTAAAGTTTCATGCCTATTTTATAAAAGCCAGA
66 TATTTTATAGGAGCCCTTTACAAATAGATATTTTAAAGTTTCATG--TATTTTATAAAAGCCAGA
* * * *
14385588 TTTTTTAAAGTTTGATGCCTATTTTATGGAAGCCCTTTCTAGACA-AACTTTTACAGTTTGATGC
1 TTTTTTAAAGGTTGATGCCTA-TTTATAGAAGCCCTTTCCAGACAGAACTTTTAAAGTTTGATGC
** * * *
14385652 CTATTTTATAGG-GGTCTTTCCCAAATAGATTTTTTAAAGTTTGATGTATTTTATA
65 CTATTTTATAGGAGCCCTTT-ACAAATAGATATTTTAAAGTTTCATGTATTTTATA
14385707 GGAGCCCTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
128 9 0.09
129 5 0.05
130 67 0.67
131 19 0.19
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (128 bp):
TTTTTTAAAGGTTGATGCCTATTTATAGAAGCCCTTTCCAGACAGAACTTTTAAAGTTTGATGCC
TATTTTATAGGAGCCCTTTACAAATAGATATTTTAAAGTTTCATGTATTTTATAAAAGCCAGA
Found at i:14385737 original size:46 final size:47
Alignment explanation
Indices: 14385585--14385844 Score: 179
Period size: 46 Copynumber: 5.7 Consensus size: 47
14385575 TATAAAAGCC
*
14385585 AGATTTTTTAAAGTTTGATGCCTATTTTAT-GGAAGCCC-TTTCTAGAC
1 AGATTTTTTAAAGTTTGATG-CTATTTTATAGG-AGCCCTTTTCTAGAT
** * ** * * *
14385632 A-AACTTTTACAGTTTGATGCCTATTTTATAGG-GGTCTTTCCCAAAT
1 AGATTTTTTAAAGTTTGATG-CTATTTTATAGGAGCCCTTTTCTAGAT
*
14385678 AGATTTTTTAAAGTTTGATG-TATTTTATAGGAGCCCTTTTTTAGAT
1 AGATTTTTTAAAGTTTGATGCTATTTTATAGGAGCCCTTTTCTAGAT
* *
14385724 AGATTTTTTAAAG--T--T--TATTTTATATGAGCCC-TTTCTAGGT
1 AGATTTTTTAAAGTTTGATGCTATTTTATAGGAGCCCTTTTCTAGAT
** * * * *
14385764 AGA-CATTTAAATTTTGATGCCTATTTTATAGGAGGCTTTTTC-ATAT
1 AGATTTTTTAAAGTTTGATG-CTATTTTATAGGAGCCCTTTTCTAGAT
* * * *
14385810 AAACTTTTTATAGATTGATGTCTATTTTATAGGAG
1 AGATTTTTTAAAGTTTGATG-CTATTTTATAGGAG
14385845 ATCTTTTTAG
Statistics
Matches: 164, Mismatches: 36, Indels: 26
0.73 0.16 0.12
Matches are distributed among these distances:
39 6 0.04
40 10 0.06
41 16 0.10
42 1 0.01
43 1 0.01
44 1 0.01
45 13 0.08
46 69 0.42
47 47 0.29
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (47 bp):
AGATTTTTTAAAGTTTGATGCTATTTTATAGGAGCCCTTTTCTAGAT
Found at i:14386211 original size:20 final size:20
Alignment explanation
Indices: 14386168--14386211 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
14386158 TGTCAAAGCC
* *
14386168 AAAATTAGTCAAACTTAATC
1 AAAATTAGTCAAACTCAATA
* *
14386188 AAAATTGGTCAAACTCGATA
1 AAAATTAGTCAAACTCAATA
14386208 AAAA
1 AAAA
14386212 CGGATAGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (20 bp):
AAAATTAGTCAAACTCAATA
Found at i:14387334 original size:11 final size:11
Alignment explanation
Indices: 14387318--14387359 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
14387308 TTCTAGCATC
14387318 TTCATTCATTT
1 TTCATTCATTT
*
14387329 TTCATTGCATTG
1 TTCATT-CATTT
*
14387341 TTC-TTCATAT
1 TTCATTCATTT
14387351 TTCATTCAT
1 TTCATTCAT
14387360 ATGTTGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 6 0.23
11 13 0.50
12 7 0.27
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.57
Consensus pattern (11 bp):
TTCATTCATTT
Found at i:14387364 original size:22 final size:22
Alignment explanation
Indices: 14387322--14387364 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14387312 AGCATCTTCA
*
14387322 TTCATTTTTCATTGCATTGTTC
1 TTCATATTTCATTGCATTGTTC
14387344 TTCATATTTCATT-CATATGTT
1 TTCATATTTCATTGCAT-TGTT
14387365 GTTTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.58
Consensus pattern (22 bp):
TTCATATTTCATTGCATTGTTC
Found at i:14388854 original size:27 final size:29
Alignment explanation
Indices: 14388801--14388854 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 29
14388791 TTGTCATTCA
14388801 TATTATATTGTCATGCATTCATCACATGT
1 TATTATATTGTCATGCATTCATCACATGT
14388830 TATTATA-T-TCATGCATCTCAT-ACAT
1 TATTATATTGTCATGCAT-TCATCACAT
14388855 TGTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 12 0.50
28 5 0.21
29 7 0.29
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (29 bp):
TATTATATTGTCATGCATTCATCACATGT
Found at i:14389182 original size:17 final size:17
Alignment explanation
Indices: 14389150--14389188 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14389140 TGTTTTTGTT
*
14389150 TAAAAAAAAGATAAAAA
1 TAAAAAAAAGAAAAAAA
*
14389167 TAAAAAAAATAAAAAAA
1 TAAAAAAAAGAAAAAAA
*
14389184 GAAAA
1 TAAAA
14389189 GTAATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (17 bp):
TAAAAAAAAGAAAAAAA
Found at i:14389188 original size:15 final size:16
Alignment explanation
Indices: 14389152--14389181 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14389142 TTTTTGTTTA
14389152 AAAAAAAGATAAAAAT
1 AAAAAAAGATAAAAAT
14389168 AAAAAAA-ATAAAAA
1 AAAAAAAGATAAAAA
14389182 AAGAAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAAAGATAAAAAT
Found at i:14389793 original size:8 final size:8
Alignment explanation
Indices: 14389782--14389828 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
14389772 GTTTTTTGAC
*
14389782 AAAAAATG
1 AAAAAAAG
*
14389790 AAAAATAG
1 AAAAAAAG
*
14389798 -AAAAGAG
1 AAAAAAAG
14389805 AAAAAAAG
1 AAAAAAAG
14389813 AAGAAAAAG
1 AA-AAAAAG
14389822 AAAAAAA
1 AAAAAAA
14389829 ATTTTGAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 6 0.18
8 19 0.58
9 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:14398390 original size:84 final size:84
Alignment explanation
Indices: 14398287--14398477 Score: 364
Period size: 84 Copynumber: 2.3 Consensus size: 84
14398277 GACAAAAGTC
*
14398287 AAGATTAGGTCTTGATAAGATGTATTATGTCCAAATAAGATGTCTTGTATATCATAAATAGGGCA
1 AAGATTAGGTCTTGATAAGATGTATTATGTCCAAATAAGACGTCTTGTATATCATAAATAGGGCA
14398352 ATTTTGTATGAGAAAAGCT
66 ATTTTGTATGAGAAAAGCT
*
14398371 AAGATTAGGTCTTGATAAGATGTATTATGTCCAAATAAGACGTCTTGTATATCATAAATAGGGTA
1 AAGATTAGGTCTTGATAAGATGTATTATGTCCAAATAAGACGTCTTGTATATCATAAATAGGGCA
14398436 ATTTTGTATGAGAAAAGCT
66 ATTTTGTATGAGAAAAGCT
14398455 AAGATTAGGTCTTGATAAGATGT
1 AAGATTAGGTCTTGATAAGATGT
14398478 CATGTATATC
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 105 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (84 bp):
AAGATTAGGTCTTGATAAGATGTATTATGTCCAAATAAGACGTCTTGTATATCATAAATAGGGCA
ATTTTGTATGAGAAAAGCT
Found at i:14400907 original size:94 final size:92
Alignment explanation
Indices: 14400758--14400930 Score: 231
Period size: 94 Copynumber: 1.9 Consensus size: 92
14400748 ACAAATTTTT
* * * * *
14400758 TAAAGTTTAAAGCCTATTTTATAGAAGCCCTTTCTAGATAGATTTTTAAAGTTTGAGGTCTATTT
1 TAAAGTTTAAAGACTATTTTATAAAAGCACTTTCTAGAAAGATTTTTAAAGTTTGAGGCCTATTT
14400823 TATA-GAAGCCCTTTCTAAATAGACTCA
66 TATATG-AGCCCTTTCTAAATAGACTCA
* * * *
14400850 TAAAGTTTAATGACTATTTTATAAAAGTCATTTTCTAGAAAGCTTTTTTAAAGTTTGATGCCTAT
1 TAAAGTTTAAAGACTATTTTATAAAAG-CACTTTCTAGAAAG-ATTTTTAAAGTTTGAGGCCTAT
14400915 TTTATATGAGCCCTTT
64 TTTATATGAGCCCTTT
14400931 TTCATATAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 24 0.35
93 11 0.16
94 33 0.48
95 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (92 bp):
TAAAGTTTAAAGACTATTTTATAAAAGCACTTTCTAGAAAGATTTTTAAAGTTTGAGGCCTATTT
TATATGAGCCCTTTCTAAATAGACTCA
Found at i:14400985 original size:142 final size:140
Alignment explanation
Indices: 14400739--14401073 Score: 405
Period size: 142 Copynumber: 2.4 Consensus size: 140
14400729 TAAATCAACC
* * *
14400739 CTTTTCCAGACAA-ATTTTTTAAAGTTTAAAGCCTATTTTATAGAAGCCCTTTCT-AGATAGATT
1 CTTTTCCAGA-AAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTTCAGATAGATT
* *
14400802 TTTAAAGTTTGAGGTCTATTTTATAGAAGCCCTTTCTAAATAGACTCATAAAGTTTAATGA-CTA
65 TTTAAAGTTTGAGGCCTATTTTATAGAAGCCCTTTCCAAATAGACTCATAAAGTTTAAT-ACCTA
*
14400866 TTTTATAA-AAGT
129 TTTTATAATAA-A
* * *
14400878 CATTTTCTAGAAAGCTTTTTTAAAGTTTGATGCCTATTTTATATG-AGCCCTTTTTCATATAGAT
1 C-TTTTCCAGAAAGATTTTTTAAAGTTTGATGCCTATTTTATA-GAAGCCCTTTTTCAGATAGAT
* * * ** * *
14400942 GTTTTAAAGTTTGATGCCTATTTTATAGGAGCCCTTTCCAAATAGATTTTTTAAGTTTGATACCT
64 -TTTTAAAGTTTGAGGCCTATTTTATAGAAGCCCTTTCCAAATAGACTCATAAAGTTTAATACCT
14401007 ATTTTATAATAAA
128 ATTTTATAATAAA
* *
14401020 CTTTTCCAGATAGATTTTTTAAAGATTGATGCCTA-TTTATAGAAG-CCTTTTTCA
1 CTTTTCCAGAAAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTTCA
14401074 AACTTGTTAA
Statistics
Matches: 168, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
139 13 0.08
140 51 0.30
141 39 0.23
142 63 0.38
143 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (140 bp):
CTTTTCCAGAAAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTTCAGATAGATTT
TTAAAGTTTGAGGCCTATTTTATAGAAGCCCTTTCCAAATAGACTCATAAAGTTTAATACCTATT
TTATAATAAA
Found at i:14401050 original size:93 final size:94
Alignment explanation
Indices: 14400893--14401075 Score: 237
Period size: 93 Copynumber: 2.0 Consensus size: 94
14400883 TCTAGAAAGC
* ** * * *
14400893 TTTTTTAAAGTTTGATGCCTATTTTATATGAGCCCTTTTTCATATAGATGTTTTAAAGTTTGATG
1 TTTTTTAAAGTTTGATACCTATTTTATATGAGAACTTTTCCAGATAGATGTTTTAAAGATTGATG
*
14400958 CCTATTTTATAGGAGCCCTTTCCAAATAGA
66 CCTA-TTTATAGAAGCCCTTTCCAAATAGA
*
14400988 TTTTTT-AAGTTTGATACCTATTTTATAAT-A-AACTTTTCCAGATAGATTTTTTAAAGATTGAT
1 TTTTTTAAAGTTTGATACCTATTTTAT-ATGAGAACTTTTCCAGATAGATGTTTTAAAGATTGAT
* *
14401050 GCCTATTTATAGAAGCCTTTTTCAAA
65 GCCTATTTATAGAAGCCCTTTCCAAA
14401076 CTTGTTAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
92 18 0.23
93 31 0.40
94 20 0.26
95 8 0.10
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (94 bp):
TTTTTTAAAGTTTGATACCTATTTTATATGAGAACTTTTCCAGATAGATGTTTTAAAGATTGATG
CCTATTTATAGAAGCCCTTTCCAAATAGA
Found at i:14401070 original size:46 final size:47
Alignment explanation
Indices: 14400738--14401070 Score: 309
Period size: 46 Copynumber: 7.1 Consensus size: 47
14400728 ATAAATCAAC
* * * *
14400738 CCTTTTCCAGACAAATTTTTTAAAGTTTAAAGCCTATTTTATAGAAG
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAG
* * * *
14400785 CCCTTTCTAGATAGA-TTTTTAAAGTTTGAGGTCTATTTTATAGAAG
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAG
* * * * ** * * *
14400831 CCCTTTCTAAATAGA-CTCATAAAGTTTAATGACTATTTTATAAAAG
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAG
* * * *
14400877 TCATTTTCTAGAAAGCTTTTTTAAAGTTTGATGCCTATTTTATATG-AG
1 -CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATA-GAAG
* * * *
14400925 CCCTTTTTCATATAGATGTTTTAAAGTTTGATGCCTATTTTATAGGAG
1 -CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAG
* * * *
14400973 CCCTTTCCAAATAGATTTTTT-AAGTTTGATACCTATTTTATA-ATAA
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGA-AG
* *
14401019 ACTTTTCCAGATAGATTTTTTAAAGATTGATGCCTA-TTTATAGAAG
1 CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAG
14401065 CCTTTT
1 CCTTTT
14401071 TCAAACTTGT
Statistics
Matches: 231, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
46 117 0.51
47 52 0.23
48 62 0.27
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (47 bp):
CCTTTTCCAGATAGATTTTTTAAAGTTTGATGCCTATTTTATAGAAG
Found at i:14402058 original size:144 final size:143
Alignment explanation
Indices: 14401842--14402102 Score: 312
Period size: 144 Copynumber: 1.8 Consensus size: 143
14401832 ACACCTCGAA
* * * * * **
14401842 AAGTGTGAAATTATGAAAATATCCTTTAAGGGTATTTTCATAGTTTGATCTTCCCGAGGTTAGTT
1 AAGTGTGAAATTATGAAAATACCCTTTAAAGGTATTTTCATAATTTGACCTTCCCGAGGTCAGAC
* ** **
14401907 TTTCATG-AAACTTTCAAGATCATGATTTTATAATATTTGATGATTTTTGGTGCATTTGGTATCA
66 TTGCATGAAAACTTTCAA-ATCACAATTGAATAATATTT-ATGATTTTTGGTGCATTTGGTATCA
14401971 TAGTAGTACCCTAAG
129 TAGTAGTACCCTAAG
* * *
14401986 AAGTGTG-AATTATGAAAATACCCTTTTAAAGGTATTATT-GTAATTTGACCTTCCTGAGGTCGG
1 AAGTGTGAAATTATGAAAATACCC-TTTAAAGGTATT-TTCATAATTTGACCTTCCCGAGGTCAG
* *
14402049 ACTTGCATGAAAATTTTCAAATCCCAATTGAATAATATTTATGATTTTTGGTGC
64 ACTTGCATGAAAACTTTCAAATCACAATTGAATAATATTTATGATTTTTGGTGC
14402103 CTTAAAATCC
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
143 29 0.30
144 57 0.59
145 11 0.11
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (143 bp):
AAGTGTGAAATTATGAAAATACCCTTTAAAGGTATTTTCATAATTTGACCTTCCCGAGGTCAGAC
TTGCATGAAAACTTTCAAATCACAATTGAATAATATTTATGATTTTTGGTGCATTTGGTATCATA
GTAGTACCCTAAG
Found at i:14403780 original size:7 final size:7
Alignment explanation
Indices: 14403768--14403838 Score: 56
Period size: 7 Copynumber: 10.4 Consensus size: 7
14403758 AAATCCATCG
14403768 AAACCCT
1 AAACCCT
*
14403775 AAACCCC
1 AAACCCT
14403782 AAACCCT
1 AAACCCT
* *
14403789 AAA-TCA
1 AAACCCT
*
14403795 AAACCTT
1 AAACCCT
14403802 AAACCCT
1 AAACCCT
* *
14403809 AAA-TCA
1 AAACCCT
*
14403815 AAACCTT
1 AAACCCT
*
14403822 AAACCTT
1 AAACCCT
14403829 AAACCCT
1 AAACCCT
14403836 AAA
1 AAA
14403839 TGAAAAACCC
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 8 0.17
7 40 0.83
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:14403805 original size:20 final size:20
Alignment explanation
Indices: 14403782--14403831 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
14403772 CCTAAACCCC
14403782 AAACCCTAAATCAAAACCTT
1 AAACCCTAAATCAAAACCTT
14403802 AAACCCTAAATCAAAACCTT
1 AAACCCTAAATCAAAACCTT
*
14403822 AAACCTTAAA
1 AAACCCTAAA
14403832 CCCTAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (20 bp):
AAACCCTAAATCAAAACCTT
Found at i:14403846 original size:21 final size:21
Alignment explanation
Indices: 14403822--14403865 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14403812 TCAAAACCTT
* *
14403822 AAACCTTAAACCCTAAATGAA
1 AAACCCTAAACCCTAAATCAA
*
14403843 AAACCCTAAATCCTAAATCAA
1 AAACCCTAAACCCTAAATCAA
14403864 AA
1 AA
14403866 CCTAAATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACCCTAAATCAA
Found at i:14403867 original size:20 final size:20
Alignment explanation
Indices: 14403775--14403871 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 20
14403765 TCGAAACCCT
*
14403775 AAACCCCAAACCCTAAATCA
1 AAACCCTAAACCCTAAATCA
*
14403795 AAACCTTAAACCCTAAATCA
1 AAACCCTAAACCCTAAATCA
*
14403815 AAACCTTAAACCTTAAACCCTAAATGAA
1 AAA-C-----CC-TAAACCCTAAAT-CA
*
14403843 AAACCCTAAATCCTAAATCA
1 AAACCCTAAACCCTAAATCA
14403863 AAA-CCTAAA
1 AAACCCTAAA
14403872 TTCTAAACTT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
19 6 0.10
20 25 0.40
21 12 0.19
22 2 0.03
26 1 0.02
27 13 0.21
28 4 0.06
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.18
Consensus pattern (20 bp):
AAACCCTAAACCCTAAATCA
Found at i:14403950 original size:7 final size:7
Alignment explanation
Indices: 14403940--14403999 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
14403930 AAATCCAAAT
14403940 CTAAACC
1 CTAAACC
14403947 CTAAACC
1 CTAAACC
14403954 CTAAACC
1 CTAAACC
* *
14403961 ATAAATC
1 CTAAACC
* *
14403968 ATAAATC
1 CTAAACC
*
14403975 ATAAACC
1 CTAAACC
14403982 CT-AACC
1 CTAAACC
14403988 CTAAAACC
1 CT-AAACC
14403996 CTAA
1 CTAA
14404000 CAGCCTTAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.13
7 35 0.74
8 6 0.13
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:14404536 original size:17 final size:17
Alignment explanation
Indices: 14404484--14404528 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
14404474 TAACAAAAAT
* *
14404484 AAAAAGGAAAAATGGAA
1 AAAAAAGAAAAATAGAA
*
14404501 AGAAAAGAAAAATAGAA
1 AAAAAAGAAAAATAGAA
14404518 AAAAAAGAAAA
1 AAAAAAGAAAA
14404529 GAAGAAAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (17 bp):
AAAAAAGAAAAATAGAA
Found at i:14406415 original size:18 final size:16
Alignment explanation
Indices: 14406382--14406418 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
14406372 GTTAAACGAG
14406382 TTTTAATTGTTGTTAA
1 TTTTAATTGTTGTTAA
14406398 TTTTAATTTGTATGTTAA
1 TTTTAA-TTGT-TGTTAA
14406416 TTT
1 TTT
14406419 AGATCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (16 bp):
TTTTAATTGTTGTTAA
Found at i:14406695 original size:17 final size:17
Alignment explanation
Indices: 14406669--14406727 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
14406659 TTATTTAGGG
* *
14406669 TTTAGAAACTTTTTATT
1 TTTAGTAACTTTCTATT
14406686 TTTAGTAACTTTCTA-T
1 TTTAGTAACTTTCTATT
*
14406702 TTTAGGTAAATTTCTATT
1 TTTA-GTAACTTTCTATT
14406720 TTTAGTAA
1 TTTAGTAA
14406728 GTTTTAGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 5 0.14
17 27 0.73
18 5 0.14
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (17 bp):
TTTAGTAACTTTCTATT
Found at i:14408651 original size:23 final size:23
Alignment explanation
Indices: 14408625--14408670 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14408615 ATTAAATTGA
*
14408625 AAAAAAAAACAT-AACTTGAATTT
1 AAAAAAAAAC-TGAAATTGAATTT
*
14408648 AAAAGAAAACTGAAATTGAATTT
1 AAAAAAAAACTGAAATTGAATTT
14408671 TGCATAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.26
Consensus pattern (23 bp):
AAAAAAAAACTGAAATTGAATTT
Found at i:14411412 original size:17 final size:17
Alignment explanation
Indices: 14411366--14411413 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
14411356 AAATAATTTA
*
14411366 AAGAAAGCTTAAA-AAC
1 AAGAAAACTTAAAGAAC
* *
14411382 ATGAAAA-GTAAAGAAC
1 AAGAAAACTTAAAGAAC
14411398 AAGAAAACTTAAAGAA
1 AAGAAAACTTAAAGAA
14411414 ACTAACTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 4 0.16
16 14 0.56
17 7 0.28
ACGTcount: A:0.65, C:0.08, G:0.15, T:0.12
Consensus pattern (17 bp):
AAGAAAACTTAAAGAAC
Found at i:14417538 original size:17 final size:16
Alignment explanation
Indices: 14417516--14417548 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
14417506 TAAAAAATAT
14417516 TATTATTTATTTATTTA
1 TATTATTTA-TTATTTA
14417533 TATTATTTATTATTTA
1 TATTATTTATTATTTA
14417549 ATAACTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTATTTATTATTTA
Found at i:14418549 original size:27 final size:26
Alignment explanation
Indices: 14418503--14418553 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
14418493 TCCTCTTCTC
14418503 TTTTTTTATTGTGCCTTTTTATTTTG
1 TTTTTTTATTGTGCCTTTTTATTTTG
*
14418529 TTTTTGTTATT-TTCCTCTTTTATTT
1 TTTTT-TTATTGTGCCT-TTTTATTT
14418554 GACTGTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.08, C:0.10, G:0.08, T:0.75
Consensus pattern (26 bp):
TTTTTTTATTGTGCCTTTTTATTTTG
Found at i:14435213 original size:20 final size:20
Alignment explanation
Indices: 14435180--14435217 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14435170 TTTTACAAGA
* *
14435180 CTTATTTATTTATCATTGAG
1 CTTATGTATGTATCATTGAG
14435200 CTTATGTATGTATCATTG
1 CTTATGTATGTATCATTG
14435218 GCTAAGACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.53
Consensus pattern (20 bp):
CTTATGTATGTATCATTGAG
Found at i:14435279 original size:91 final size:91
Alignment explanation
Indices: 14435124--14435295 Score: 256
Period size: 91 Copynumber: 1.9 Consensus size: 91
14435114 TAATCATATT
* ** * * *
14435124 TTGGCTAAGATATTGTTGTATTTGTAGTGCTTTGATATCTGATATCTTTTACAAGACTTATTTAT
1 TTGGCTAAGACATTGTCATATTTATAGTACTTTGATATCTGATATCTTCTACAAGACTTATTTAT
14435189 TTATCATTGAGCTTATGTATGTATCA
66 TTATCATTGAGCTTATGTATGTATCA
*
14435215 TTGGCTAAGACATTGTCATATTTATAGTACTTTGATATTTGATATCTTCTA-AAGGACTTATTTA
1 TTGGCTAAGACATTGTCATATTTATAGTACTTTGATATCTGATATCTTCTACAA-GACTTATTTA
*
14435279 TTTATTATTGAGCTTAT
65 TTTATCATTGAGCTTAT
14435296 ATTGATGCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 2 0.03
91 70 0.97
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (91 bp):
TTGGCTAAGACATTGTCATATTTATAGTACTTTGATATCTGATATCTTCTACAAGACTTATTTAT
TTATCATTGAGCTTATGTATGTATCA
Found at i:14441432 original size:33 final size:33
Alignment explanation
Indices: 14441332--14441433 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
14441322 AAAACTTGAT
* * *
14441332 AATGAAATGACTTGGATGGAACCAAAGTA-TAAA
1 AATGAAATGACCTGGATTGAATCAAAG-ACTAAA
** **
14441365 AATGCTATGACCTTGGATTGAATTGAAG-CTTAAA
1 AATGAAATGACC-TGGATTGAATCAAAGAC-TAAA
*
14441399 AATGGAATGACCTGGATTGAATCAAAGACTAAA
1 AATGAAATGACCTGGATTGAATCAAAGACTAAA
14441432 AA
1 AA
14441434 ATTGACTTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
33 28 0.52
34 26 0.48
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.25
Consensus pattern (33 bp):
AATGAAATGACCTGGATTGAATCAAAGACTAAA
Found at i:14441434 original size:34 final size:33
Alignment explanation
Indices: 14441332--14441435 Score: 93
Period size: 34 Copynumber: 3.1 Consensus size: 33
14441322 AAAACTTGAT
* * *
14441332 AATGAAATGACTTGGATGGAACCAAAG-TATAAA
1 AATGAAATGACCTGGATTGAATCAAAGCTA-AAA
** ** *
14441365 AATGCTATGACCTTGGATTGAATTGAAGCTTAAA
1 AATGAAATGACC-TGGATTGAATCAAAGCTAAAA
*
14441399 AATGGAATGACCTGGATTGAATCAAAGACTAAAA
1 AATGAAATGACCTGGATTGAATCAAAG-CTAAAA
14441433 AAT
1 AAT
14441436 TGACTTGGAC
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
33 22 0.40
34 32 0.58
35 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (33 bp):
AATGAAATGACCTGGATTGAATCAAAGCTAAAA
Found at i:14441599 original size:28 final size:28
Alignment explanation
Indices: 14441567--14441656 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
14441557 CTGAACATAT
* ** *
14441567 AATGACCTAGATTGAGTTGAAGTCTGAA
1 AATGACCTAGATTGAATAAAAGTCTAAA
*
14441595 AATGACTTAGATTGAATCAAAAG-CTAAA
1 AATGACCTAGATTGAAT-AAAAGTCTAAA
* *
14441623 AATGACCTAGATTAAACAAAAGTCTAAA
1 AATGACCTAGATTGAATAAAAGTCTAAA
14441651 AATGAC
1 AATGAC
14441657 TTGGACTGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.10
28 44 0.85
29 3 0.06
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (28 bp):
AATGACCTAGATTGAATAAAAGTCTAAA
Found at i:14444090 original size:17 final size:17
Alignment explanation
Indices: 14444050--14444090 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14444040 AAGAGTCAGC
* *
14444050 GGGGTGTCTTTGATACT
1 GGGGTGTCTTTGACAAT
*
14444067 GGAGTGTCTTTGACAAT
1 GGGGTGTCTTTGACAAT
14444084 GGGGTGT
1 GGGGTGT
14444091 GGGAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.39, T:0.37
Consensus pattern (17 bp):
GGGGTGTCTTTGACAAT
Found at i:14445290 original size:34 final size:32
Alignment explanation
Indices: 14445252--14445343 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 32
14445242 TGTTTCAAGC
*
14445252 ATTTTAATTTTCTATGTTATTTGAATTTGCTGCA
1 ATTTTAATTTTCTATGTTATTT-AATTT-ATGCA
*
14445286 ATTTTAATTTT-TCATGTTGTTTAAATTTATGCA
1 ATTTTAATTTTCT-ATGTTATTT-AATTTATGCA
* *
14445319 A-TTTATTTTTCT-TGTAATTTAATTT
1 ATTTTAATTTTCTATGTTATTTAATTT
14445344 CAATTCTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
30 5 0.10
31 6 0.12
32 8 0.16
33 7 0.14
34 24 0.48
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.60
Consensus pattern (32 bp):
ATTTTAATTTTCTATGTTATTTAATTTATGCA
Found at i:14445405 original size:32 final size:32
Alignment explanation
Indices: 14445369--14445452 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 32
14445359 CATGCCTTCT
* * *
14445369 TTTACTTTTTATGCAATTTATTTTTCTTGCTC
1 TTTACTTTTTATGCAATTTAATTTTCATGCTA
* *
14445401 TTTAC-ATTGATGCAATTTAAATTTTCATGCTA
1 TTTACTTTTTATGCAATTT-AATTTTCATGCTA
* *
14445433 TTTAATTATT-TGCAATTTAA
1 TTTACTTTTTATGCAATTTAA
14445453 GTTTAATGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
31 13 0.32
32 27 0.66
33 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (32 bp):
TTTACTTTTTATGCAATTTAATTTTCATGCTA
Found at i:14449268 original size:60 final size:60
Alignment explanation
Indices: 14449201--14449322 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
14449191 ATGGATTGCA
* *
14449201 TGGTGAAGAGAGTTGCTGACTATGAAGTTGCCAAGTCAAGTTGAAAGTGGGGATACTAGC
1 TGGTGAAGAGAGTTGCTGACCATGAAGTTGCCAAGTCAAGTTGAAAGTGGGGATACCAGC
* *
14449261 TGGTGAAGAGAGTTGCTGACCATGAAGTTGCCGAGTCAAGTTTAAAGTGGGGATACCAGC
1 TGGTGAAGAGAGTTGCTGACCATGAAGTTGCCAAGTCAAGTTGAAAGTGGGGATACCAGC
14449321 TG
1 TG
14449323 CTACTATATG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.25
Consensus pattern (60 bp):
TGGTGAAGAGAGTTGCTGACCATGAAGTTGCCAAGTCAAGTTGAAAGTGGGGATACCAGC
Found at i:14451399 original size:18 final size:17
Alignment explanation
Indices: 14451373--14451434 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
14451363 TGTTTCAAGC
*
14451373 ATTTTAATTTTCTATGTT
1 ATTTAAATTTT-TATGTT
* **
14451391 ATTTAAATTTGT-TGCA
1 ATTTAAATTTTTATGTT
*
14451407 ATTTTAATTTTTCATGTT
1 ATTTAAATTTTT-ATGTT
14451425 ATTTAAATTT
1 ATTTAAATTT
14451435 ATGCAGTTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
16 12 0.36
17 1 0.03
18 20 0.61
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (17 bp):
ATTTAAATTTTTATGTT
Found at i:14451456 original size:49 final size:47
Alignment explanation
Indices: 14451403--14451560 Score: 144
Period size: 49 Copynumber: 3.3 Consensus size: 47
14451393 TTAAATTTGT
* *
14451403 TGCAATTTTAATTTTTCATGTTATTTAAATTTATGCAGTTTACTTTTCG
1 TGCAA-TTTAATTTTTCATGTTCTTTAAATTTATGCA-TTTACTTTTCA
* *
14451452 TGCAATTTAA--TTTCAAG-TCTTTAAATTTCATGCCCTCATTTACTTTTTA
1 TGCAATTTAATTTTTCATGTTCTTTAAATTT-ATG----CATTTACTTTTCA
* *
14451501 TGCAATTT-ATTTTTCATGTTCTTTACATTTATGCAATTTAAATTTTCA
1 TGCAATTTAATTTTTCATGTTCTTTAAATTTATGC-ATTT-ACTTTTCA
*
14451549 TGCTATTTAATT
1 TGCAATTTAATT
14451561 ATTTGCAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
45 10 0.11
46 10 0.11
47 4 0.04
48 19 0.21
49 25 0.28
50 11 0.12
51 10 0.11
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (47 bp):
TGCAATTTAATTTTTCATGTTCTTTAAATTTATGCATTTACTTTTCA
Found at i:14451535 original size:31 final size:30
Alignment explanation
Indices: 14451375--14451573 Score: 114
Period size: 32 Copynumber: 6.2 Consensus size: 30
14451365 TTTCAAGCAT
* *
14451375 TTTAATTTTCTATGTTATTTAAATTTGTTGCAA
1 TTTAATTTTC-ATGCTATTT-AATTT-ATGCAA
* *
14451408 TTTTAATTTTTCATGTTATTTAAATTTATGCAG
1 -TTTAA-TTTTCATGCTATTT-AATTTATGCAA
* * * *
14451441 TTTACTTTTCGTGCAATTTAATTTCAAGTC--
1 TTTAATTTTCATGCTATTTAATTT-ATG-CAA
* *
14451471 TTTAAATTTCATGCCCTCATTTACTTTTTATGCAA
1 TTTAATTTTCATG--CT-ATTTA--ATTTATGCAA
* * *
14451506 TTTATTTTTCATGTTCTTTACATTTATGCAA
1 TTTAATTTTCATGCTATTTA-ATTTATGCAA
*
14451537 TTTAAATTTTCATGCTATTTAATTATTTGCAA
1 TTT-AATTTTCATGCTATTTAATT-TATGCAA
14451569 TTTAA
1 TTTAA
14451574 GTTTAATGTT
Statistics
Matches: 130, Mismatches: 23, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
30 15 0.12
31 30 0.23
32 33 0.25
33 11 0.08
34 22 0.17
35 19 0.15
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTAATTTTCATGCTATTTAATTTATGCAA
Found at i:14452402 original size:17 final size:18
Alignment explanation
Indices: 14452364--14452410 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
14452354 ACTTCTCTTC
14452364 TTTCTTTTAGTTTCTAAG
1 TTTCTTTTAGTTTCTAAG
*
14452382 TTTCTTTTAG-TTCTTTA-
1 TTTCTTTTAGTTTC-TAAG
14452399 TTTCTTTTAGTT
1 TTTCTTTTAGTT
14452411 ATGTTATTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.68
Consensus pattern (18 bp):
TTTCTTTTAGTTTCTAAG
Found at i:14457644 original size:12 final size:12
Alignment explanation
Indices: 14457613--14457652 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
14457603 CAAGCAAATC
* *
14457613 ACCAAGCCACCA
1 ACCAAACCAACA
*
14457625 AACAAACCAACA
1 ACCAAACCAACA
14457637 ACCAAACCAACA
1 ACCAAACCAACA
14457649 ACCA
1 ACCA
14457653 TTGCCCCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.55, C:0.42, G:0.03, T:0.00
Consensus pattern (12 bp):
ACCAAACCAACA
Found at i:14466576 original size:19 final size:20
Alignment explanation
Indices: 14466548--14466587 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14466538 AAAAAAGCTA
*
14466548 CTGCATGGTTT-AAGGAGGG
1 CTGCACGGTTTAAAGGAGGG
14466567 CTGCACGGTTTGAAAGGAGGG
1 CTGCACGGTTT-AAAGGAGGG
14466588 AAAACAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.23, C:0.12, G:0.42, T:0.23
Consensus pattern (20 bp):
CTGCACGGTTTAAAGGAGGG
Found at i:14468325 original size:3 final size:3
Alignment explanation
Indices: 14468317--14468346 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14468307 AATTTACATG
14468317 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14468347 TTCACCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14468669 original size:19 final size:19
Alignment explanation
Indices: 14468564--14468671 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 19
14468554 CCCAATTTTG
* *
14468564 AAACCCTAAATGAAATTCA
1 AAACCCTAAGTGAAACTCA
* *
14468583 AAACCCTAAGTGAAATTTA
1 AAACCCTAAGTGAAACTCA
* *
14468602 AGA--CT-AGTGAAACAT-G
1 AAACCCTAAGTGAAAC-TCA
* * *
14468618 AAACCCTAGGTAAAACCCAA
1 AAACCCTAAGTGAAACTC-A
* * *
14468638 AAATCTTAGGTGAAACTCA
1 AAACCCTAAGTGAAACTCA
14468657 AAACCCTAAGTGAAA
1 AAACCCTAAGTGAAA
14468672 TCCTAAACTC
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
16 9 0.14
17 3 0.05
18 2 0.03
19 38 0.58
20 14 0.21
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (19 bp):
AAACCCTAAGTGAAACTCA
Found at i:14473614 original size:8 final size:8
Alignment explanation
Indices: 14473603--14473631 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14473593 AAAAAGGTGA
14473603 AAAAAGAC
1 AAAAAGAC
14473611 AAAAAGAC
1 AAAAAGAC
14473619 AAAAAGAC
1 AAAAAGAC
14473627 AAAAA
1 AAAAA
14473632 AAGGAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAGAC
Found at i:14474882 original size:14 final size:14
Alignment explanation
Indices: 14474853--14474908 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
14474843 TGAAGAAAAT
14474853 GAGAAAAG-AAGAAA
1 GAGAAAAGAAAG-AA
*
14474867 GAGGAAAGAAAGAA
1 GAGAAAAGAAAGAA
14474881 GA-ACAAAGAAAAGAA
1 GAGA-AAAG-AAAGAA
14474896 G-GAAAAGAAAGAA
1 GAGAAAAGAAAGAA
14474909 AATAAATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 6 0.17
14 19 0.53
15 11 0.31
ACGTcount: A:0.70, C:0.02, G:0.29, T:0.00
Consensus pattern (14 bp):
GAGAAAAGAAAGAA
Found at i:14474891 original size:18 final size:17
Alignment explanation
Indices: 14474813--14474909 Score: 51
Period size: 18 Copynumber: 5.7 Consensus size: 17
14474803 CTTAGAGAAC
*
14474813 AAAAGAAATGAAATAATGA
1 AAAAGAAA-GAAAGAA-GA
**
14474832 AAAACGAAA-AGTGAAGA
1 AAAA-GAAAGAAAGAAGA
* *
14474849 AAATGAGA-AAAGAAGA
1 AAAAGAAAGAAAGAAGA
*
14474865 AAGAGGAAAGAAAGAAGA
1 AA-AAGAAAGAAAGAAGA
*
14474883 ACAAAG--A-AAAGAAGG
1 A-AAAGAAAGAAAGAAGA
14474898 AAAAGAAAGAAA
1 AAAAGAAAGAAA
14474910 ATAAATGAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
14 4 0.07
15 8 0.13
16 13 0.22
17 12 0.20
18 14 0.23
19 5 0.08
20 4 0.07
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.05
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAGA
Found at i:14474910 original size:18 final size:19
Alignment explanation
Indices: 14474845--14474910 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
14474835 ACGAAAAGTG
14474845 AAGAAAATGAGAA-AAGAAGA
1 AAGAAAA-GA-AAGAAGAAGA
*
14474865 AAGAGGAAAGAAAGAAGAACA
1 AAGA--AAAGAAAGAAGAAGA
*
14474886 AAGAAAAGAAGGAA-AAGA
1 AAGAAAAGAAAGAAGAAGA
14474904 AAGAAAA
1 AAGAAAA
14474911 TAAATGAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 10 0.25
19 9 0.22
20 6 0.15
21 12 0.30
22 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.02
Consensus pattern (19 bp):
AAGAAAAGAAAGAAGAAGA
Found at i:14475342 original size:32 final size:32
Alignment explanation
Indices: 14475301--14475375 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
14475291 AGCCTAGTTT
*
14475301 AGCCCAGTATTAACTGGCATCAAGAAGAT-TTA
1 AGCCCAGTATTAACTGGCATCAAGAAG-TCATA
14475333 AGCCCAGTATTAACTGGCATCAAGAAGTCATA
1 AGCCCAGTATTAACTGGCATCAAGAAGTCATA
14475365 AGCCCAG-ATTA
1 AGCCCAGTATTA
14475376 GTTGGCACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 5 0.12
32 36 0.88
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (32 bp):
AGCCCAGTATTAACTGGCATCAAGAAGTCATA
Found at i:14475679 original size:33 final size:31
Alignment explanation
Indices: 14475638--14476053 Score: 197
Period size: 33 Copynumber: 12.9 Consensus size: 31
14475628 TAATCTTAGT
14475638 TTAGTTGGCACTCAATGAAAGTTTAAGCCCAAA
1 TTAGTTGGCAC-CAATGAAA-TTTAAGCCCAAA
* * * *
14475671 TTATTTGGCACCAATAAAAAATTTTAAACCCAAT
1 TTAGTTGGCACCAAT--GAAA-TTTAAGCCCAAA
* * * *
14475705 TTAGCTGGCATCTAATGAAATTTAAG-CCTAG
1 TTAGTTGGCA-CCAATGAAATTTAAGCCCAAA
* *
14475736 TCTAGTTAGCACCCAATGAAAATTTAAGCCCAGA
1 T-TAGTTGGCA-CCAATG-AAATTTAAGCCCAAA
* * **
14475770 TTA-TCTGGCATCCAATGAAATTTAAGGCTAGT
1 TTAGT-TGGCA-CCAATGAAATTTAAGCCCAAA
* * *
14475802 TTA-TATGGCAACAATGCAAAAATTTAAG-CTAGA
1 TTAGT-TGGCACCAATG---AAATTTAAGCCCAAA
** *
14475835 TTA-TCTATCACCAATGCAAATTTAAGCCCAAT
1 TTAGT-TGGCACCAATG-AAATTTAAGCCCAAA
* **
14475867 TTAGGTGGCTTTCAATGAAAATTTAAGCCC-AA
1 TTAGTTGGC-ACCAATG-AAATTTAAGCCCAAA
* * *
14475899 TCTAGCTGGCACCAATGAAGTTTTAAGCCCAAC
1 T-TAGTTGGCACCAATGAA-ATTTAAGCCCAAA
* *** **
14475932 TTAGTTGGCA-TAA--AAATTTAAGTTTAGT
1 TTAGTTGGCACCAATGAAATTTAAGCCCAAA
14475960 TTAGTTGGCACCCAATGAAAATTTAAGCCCAAA
1 TTAGTTGGCA-CCAATG-AAATTTAAGCCCAAA
* *
14475993 TTA-TCTGGCACCAATGAAATATAAG-CCAAG
1 TTAGT-TGGCACCAATGAAATTTAAGCCCAAA
* *
14476023 TTCAATTGGCACCAATGAAAATTGAAGCCCA
1 TT-AGTTGGCACCAATG-AAATTTAAGCCCA
14476054 GTTTAGCTTA
Statistics
Matches: 292, Mismatches: 65, Indels: 52
0.71 0.16 0.13
Matches are distributed among these distances:
28 17 0.06
29 2 0.01
30 8 0.03
31 42 0.14
32 89 0.30
33 97 0.33
34 33 0.11
35 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (31 bp):
TTAGTTGGCACCAATGAAATTTAAGCCCAAA
Found at i:14475742 original size:99 final size:100
Alignment explanation
Indices: 14475606--14475785 Score: 272
Period size: 99 Copynumber: 1.8 Consensus size: 100
14475596 TAAACCTAGC
* * * * * * *
14475606 TTAGCTGGTATCTAATGAAATTTAATCTTAGTTTAGTTGGCACTCAATGAAAGTTTAAGCCCAAA
1 TTAGCTGGCATCTAATGAAATTTAAGCCTAGTCTAGTTAGCACCCAATGAAAATTTAAGCCCAAA
*
14475671 TTATTTGGCA-CCAATAAAAAATTTTAAACCCAAT
66 TTATCTGGCATCCAATAAAAAATTTTAAACCCAAT
*
14475705 TTAGCTGGCATCTAATGAAATTTAAGCCTAGTCTAGTTAGCACCCAATGAAAATTTAAGCCCAGA
1 TTAGCTGGCATCTAATGAAATTTAAGCCTAGTCTAGTTAGCACCCAATGAAAATTTAAGCCCAAA
14475770 TTATCTGGCATCCAAT
66 TTATCTGGCATCCAAT
14475786 GAAATTTAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 66 0.93
100 5 0.07
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (100 bp):
TTAGCTGGCATCTAATGAAATTTAAGCCTAGTCTAGTTAGCACCCAATGAAAATTTAAGCCCAAA
TTATCTGGCATCCAATAAAAAATTTTAAACCCAAT
Found at i:14475789 original size:65 final size:63
Alignment explanation
Indices: 14475643--14475941 Score: 201
Period size: 65 Copynumber: 4.6 Consensus size: 63
14475633 TTAGTTTAGT
* ** * * * *
14475643 TGGCACTCAATGAAAGTTTAAGCCCAAATTATTTGGCACCAATAAAAAATTTTAAACCCA-ATTT
1 TGGCAC-CAATGAAA-TTTAAGCCTAGTTTAGTTGGCAACAAT-GAAAA-TTTAAGCCCAGA-TT
*
14475707 AGC
61 ATC
* * * *
14475710 TGGCATCTAATGAAATTTAAGCCTAGTCTAGTTAGCACCCAATGAAAATTTAAGCCCAGATTATC
1 TGGCA-CCAATGAAATTTAAGCCTAGTTTAGTTGGCA-ACAATGAAAATTTAAGCCCAGATTATC
* *
14475775 TGGCATCCAATGAAATTTAAGGCTAGTTTA-TATGGCAACAATGCAAAAATTTAAG-CTAGATTA
1 TGGCA-CCAATGAAATTTAAGCCTAGTTTAGT-TGGCAACAATG--AAAATTTAAGCCCAGATTA
14475838 TC
62 TC
** * * * ** *
14475840 TATCACCAATGCAAATTTAAGCCCAATTTAGGTGGCTTTCAATGAAAATTTAAGCCCA-ATCTAG
1 TGGCACCAATG-AAATTTAAGCCTAGTTTAGTTGGC-AACAATGAAAATTTAAGCCCAGAT-TAT
14475904 C
63 C
* * **
14475905 TGGCACCAATGAAGTTTTAAGCCCAACTTAGTTGGCA
1 TGGCACCAATGAA-ATTTAAGCCTAGTTTAGTTGGCA
14475942 TAAAAATTTA
Statistics
Matches: 188, Mismatches: 32, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
64 26 0.14
65 108 0.57
66 36 0.19
67 17 0.09
68 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (63 bp):
TGGCACCAATGAAATTTAAGCCTAGTTTAGTTGGCAACAATGAAAATTTAAGCCCAGATTATC
Found at i:14475941 original size:32 final size:31
Alignment explanation
Indices: 14475638--14476174 Score: 204
Period size: 32 Copynumber: 16.9 Consensus size: 31
14475628 TAATCTTAGT
* *
14475638 TTAGTTGGCACTCAATGAAAGTTTAAGCCCAAA
1 TTAGCTGGCAC-CAATGAAAATTTAAGCCC-AA
** * *
14475671 TTATTTGGCACCAATAAAAAATTTTAAACCCAA
1 TTAGCTGGCACCAAT-GAAAA-TTTAAGCCCAA
* * *
14475704 TTTAGCTGGCATCTAATG-AAATTTAAGCCTAG
1 -TTAGCTGGCA-CCAATGAAAATTTAAGCCCAA
* *
14475736 TCTAGTTAGCACCCAATGAAAATTTAAGCCCAGA
1 T-TAGCTGGCA-CCAATGAAAATTTAAGCCCA-A
* * * *
14475770 TTATCTGGCATCCAATG-AAATTTAAGGCTAGT
1 TTAGCTGGCA-CCAATGAAAATTTAAGCCCA-A
** * *
14475802 TTATATGGCAACAATGCAAAAATTTAAG-CTAGA
1 TTAGCTGGCACCAATG--AAAATTTAAGCCCA-A
* ** *
14475835 TTATCTATCACCAATGCAAATTTAAGCCCAA
1 TTAGCTGGCACCAATGAAAATTTAAGCCCAA
* **
14475866 TTTAGGTGGCTTTCAATGAAAATTTAAGCCCAA
1 -TTAGCTGGC-ACCAATGAAAATTTAAGCCCAA
**
14475899 TCTAGCTGGCACCAATGAAGTTTTAAGCCCAA
1 T-TAGCTGGCACCAATGAAAATTTAAGCCCAA
* * *** *
14475931 CTTAGTTGG---C-ATAAAAATTTAAGTTTAGT
1 -TTAGCTGGCACCAATGAAAATTTAAGCCCA-A
*
14475960 TTAGTTGGCACCCAATGAAAATTTAAGCCCAAA
1 TTAGCTGGCA-CCAATGAAAATTTAAGCCC-AA
* *
14475993 TTATCTGGCACCAATG-AAATATAAG-CCAA
1 TTAGCTGGCACCAATGAAAATTTAAGCCCAA
** * *
14476022 GTTCAATTGGCACCAATGAAAATTGAAGCCCAGT
1 -TT-AGCTGGCACCAATGAAAATTTAAGCCCA-A
** * * *
14476056 TTAGCTTACACTC-ATGAAAATTCAAGCCTAGC
1 TTAGCTGGCAC-CAATGAAAATTTAAGCCCA-A
* ** *
14476088 TTAGTTGGCACCAA-G--GTTTTAAACCCATA
1 TTAGCTGGCACCAATGAAAATTTAAGCCCA-A
* * *
14476117 TTAGCTGGCACCTAAT-AAAAGTTATG-CCGA
1 TTAGCTGGCACC-AATGAAAATTTAAGCCCAA
* * * *
14476147 TTATCTAGCACTAATGAAAGTTTAAGCC
1 TTAGCTGGCACCAATGAAAATTTAAGCC
14476175 TAGTGTAACT
Statistics
Matches: 373, Mismatches: 96, Indels: 72
0.69 0.18 0.13
Matches are distributed among these distances:
28 19 0.05
29 24 0.06
30 23 0.06
31 41 0.11
32 124 0.33
33 111 0.30
34 27 0.07
35 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (31 bp):
TTAGCTGGCACCAATGAAAATTTAAGCCCAA
Found at i:14476033 original size:31 final size:30
Alignment explanation
Indices: 14475964--14476042 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 30
14475954 TTTAGTTTAG
*
14475964 TTGGCACCCAATGAAAATTTAAGCCCAAATTA
1 TTGGCA-CCAATG-AAATATAAGCCCAAATTA
*
14475996 TCTGGCACCAATGAAATATAAG-CCAAGTTCAA
1 T-TGGCACCAATGAAATATAAGCCCAAATT--A
14476028 TTGGCACCAATGAAA
1 TTGGCACCAATGAAA
14476043 ATTGAAGCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 6 0.14
31 22 0.52
32 9 0.21
33 5 0.12
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.23
Consensus pattern (30 bp):
TTGGCACCAATGAAATATAAGCCCAAATTA
Found at i:14476853 original size:15 final size:15
Alignment explanation
Indices: 14476821--14476930 Score: 51
Period size: 13 Copynumber: 7.7 Consensus size: 15
14476811 TGTTGGCCAT
*
14476821 TAAAT-AAAAATTTAA
1 TAAATAAAAAATAT-A
14476836 TAAATAAAAAATATA
1 TAAATAAAAAATATA
14476851 TAAATATATAAAATATCA
1 TAAATA-A-AAAATAT-A
* *
14476869 TTAAAT--TAATTAT-
1 -TAAATAAAAAATATA
*
14476882 TAAAT-ATAAATATA
1 TAAATAAAAAATATA
*
14476896 TAAA-AAATAATA-A
1 TAAATAAAAAATATA
*
14476909 T-AATTAAAAATA-A
1 TAAATAAAAAATATA
14476922 T-AATAAAAA
1 TAAATAAAAA
14476931 GTTTGTCAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
12 7 0.09
13 23 0.30
14 9 0.12
15 17 0.22
16 8 0.10
17 7 0.09
18 1 0.01
19 5 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATAAAAAATATA
Found at i:14484384 original size:17 final size:15
Alignment explanation
Indices: 14484364--14484408 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
14484354 GAAATTATTA
14484364 AATAACAAAAATAAAAT
1 AATAA-AAAAAT-AAAT
14484381 AATAAAAGATAATAAAT
1 AATAAAA-A-AATAAAT
14484398 AATAAAAAAAT
1 AATAAAAAAAT
14484409 TTTAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 3 0.12
17 17 0.65
18 3 0.12
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
AATAAAAAAATAAAT
Found at i:14484457 original size:23 final size:23
Alignment explanation
Indices: 14484431--14484507 Score: 154
Period size: 23 Copynumber: 3.3 Consensus size: 23
14484421 GAACTATGTA
14484431 AAAAAAATAAAAATTTATTTTTT
1 AAAAAAATAAAAATTTATTTTTT
14484454 AAAAAAATAAAAATTTATTTTTT
1 AAAAAAATAAAAATTTATTTTTT
14484477 AAAAAAATAAAAATTTATTTTTT
1 AAAAAAATAAAAATTTATTTTTT
14484500 AAAAAAAT
1 AAAAAAAT
14484508 TACAAAATAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAAAATAAAAATTTATTTTTT
Found at i:14484699 original size:20 final size:20
Alignment explanation
Indices: 14484648--14484699 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
14484638 GAGACTCCAA
14484648 GTGAAACTTG-AAACCTTAG
1 GTGAAACTTGAAAACCTTAG
* **
14484667 GTAAAACCCGAAAACCTTAG
1 GTGAAACTTGAAAACCTTAG
14484687 GTGAAACTTGAAA
1 GTGAAACTTGAAA
14484700 CCCAAAGTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (20 bp):
GTGAAACTTGAAAACCTTAG
Found at i:14493292 original size:62 final size:62
Alignment explanation
Indices: 14493195--14493319 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
14493185 ATGCTCAAGC
*
14493195 TTGAAGAAGTCTTATTTGACTATGACTCTTGAGAAGATGAAGATAAGCTTATCACTTAGAGT
1 TTGAAGAAGTCTTATTCGACTATGACTCTTGAGAAGATGAAGATAAGCTTATCACTTAGAGT
*
14493257 TTGAAGAAGTCTTATTCGATTATGACTCTTGAGAAGATGAAGATAAGCTTATCACTTAGAGT
1 TTGAAGAAGTCTTATTCGACTATGACTCTTGAGAAGATGAAGATAAGCTTATCACTTAGAGT
14493319 T
1 T
14493320 GGAAATTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (62 bp):
TTGAAGAAGTCTTATTCGACTATGACTCTTGAGAAGATGAAGATAAGCTTATCACTTAGAGT
Found at i:14493439 original size:25 final size:24
Alignment explanation
Indices: 14493411--14493461 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
14493401 AACATGCCAT
*
14493411 TTTTCACTTCTCTTCTTTCTTTTAG
1 TTTTCACTTCTCTTATTT-TTTTAG
* * *
14493436 TTTTTAGTTCTTTTATTTTTTTAG
1 TTTTCACTTCTCTTATTTTTTTAG
14493460 TT
1 TT
14493462 GAGCTATTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.10, C:0.14, G:0.06, T:0.71
Consensus pattern (24 bp):
TTTTCACTTCTCTTATTTTTTTAG
Found at i:14493448 original size:16 final size:17
Alignment explanation
Indices: 14493427--14493461 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14493417 CTTCTCTTCT
14493427 TTCTTTTA-GTTTTTAG
1 TTCTTTTATGTTTTTAG
*
14493443 TTCTTTTATTTTTTTAG
1 TTCTTTTATGTTTTTAG
14493460 TT
1 TT
14493462 GAGCTATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.11, C:0.06, G:0.09, T:0.74
Consensus pattern (17 bp):
TTCTTTTATGTTTTTAG
Found at i:14501542 original size:21 final size:21
Alignment explanation
Indices: 14501518--14501558 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14501508 AAATAGATTG
14501518 ATCCTTTTAAAGGAGGGATCA
1 ATCCTTTTAAAGGAGGGATCA
*
14501539 ATCCTTTTAAGGGAGGGATC
1 ATCCTTTTAAAGGAGGGATC
14501559 GATCATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
ATCCTTTTAAAGGAGGGATCA
Found at i:14502500 original size:19 final size:19
Alignment explanation
Indices: 14502451--14502504 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
14502441 TTCATTTTTG
14502451 TTTTA-GATTT-TTTTTAT
1 TTTTATGATTTATTTTTAT
* *
14502468 ATTTATCAATTTTATTTTTAT
1 TTTTAT-GA-TTTATTTTTAT
14502489 TTTTATGATTTATTTT
1 TTTTATGATTTATTTT
14502505 CTTTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 4 0.14
19 9 0.31
20 4 0.14
21 12 0.41
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTATTTTTAT
Found at i:14504804 original size:25 final size:26
Alignment explanation
Indices: 14504757--14504806 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
14504747 GCAAGATAAT
* *
14504757 CTTTTTTTTGGTATTTTATTTATTTA
1 CTTTTTTTTGGTATGTTAGTTATTTA
*
14504783 CTTTTTTTT-GTGTGTTAGTTATTT
1 CTTTTTTTTGGTATGTTAGTTATTT
14504807 TGAGGAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.12, C:0.04, G:0.12, T:0.72
Consensus pattern (26 bp):
CTTTTTTTTGGTATGTTAGTTATTTA
Found at i:14504941 original size:57 final size:57
Alignment explanation
Indices: 14504863--14505250 Score: 462
Period size: 57 Copynumber: 6.6 Consensus size: 57
14504853 TTTCAAAGAG
*
14504863 AAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCCAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCCAA
* * * *
14504920 AAATATTTTT-AGGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATATAATTT-CAA
1 AAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCCAA
* * *
14504976 AAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAA
1 AAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAACAAAA-TTTCCAA
* * * *
14505037 AAATATTTTT-AGGGAGAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTC----CAA
* *
14505098 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAACAAAATTTCC--AA
*
14505158 AAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAATTTCCAA
1 AAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCCAA
*
14505214 AAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTTT
1 AAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14505251 TCCTACATAA
Statistics
Matches: 286, Mismatches: 26, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
56 24 0.08
57 71 0.25
58 45 0.16
59 47 0.16
60 42 0.15
61 45 0.16
62 12 0.04
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCCAA
Found at i:14504996 original size:58 final size:57
Alignment explanation
Indices: 14504841--14505250 Score: 472
Period size: 60 Copynumber: 6.9 Consensus size: 57
14504831 TTTTTTTCAA
14504841 AAAAATAAAAATTTTCAAAGAGAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAA-TTTCAAA-A-AAA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
14504903 AAAAACAAAATTTC-CAAAAATATTTTT-AGGAAAAAGTTGAAAGTATTAATTTTTCTT
1 AAAAATAAAATTTCAAAAAAAT-TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT
*
14504960 AAAAATATAATTTCAAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAAATTTCAAAAAAA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
14505018 GAAAATCAAAATTTTCAAAAAATATTTTTAG-GGAGAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAA-TTTCAAAAAA-ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
14505077 AAAAATAAATTTTCAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAAATTTC---AAAAAAA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*
14505138 GAAAATCAAAATTTCCAAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAAATTT-CAAAAAAAT-TTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTT
* *
14505198 AAAAAT-AAATTTC-CAAAAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAAATAAAATTTCAAAAAAAT-TTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14505251 TCCTACATAA
Statistics
Matches: 306, Mismatches: 23, Indels: 43
0.82 0.06 0.12
Matches are distributed among these distances:
56 18 0.06
57 72 0.24
58 49 0.16
59 42 0.14
60 76 0.25
61 37 0.12
62 11 0.04
63 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (57 bp):
AAAAATAAAATTTCAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:14505061 original size:117 final size:116
Alignment explanation
Indices: 14504853--14505250 Score: 563
Period size: 117 Copynumber: 3.4 Consensus size: 116
14504843 AAATAAAAAT
* *
14504853 TTTCAAAGAGAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAACAAAA-TTT
1 TTTCAAA-A-AAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTT
* * * *
14504916 CCAAAAATATTTTTAGGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATATAA
64 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AA
14504970 TTTCAAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCA
1 TTTCAAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCA
*
14505035 AAAAATATTTTTAGGGAGAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
66 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
*
14505086 TTTTCAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
1 -TTTC---AAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
*
14505151 TCCAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
62 TTC-AAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* *
14505207 TTTC-CAAAAA-TATTTTTGGGGAAAAAGTTGAAAGTATCAATTTT
1 TTTCAAAAAAAGT-TTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14505251 TCCTACATAA
Statistics
Matches: 258, Mismatches: 13, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
115 39 0.15
116 25 0.10
117 82 0.32
120 64 0.25
121 48 0.19
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (116 bp):
TTTCAAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCA
AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
Found at i:14518597 original size:18 final size:17
Alignment explanation
Indices: 14518570--14518604 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14518560 GGAAATGCTG
*
14518570 AAATGTGCCCTTCCTTT
1 AAATGTGCCCTTACTTT
14518587 AAATAGTGCCCTTACTTT
1 AAAT-GTGCCCTTACTTT
14518605 TGTTGAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (17 bp):
AAATGTGCCCTTACTTT
Found at i:14520581 original size:15 final size:16
Alignment explanation
Indices: 14520561--14520591 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
14520551 TTTAAAATTC
14520561 AATAATTTG-ATTTGA
1 AATAATTTGAATTTGA
14520576 AATAATTTGAATTTGA
1 AATAATTTGAATTTGA
14520592 TAGCTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (16 bp):
AATAATTTGAATTTGA
Found at i:14523039 original size:27 final size:28
Alignment explanation
Indices: 14523009--14523064 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
14522999 ACCATTTTTC
14523009 TAAATA-AAAAAGTACAATTTCATTAGT
1 TAAATATAAAAAGTACAATTTCATTAGT
* *
14523036 TAAATATAAAAAGTGCAATTTCTTTAGT
1 TAAATATAAAAAGTACAATTTCATTAGT
14523064 T
1 T
14523065 GGTAGTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (28 bp):
TAAATATAAAAAGTACAATTTCATTAGT
Found at i:14526842 original size:22 final size:21
Alignment explanation
Indices: 14526804--14526845 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
14526794 AAAAACATAA
* *
14526804 AATTAAATGTAATCAAATGAC
1 AATTAAAAGTAAACAAATGAC
14526825 AATTAACAAGTAAACAAATGA
1 AATTAA-AAGTAAACAAATGA
14526846 ATTGAAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (21 bp):
AATTAAAAGTAAACAAATGAC
Found at i:14553325 original size:61 final size:61
Alignment explanation
Indices: 14553251--14553415 Score: 233
Period size: 61 Copynumber: 2.7 Consensus size: 61
14553241 AATAGTTGTC
*
14553251 TATTGGTGGCATCAATATAGCCTAAAATATTCCAACAAAAAAGGGCTTTACTAA-GGTTGAA
1 TATTGGTGGCATCAATATAGCCTAAAATATTCCAACAAAAAAGAGCTTTACTAATGGTTG-A
* * * * *
14553312 TATTGGTGACATCAATATAGTCTAAAATATTCCAATAGAAAAGAGTTTTACTAATGGTTGA
1 TATTGGTGGCATCAATATAGCCTAAAATATTCCAACAAAAAAGAGCTTTACTAATGGTTGA
**
14553373 TGATTATTGGCATCAATATAGCCTAAAATATTCCAACAAAAAA
1 T-ATTGGTGGCATCAATATAGCCTAAAATATTCCAACAAAAAA
14553416 AGGCATCAGT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 50 0.56
62 40 0.44
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (61 bp):
TATTGGTGGCATCAATATAGCCTAAAATATTCCAACAAAAAAGAGCTTTACTAATGGTTGA
Found at i:14553920 original size:23 final size:20
Alignment explanation
Indices: 14553875--14553926 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 20
14553865 TTATTAAAAT
14553875 TAATAAAAAAAT-ATTATTA
1 TAATAAAAAAATAATTATTA
14553894 -AATAAAATAAATAATTAATTA
1 TAATAAAA-AAATAATT-ATTA
14553915 GTAATAAAAAAA
1 -TAATAAAAAAA
14553927 ATAAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 3 0.11
21 4 0.14
22 3 0.11
23 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAAAAAAATAATTATTA
Found at i:14553928 original size:23 final size:21
Alignment explanation
Indices: 14553875--14553930 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
14553865 TTATTAAAAT
14553875 TAAT-AAAAAAAT-ATTATTA
1 TAATAAAAAAAATAATTATTA
*
14553894 -AATAAAATAAATAATTAATTA
1 TAATAAAAAAAATAATT-ATTA
14553915 GTAATAAAAAAAATAA
1 -TAATAAAAAAAATAA
14553931 AAAGAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 3 0.10
21 4 0.13
23 13 0.43
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
TAATAAAAAAAATAATTATTA
Found at i:14555315 original size:21 final size:23
Alignment explanation
Indices: 14555273--14555327 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 23
14555263 AAAACAAAAT
14555273 AATAAATATAAAATTTATAATAATG
1 AATAAATA-AAAA-TTATAATAATG
14555298 AATAAATAAAAA-TA-AATAATG
1 AATAAATAAAAATTATAATAATG
14555319 AA-AAATAAA
1 AATAAATAAA
14555328 GTTTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.23
21 9 0.30
22 2 0.07
24 4 0.13
25 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAAATAAAAATTATAATAATG
Found at i:14555334 original size:21 final size:20
Alignment explanation
Indices: 14555240--14555335 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
14555230 TTAGTATATT
*
14555240 AAAATAAATGT-AATAATGA
1 AAAATAAATTTAAATAATGA
**
14555259 CAAAA-AAA-CAAAATAAT-A
1 -AAAATAAATTTAAATAATGA
*
14555277 AATATAAAATTTATAATAATGA
1 AAAAT-AAATTTA-AATAATGA
**
14555299 ATAAATAAAAATAAATAATGA
1 A-AAATAAATTTAAATAATGA
14555320 AAAATAAAGTTTAAAT
1 AAAATAAA-TTTAAAT
14555336 TTTTTATAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.05
18 1 0.02
19 12 0.21
20 12 0.21
21 20 0.34
22 7 0.12
23 3 0.05
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAATAAATTTAAATAATGA
Found at i:14555755 original size:33 final size:33
Alignment explanation
Indices: 14555680--14555755 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 33
14555670 AACATAAAAT
14555680 AAAATAAAAA-TTAACTAAAAAATTATTAAATAA
1 AAAATAAAAATTTAACT-AAAAATTATTAAATAA
*
14555713 AAAAT-AAAATTTAACT-AAACTTATT-AATAA
1 AAAATAAAAATTTAACTAAAAATTATTAAATAA
14555743 AGATAATAAAAAT
1 A-A-AATAAAAAT
14555756 AAAGGAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 6 0.16
31 9 0.24
32 7 0.18
33 16 0.42
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (33 bp):
AAAATAAAAATTTAACTAAAAATTATTAAATAA
Found at i:14563632 original size:19 final size:18
Alignment explanation
Indices: 14563573--14563634 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
14563563 AATGTTTCAC
14563573 AAAAAAAA-AAAGA--AA
1 AAAAAAAAGAAAGAGCAA
* *
14563588 GAAAAAGAA-AAAGTGCAA
1 -AAAAAAAAGAAAGAGCAA
14563606 AAAAAAAAGAAAGAGCAA
1 AAAAAAAAGAAAGAGCAA
14563624 AAAAGAAAAGA
1 AAAA-AAAAGA
14563635 CATACACCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
16 11 0.29
17 7 0.18
18 14 0.37
19 6 0.16
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAAAGAGCAA
Found at i:14565458 original size:23 final size:23
Alignment explanation
Indices: 14565414--14565479 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
14565404 GATAAGAATC
* * * *
14565414 AAACCTAGATTAACTAGAACTTT
1 AAACCCAGATTAGCAAGCACTTT
14565437 AAACCCA-ATTTAGCAAGCACTTT
1 AAACCCAGA-TTAGCAAGCACTTT
* *
14565460 AAGCCCAGATTAGCTAGCAC
1 AAACCCAGATTAGCAAGCAC
14565480 CCAAGCTAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (23 bp):
AAACCCAGATTAGCAAGCACTTT
Found at i:14565559 original size:123 final size:124
Alignment explanation
Indices: 14565335--14565561 Score: 314
Period size: 123 Copynumber: 1.8 Consensus size: 124
14565325 AAATGATGAC
*
14565335 TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTTAAGCCTAGTTTAGCTACCA
1 TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTTAAGCCCAGTTTAGCTACCA
*
14565400 CCCAGATAAGAATCAAACCTAGATTAACTAGAACTTTAAACCCAATTTAGCAAGCACTT
66 CCCAGATAAGAATCAAACCTAGATGAACTAGAACTTTAAACCCAATTTAGCAAGCACTT
* * * * **
14565459 TAAGCCCAGATTAGCTAGCACCCAAG-CTAGATTAGTTGGCTCTTTGAA-CCCAGTTTAGTTGGC
1 TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTT-AAGCCCAGTTTAGCTACC
* * * * *
14565522 ACCTAGATAAGAATCAAGCCTATATGAGCTAGCACTTTAA
65 ACCCAGATAAGAATCAAACCTAGATGAACTAGAACTTTAA
14565562 GCCTAAGATT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
123 63 0.71
124 26 0.29
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (124 bp):
TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTTAAGCCCAGTTTAGCTACCA
CCCAGATAAGAATCAAACCTAGATGAACTAGAACTTTAAACCCAATTTAGCAAGCACTT
Found at i:14565585 original size:123 final size:124
Alignment explanation
Indices: 14565335--14565595 Score: 312
Period size: 123 Copynumber: 2.1 Consensus size: 124
14565325 AAATGATGAC
*
14565335 TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTTAAGCCTAGTTTAGCTACCA
1 TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTTAAGCCCAGTTTAGCTACCA
* *
14565400 CCCAGATAAGAATCAAACCTAGATTAACTAGAACTTTAAACCCAATTTAGCAAGCACTT
66 CCCAGATAAGAATCAAACCTAGATGAACTAGAACTTTAAACCCAAATTAGCAAGCACTT
* * * * **
14565459 TAAGCCCAGATTAGCTAGCACCCAAG-CTAGATTAGTTGGCTCTTTGAA-CCCAGTTTAGTTGGC
1 TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTT-AAGCCCAGTTTAGCTACC
* * * * * * * ***
14565522 ACCTAGATAAGAATCAAGCCTATATGAGCTAGCACTTTAAGCCTAAGATTAGTTGGCAC-T
65 ACCCAGATAAGAATCAAACCTAGATGAACTAGAACTTTAAACCCAA-ATTAGCAAGCACTT
14565582 TAAGCCCAAATTAG
1 TAAGCCCAAATTAG
14565596 TTGGCACTAA
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
123 81 0.70
124 34 0.30
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (124 bp):
TAAGCCCAAATTAGCTAGCAACCAAGTCTAGATTAGTTGGCACTTTAAGCCCAGTTTAGCTACCA
CCCAGATAAGAATCAAACCTAGATGAACTAGAACTTTAAACCCAAATTAGCAAGCACTT
Found at i:14565597 original size:22 final size:23
Alignment explanation
Indices: 14565553--14565603 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
14565543 ATATGAGCTA
*
14565553 GCACTTTAAGCCTAAGATTAGTTG
1 GCAC-TTAAGCCCAAGATTAGTTG
14565577 GCACTTAAGCCCAA-ATTAGTTG
1 GCACTTAAGCCCAAGATTAGTTG
14565599 GCACT
1 GCACT
14565604 AACAAGATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 13 0.50
23 9 0.35
24 4 0.15
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
GCACTTAAGCCCAAGATTAGTTG
Found at i:14566885 original size:12 final size:12
Alignment explanation
Indices: 14566854--14566888 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14566844 ACACAGTACC
*
14566854 AAAAAACCCATA
1 AAAAAATCCATA
14566866 AAAAAATCCATA
1 AAAAAATCCATA
*
14566878 AAAGAATCCAT
1 AAAAAATCCAT
14566889 CAACAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAAAATCCATA
Found at i:14566955 original size:29 final size:29
Alignment explanation
Indices: 14566907--14566993 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 29
14566897 AAACACTACT
**
14566907 AACCAAAAAAAAAAGATTGCCAAA-ATGA
1 AACCAAAAAAAAAACTTTGCCAAACATGA
14566935 AACCAACAAAAAAAACTTTGCCAAACA-GAAA
1 AACCAA-AAAAAAAACTTTGCCAAACATG--A
*
14566966 AAGCTAAAAAAAAAACTTTGCCAAACAT
1 AA-CCAAAAAAAAAACTTTGCCAAACAT
14566994 CAAAAAAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 6 0.12
29 17 0.34
30 1 0.02
31 23 0.46
32 3 0.06
ACGTcount: A:0.61, C:0.18, G:0.08, T:0.13
Consensus pattern (29 bp):
AACCAAAAAAAAAACTTTGCCAAACATGA
Found at i:14567007 original size:31 final size:30
Alignment explanation
Indices: 14566912--14567008 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 30
14566902 CTACTAACCA
** **
14566912 AAAAAAAAAGATTGCCAAA-ATGAAACCAAC
1 AAAAAAAAACTTTGCCAAACAT-AAAAAAAC
* *
14566942 -AAAAAAAACTTTGCCAAACA-GAAAAAGC
1 AAAAAAAAACTTTGCCAAACATAAAAAAAC
14566970 TAAAAAAAAAACTTTGCCAAACATCAAAAAAAC
1 --AAAAAAAAACTTTGCCAAACAT-AAAAAAAC
14567003 AAAAAA
1 AAAAAA
14567009 GAGAAAAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.08
29 16 0.30
30 1 0.02
31 26 0.49
33 6 0.11
ACGTcount: A:0.65, C:0.16, G:0.07, T:0.11
Consensus pattern (30 bp):
AAAAAAAAACTTTGCCAAACATAAAAAAAC
Found at i:14567007 original size:32 final size:31
Alignment explanation
Indices: 14566942--14567008 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
14566932 TGAAACCAAC
* *
14566942 AAAAAAAACTTTGCCAAACAGAAAAAGCTAA
1 AAAAAAAACTTTGCCAAACAAAAAAAACTAA
14566973 AAAAAAAACTTTGCCAAACATCAAAAAAAC-AA
1 AAAAAAAACTTTGCCAAACA--AAAAAAACTAA
14567005 AAAA
1 AAAA
14567009 GAGAAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 20 0.62
32 6 0.19
33 6 0.19
ACGTcount: A:0.66, C:0.16, G:0.06, T:0.12
Consensus pattern (31 bp):
AAAAAAAACTTTGCCAAACAAAAAAAACTAA
Found at i:14567567 original size:11 final size:10
Alignment explanation
Indices: 14567531--14567567 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
14567521 CGTTGGCTGA
14567531 CATTGACCAC
1 CATTGACCAC
*
14567541 CATTGACCAA
1 CATTGACCAC
14567551 CATTGACTCAC
1 CATTGAC-CAC
14567562 CATTGA
1 CATTGA
14567568 TTGGCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.24
Consensus pattern (10 bp):
CATTGACCAC
Done.