Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 116 of 328
Found at i:32872305 original size:175 final size:175
Alignment explanation
Indices: 32872014--32872363 Score: 682
Period size: 175 Copynumber: 2.0 Consensus size: 175
32872004 ATAGATCAAG
32872014 ATTTGAACCAATCAGTAGAAAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAATCGTGT
1 ATTTGAACCAATCAGTAGAAAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAATCGTGT
32872079 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
66 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
32872144 TATTTTTTTATTGCTGGTTAGAAATTATATATATATATATATATA
131 TATTTTTTTATTGCTGGTTAGAAATTATATATATATATATATATA
* *
32872189 ATTTGAACCAATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
1 ATTTGAACCAATCAGTAGAAAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAATCGTGT
32872254 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
66 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
32872319 TATTTTTTTATTGCTGGTTAGAAATTATATATATATATATATATA
131 TATTTTTTTATTGCTGGTTAGAAATTATATATATATATATATATA
32872364 TAAAGTTTTG
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 173 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (175 bp):
ATTTGAACCAATCAGTAGAAAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAATCGTGT
TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
TATTTTTTTATTGCTGGTTAGAAATTATATATATATATATATATA
Found at i:32874116 original size:26 final size:25
Alignment explanation
Indices: 32874087--32874221 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 25
32874077 TGGTACAAAT
32874087 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
32874113 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
32874138 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
32874164 TGATAAT-GTGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATG-TTCA
*
32874190 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
32874216 TGATAA
1 TGATAA
32874222 GAATTTCATG
Statistics
Matches: 105, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.24
26 77 0.73
27 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:32874143 original size:51 final size:51
Alignment explanation
Indices: 32874087--32874221 Score: 211
Period size: 51 Copynumber: 2.6 Consensus size: 51
32874077 TGGTACAAAT
32874087 TGATAATAGGTTAGGTAAATGTTCAATGATAATAG-GTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTC-ATGATAAT-GTGTTAGGTAAATGTTTCA
32874138 TGATAATAGGTTAGGTAAATGTTCCATGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGTGTTAGGTAAATGTTTCA
*
32874190 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
32874222 GAATTTCATG
Statistics
Matches: 79, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
50 1 0.01
51 43 0.54
52 33 0.42
53 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGTGTTAGGTAAATGTTTCA
Found at i:32875879 original size:27 final size:27
Alignment explanation
Indices: 32875838--32875950 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 27
32875828 GAGGAAGCGT
*
32875838 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
32875865 TCTGGTAGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* ** *
32875892 TTTGGTGGCTCTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
32875920 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
32875946 TCTGG
1 TCTGG
32875951 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
26 5 0.07
27 51 0.74
28 13 0.19
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:32875943 original size:54 final size:54
Alignment explanation
Indices: 32875840--32875946 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
32875830 GGAAGCGTTC
32875840 TGGTGGCTATGCCACAAATATCTGATCTGGTAGCTCTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAAATATCTGATCTGGTAGCTCTGCCACATATATCTGTTT
* ** * *
32875894 TGGTGGCTCTGCCATGATTATCTGTATCTGGT-GACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAAATATCTG-ATCTGGTAG-CTCTGCCACATATATCTGTT
32875947 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTGATCTGGTAGCTCTGCCACATATATCTGTTT
Found at i:32877458 original size:15 final size:16
Alignment explanation
Indices: 32877438--32877476 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
32877428 AATTGGAAAG
*
32877438 ATGAAAAGTT-ATTAA
1 ATGAAAAATTAATTAA
32877453 ATGAAAAATTAATTAA
1 ATGAAAAATTAATTAA
32877469 ATGAAAAA
1 ATGAAAAA
32877477 GAAAACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (16 bp):
ATGAAAAATTAATTAA
Found at i:32893239 original size:31 final size:31
Alignment explanation
Indices: 32893198--32893259 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
32893188 TCCTGTAAAA
*
32893198 AATTCCAACAAGGTTGAAGCTCATGTATAGT
1 AATTCCAACAAGGTTGAAACTCATGTATAGT
* *
32893229 AATTCTAACAAGGTTGAAATTCATGTATAGT
1 AATTCCAACAAGGTTGAAACTCATGTATAGT
32893260 TTTGATCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (31 bp):
AATTCCAACAAGGTTGAAACTCATGTATAGT
Found at i:32893290 original size:18 final size:20
Alignment explanation
Indices: 32893267--32893307 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32893257 AGTTTTGATC
32893267 TTTATCC-AT-TTTCTTAAA
1 TTTATCCTATATTTCTTAAA
*
32893285 TTTATCCTTTATTTCTTAAA
1 TTTATCCTATATTTCTTAAA
32893305 TTT
1 TTT
32893308 TGTTTCTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATCCTATATTTCTTAAA
Found at i:32896607 original size:32 final size:32
Alignment explanation
Indices: 32896567--32896627 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
32896557 TGTAAGCTTA
*
32896567 TTTGTTTTCTTATTGTGAGGATATTTTAATCG
1 TTTGTTTTCTTATTGTGAGAATATTTTAATCG
32896599 TTTGTTTTCTTATTGTGAGAATATTTTAA
1 TTTGTTTTCTTATTGTGAGAATATTTTAA
32896628 CAATATAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.57
Consensus pattern (32 bp):
TTTGTTTTCTTATTGTGAGAATATTTTAATCG
Found at i:32898980 original size:6 final size:6
Alignment explanation
Indices: 32898969--32899007 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
32898959 TTTTTGATGT
32898969 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
32899008 CAAAACTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:32901098 original size:21 final size:21
Alignment explanation
Indices: 32901070--32901125 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
32901060 AACAGCGGTG
*
32901070 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
32901091 GTGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
32901112 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
32901126 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:32915938 original size:23 final size:23
Alignment explanation
Indices: 32915911--32915960 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
32915901 AGCCCGTGTG
*
32915911 GCCCACACACCCAGATTAGTCTT
1 GCCCACACACCCAGATTAGCCTT
*
32915934 GCCCACACACCCAGATTGGCCTT
1 GCCCACACACCCAGATTAGCCTT
32915957 GCCC
1 GCCC
32915961 GTGTGGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.44, G:0.16, T:0.18
Consensus pattern (23 bp):
GCCCACACACCCAGATTAGCCTT
Found at i:32922723 original size:30 final size:29
Alignment explanation
Indices: 32922667--32922723 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
32922657 CTCTTTTCTC
* *
32922667 TCTATTTTCTTCATCTCTTTTATGATTTT
1 TCTATTTTCTTCAACTCATTTATGATTTT
* *
32922696 TCTAGTTTTCTTCAACTGATTTCTGATT
1 TCTA-TTTTCTTCAACTCATTTATGATT
32922724 AATGTTCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.16, C:0.18, G:0.07, T:0.60
Consensus pattern (29 bp):
TCTATTTTCTTCAACTCATTTATGATTTT
Found at i:32931298 original size:46 final size:46
Alignment explanation
Indices: 32931238--32931548 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
32931228 TTTGACATGA
* * * * * *
32931238 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
32931284 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---CAT-T---GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32931321 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
32931367 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32931413 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
32931459 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32931505 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
32931549 AGAGCACACT
Statistics
Matches: 243, Mismatches: 12, Indels: 20
0.88 0.04 0.07
Matches are distributed among these distances:
37 29 0.12
39 3 0.01
40 2 0.01
41 1 0.00
42 3 0.01
43 1 0.00
44 2 0.01
46 202 0.83
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:32934043 original size:30 final size:30
Alignment explanation
Indices: 32933976--32934043 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
32933966 CACCCTTAAA
* * *
32933976 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
32934006 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
32934035 AGTATTTAC
1 A-TATTTAC
32934044 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:32939058 original size:16 final size:18
Alignment explanation
Indices: 32939020--32939060 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
32939010 CTGCATCTCA
*
32939020 ATATAGGCTCTCATACTT
1 ATATAGGCTATCATACTT
*
32939038 ATATAGGCTATCATATTT
1 ATATAGGCTATCATACTT
32939056 ATATA
1 ATATA
32939061 AGGTTCACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (18 bp):
ATATAGGCTATCATACTT
Found at i:32940877 original size:43 final size:43
Alignment explanation
Indices: 32940724--32940877 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
32940714 CAATGCGATA
* * * * *
32940724 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCTCAATAT-GATGCCAATG
* * * * * *
32940767 TCCCGGATAGGGTCTTACACGAAATCAT-AATACGATGTCAATG
1 TCCCAGACATGGTCTTACACGTAATC-TCAATATGATGCCAATG
* * *
32940810 TCCTAGACATGGTTTTACACGTAATCTCAATATAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCAATATGATGCCAATG
*
32940853 TCCCAGACATGGTCTTACATGTAAT
1 TCCCAGACATGGTCTTACACGTAAT
32940878 TACATCTAGA
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
42 1 0.01
43 83 0.95
44 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCTCAATATGATGCCAATG
Found at i:32943463 original size:19 final size:19
Alignment explanation
Indices: 32943439--32943488 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
32943429 ACACATATTC
32943439 GACATCTGAATCTTAAACA
1 GACATCTGAATCTTAAACA
32943458 GACATCTGAATCTTAAACA
1 GACATCTGAATCTTAAACA
**
32943477 TTCATCTGAATC
1 GACATCTGAATC
32943489 AACTTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (19 bp):
GACATCTGAATCTTAAACA
Found at i:32948577 original size:43 final size:43
Alignment explanation
Indices: 32948476--32948578 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
32948466 TCTTTGATAG
* * *
32948476 GGTCTTACACGAAATCATAATACGATGTCAATGCCCCAGACAT
1 GGTCTTACACGTAATCATAATACAATGCCAATGCCCCAGACAT
* * *
32948519 GGTTTTACACATAATC-TCAATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAT-AATACAATGCCAATGCCCCAGACAT
*
32948562 GGTCTTACATGTAATCA
1 GGTCTTACACGTAATCA
32948579 CATCTCGATA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.02
43 48 0.98
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCATAATACAATGCCAATGCCCCAGACAT
Found at i:32951137 original size:43 final size:44
Alignment explanation
Indices: 32951017--32951173 Score: 151
Period size: 43 Copynumber: 3.6 Consensus size: 44
32951007 AGCTAGTCCA
* *
32951017 ATGCCAACGTCCCAGACACGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCAAATATCG
* * *
32951060 ATGCCACTGTCCCAGACAAGGCCTTACACG-AAATCAAATAT-G
1 ATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCAAATATCG
* ** * *
32951102 ATGCCAATGTCTCAGACGTGGTCTTAAATGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCA-AATATCG
* * **
32951146 ATGCCAACGTCCCAAACTTGGTCTTACA
1 ATGCCAATGTCCCAGACAAGGTCTTACA
32951174 CGATAACACA
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 24 0.26
43 42 0.46
44 26 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCAAATATCG
Found at i:32951172 original size:86 final size:85
Alignment explanation
Indices: 32951017--32951176 Score: 189
Period size: 86 Copynumber: 1.9 Consensus size: 85
32951007 AGCTAGTCCA
* *
32951017 ATGCCAACGTCCCAGACACGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGC
1 ATGCCAACGTCCCAGACACGGTCTTAAATGTAATCAAATATCGATGCCACTGTCCCAAACAAGGC
32951082 CTTACACGAAATCAAATATG
66 CTTACACGAAATCAAATATG
* * ** * **
32951102 ATGCCAATGTCTCAGACGTGGTCTTAAATGTAAATCATAA-GTCGATGCCAAC-GTCCCAAACTT
1 ATGCCAACGTCCCAGACACGGTCTTAAATGT-AATCA-AATATCGATGCC-ACTGTCCCAAACAA
*
32951165 GGTCTTACACGA
63 GGCCTTACACGA
32951177 TAACACATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 26 0.42
86 32 0.52
87 4 0.06
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACACGGTCTTAAATGTAATCAAATATCGATGCCACTGTCCCAAACAAGGC
CTTACACGAAATCAAATATG
Found at i:32955658 original size:40 final size:40
Alignment explanation
Indices: 32955603--32955684 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
32955593 TCAGTCCTCA
32955603 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
1 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
32955643 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
1 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
32955683 GA
1 GA
32955685 TATTCATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (40 bp):
GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
Found at i:32956159 original size:2 final size:2
Alignment explanation
Indices: 32956154--32956185 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
32956144 ATGCAAATTC
*
32956154 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32956186 CGCAGATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32958400 original size:43 final size:41
Alignment explanation
Indices: 32958334--32958513 Score: 146
Period size: 43 Copynumber: 4.2 Consensus size: 41
32958324 TACACCGAAA
* * * * *
32958334 CAACTATACTAGCATACATAGTGCATCACCGAACATACTAAAG
1 CAACTATAC-GGCACACACAGTGCATCATCGAA-ATACCAAAG
* *
32958377 CAACTATATCGGCACACACAGTGCATCATCGGGTAA-ACCAAAA
1 CAACTATA-CGGCACACACAGTGCATCATC--GAAATACCAAAG
* * * *
32958420 CAAATATACTGGCACACATAGTGCATCATTGAATTACCAAAG
1 CAACTATAC-GGCACACACAGTGCATCATCGAAATACCAAAG
* * * *
32958462 AAACTATACCGGCACACACAGTGCATCATCAGATATATCGAAG
1 CAACTATA-CGGCACACACAGTGCATCATC-GAAATACCAAAG
32958505 CAACTATAC
1 CAACTATAC
32958514 TAACACACAG
Statistics
Matches: 108, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 32 0.30
43 70 0.65
44 2 0.02
45 2 0.02
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.20
Consensus pattern (41 bp):
CAACTATACGGCACACACAGTGCATCATCGAAATACCAAAG
Found at i:32958513 original size:85 final size:86
Alignment explanation
Indices: 32958314--32958522 Score: 258
Period size: 85 Copynumber: 2.4 Consensus size: 86
32958304 ACTCATAATA
* * * *
32958314 CATCATCAGATACACCGAAACAACTATACTAGCATACATAGTGCATCACCGAACATACTAAAGCA
1 CATCATCAGATAAACCGAAACAACTATACTAGCACACATAGTGCATCACCGAACATACCAAAGAA
*
32958379 ACTATATCGGCACACACAGTG
66 ACTATACCGGCACACACAGTG
* * * * * ** *
32958400 CATCATCGGGTAAACCAAAACAAATATACTGGCACACATAGTGCATCATTGAA-TTACCAAAGAA
1 CATCATCAGATAAACCGAAACAACTATACTAGCACACATAGTGCATCACCGAACATACCAAAGAA
32958464 ACTATACCGGCACACACAGTG
66 ACTATACCGGCACACACAGTG
* * * *
32958485 CATCATCAGATATATCGAAGCAACTATACTAACACACA
1 CATCATCAGATAAACCGAAACAACTATACTAGCACACA
32958523 GTGTGACATC
Statistics
Matches: 101, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
85 57 0.56
86 44 0.44
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (86 bp):
CATCATCAGATAAACCGAAACAACTATACTAGCACACATAGTGCATCACCGAACATACCAAAGAA
ACTATACCGGCACACACAGTG
Found at i:32962038 original size:17 final size:15
Alignment explanation
Indices: 32961999--32962028 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32961989 GTATTGTACG
*
32961999 ATATGTTTCAACTTA
1 ATATATTTCAACTTA
32962014 ATATATTTCAACTTA
1 ATATATTTCAACTTA
32962029 CATTCTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATATTTCAACTTA
Found at i:32965874 original size:35 final size:35
Alignment explanation
Indices: 32965805--32965932 Score: 139
Period size: 35 Copynumber: 3.6 Consensus size: 35
32965795 AGTACATCAA
* * *
32965805 CAATCCAACCAAAACACATCAAATGCTCACAAGAGC
1 CAATCCAACTAAAACACA-CCAATGCTCATAAGAGC
*
32965841 CAATCCATCTAAAACACACCAATGCTCATAAGAGC
1 CAATCCAACTAAAACACACCAATGCTCATAAGAGC
* ** * *
32965876 TAATCCCTCTGAAACACACCAATGCTCATAAAAGC
1 CAATCCAACTAAAACACACCAATGCTCATAAGAGC
* * *
32965911 TAATCCAACTGAAACCCACCAA
1 CAATCCAACTAAAACACACCAA
32965933 AACAGAGAGT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 65 0.80
36 16 0.20
ACGTcount: A:0.44, C:0.33, G:0.08, T:0.16
Consensus pattern (35 bp):
CAATCCAACTAAAACACACCAATGCTCATAAGAGC
Found at i:32967399 original size:35 final size:34
Alignment explanation
Indices: 32967226--32967441 Score: 202
Period size: 35 Copynumber: 6.2 Consensus size: 34
32967216 GGCTGTTATA
32967226 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAT-
1 GGTGTTGTGGCG-AATATTAAATGAATGAAGT-ATC
* **
32967261 GATGTTGTGGCAGAATATTAAATGAATGAAGTAAG
1 GGTGTTGTGGC-GAATATTAAATGAATGAAGTATC
*
32967296 GGTGTTGTGGCGAATTATTAAAAT-AATGAAGTAAC
1 GGTGTTGTGGCGAA-TATT-AAATGAATGAAGTATC
* *
32967331 AGTGTTGTGGCGGGATATTAAATGAATGAAGTATC
1 GGTGTTGTGGC-GAATATTAAATGAATGAAGTATC
* * *
32967366 GGTGTTGTGGCAGTATGTTAAAAGAATGAAGTATC
1 GGTGTTGTGGC-GAATATTAAATGAATGAAGTATC
* ** * * * *
32967401 GGTGTAGTAACGGGATGTTAATTGAAAGAAGTATC
1 GGTGTTGTGGC-GAATATTAAATGAATGAAGTATC
32967436 GGTGTT
1 GGTGTT
32967442 CTGGAAAAAT
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
34 8 0.05
35 139 0.90
36 7 0.05
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (34 bp):
GGTGTTGTGGCGAATATTAAATGAATGAAGTATC
Found at i:32972696 original size:20 final size:20
Alignment explanation
Indices: 32972671--32972736 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
32972661 ACGAGCTTCC
32972671 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
* * *
32972691 GTTAACCCATTTGGGGTTTCA
1 GTTAACTCATAT-GAGTTTCA
*
32972712 GTTCAACTC-TGATGAGCTTCA
1 GTT-AACTCAT-ATGAGTTTCA
32972733 GTTA
1 GTTA
32972737 GCCTCCGGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 11 0.31
21 20 0.56
22 5 0.14
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
GTTAACTCATATGAGTTTCA
Found at i:32972773 original size:39 final size:39
Alignment explanation
Indices: 32972727--32972801 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
32972717 ACTCTGATGA
32972727 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
32972766 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTA
32972802 CCGTTTAGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.13, C:0.28, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:32972807 original size:14 final size:14
Alignment explanation
Indices: 32972788--32972815 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32972778 CTTCGGGCTT
32972788 CCGTTTAGCACTTA
1 CCGTTTAGCACTTA
32972802 CCGTTTAGCACTTA
1 CCGTTTAGCACTTA
32972816 TGTGCTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
CCGTTTAGCACTTA
Found at i:32972811 original size:53 final size:53
Alignment explanation
Indices: 32972749--32972854 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
32972739 CTCCGGGCTT
32972749 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
32972802 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
32972855 TGTGCTTCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (53 bp):
CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
Found at i:32972879 original size:39 final size:39
Alignment explanation
Indices: 32972802--32972880 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
32972792 TTAGCACTTA
* * *
32972802 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTT
1 CCGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
*
32972841 CCGTTTAGCACTTATGTGCTTCAGCTAGATTTCAGGCTT
1 CCGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
32972880 C
1 C
32972881 AGATCACGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (39 bp):
CCGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
Found at i:32979713 original size:369 final size:364
Alignment explanation
Indices: 32979076--32980157 Score: 1511
Period size: 369 Copynumber: 3.0 Consensus size: 364
32979066 TTTGGTTAGT
* ** ** *
32979076 TGAAAATGCAGCTGCTTAAGGAGATAAGAAGTGCATGCAAAGCAATAAAATGAGGATATGGGCTT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATA-AGGCTT
** * * *
32979141 CAATCATTTGATGAAGTGACAATGCAACACTTAGCGAATGTTAAATTGACCATCTTGAAATGAAG
65 CAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAG
* *
32979206 TCATATGGACAGTTGACCTTCTAAGTTCCAACATTGGTGAATTGCCCGTACAATG-TTAGAGAGT
130 -CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAA-GATTAGAGAGT
** *
32979270 AAATGCTATGGAGGAATTCAACTTCAAGTTT-CAGACAAGAAAATAAGAAGCTGCAACCTTAGAT
193 AAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGAT
*
32979334 TATTACATAAACTGGTGAACACTTGAAGATTGGCATTCACTAAGGAATAAGTGCAAAGCTAGCAG
258 TATTACATAAACTGGT-AACA-TTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCAG
*
32979399 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTATAA
321 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
**
32979443 TGAAACTGTGGCCACTTAAGGAGATAAGAAGTGCATATAGAAGCAATAGAAATGAGGATAAGAGC
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATA-AAGCAATA-AAATGAGGATAAG-GC
* * * *
32979508 TTCAATCATTTGATGAAGTGACAATGTGCCATTTAGCAAATGATAAATTGACCACCTTGGAAGGA
63 TTCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGA
* * *
32979573 AGCCATATGGACACTTGACCTTCTAAGTTCTAA-ATTGGTGCATTGCCAGTAGAAGATTAGAGAG
128 AG-CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAG
* * ** *
32979637 TAAATGCCATGAAGGAATTTGACTTCAAGTTTACAAATGAGAAAATAAGAAGCTGCAATCTTAGA
192 TAAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGA
* * *
32979702 TTATTACATAAACTGGTAA-ATAGAAGATCGGCATTCAATAAGGAATAAGTACAAAGCTAGCAGC
257 TTATTACATAAACTGGTAACATTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCAGC
*
32979766 TACTAGAGAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
322 TACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
* *
32979809 TGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAACAATAAAAATGAGG-T-AGGCT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATAT-AAAGCAAT-AAAATGAGGATAAGGCT
* * *
32979872 TCAATCATTGGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTCGGAATTAA
64 TCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAA
* * *
32979937 G---ATGGACAGTAGGCCTTCTAAGTTCTAACATTGGTGTATTGCCAGTACAAGATTAGAGAGTA
129 GCATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTA
32979999 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
194 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
* * * *
32980064 ATTACATAAAATGGCAAACATTTGAAGATTGGGATTCAATAATGAATAAGTGCAAAGCTAG-ATG
259 ATTACATAAACTGG-TAACA-TTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCA-G
*
32980128 CTACTAGAAATAA-TAGAATTTAGCATAGCA
321 CTACTAGAAA-AAGTAGAATTTTGCATAGCA
32980158 CGGATATAAT
Statistics
Matches: 635, Mismatches: 67, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
359 24 0.04
360 104 0.16
361 2 0.00
362 2 0.00
363 123 0.19
364 4 0.01
365 1 0.00
366 130 0.20
367 36 0.06
368 65 0.10
369 144 0.23
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (364 bp):
TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATAAGGCTTC
AATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAGC
ATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTAAA
TGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATTAT
TACATAAACTGGTAACATTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCAGCTACT
AGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
Found at i:32981911 original size:60 final size:57
Alignment explanation
Indices: 32981829--32981944 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 57
32981819 ACACTGAAAC
* * * *
32981829 CAAACTTAGGTACTTAAATGGGACAAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAGT
1 CAAACTTAAGTACTCAAATGGGAC--A-AAAAACTCAAATACCAAAGTGAACATTGAAGT
* *
32981889 CAAACTTAAGTAC-CAAATTGGGACAAAAAACTCAAATACCGAATTGAACATTGAAG
1 CAAACTTAAGTACTCAAA-TGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAG
32981945 CTAAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 27 0.55
58 1 0.02
59 3 0.06
60 18 0.37
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (57 bp):
CAAACTTAAGTACTCAAATGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAGT
Found at i:32982674 original size:24 final size:24
Alignment explanation
Indices: 32982630--32982676 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
32982620 TTTGACAAGT
32982630 TTAGGTACAAATTGAGAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAGC
32982654 TTAGGTACCAAATT-AGGAAAAAA
1 TTAGGTA-CAAATTGA-GAAAAAA
32982677 ATGTCAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (24 bp):
TTAGGTACAAATTGAGAAAAAAGC
Found at i:32985708 original size:24 final size:25
Alignment explanation
Indices: 32985655--32985702 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
32985645 TTAGCCCTCT
* *
32985655 CGAGCTTCCCGTTATATAGTTTTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
32985680 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
32985703 CAGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:32992883 original size:21 final size:21
Alignment explanation
Indices: 32992857--32992898 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
32992847 AAATGATAGC
**
32992857 AAAAAAAAGTAAAA-AAAACA
1 AAAAAAAAACAAAACAAAACA
32992877 AAAAAAAAACAAAACAAAACA
1 AAAAAAAAACAAAACAAAACA
32992898 A
1 A
32992899 GAAAGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAAAAACAAAACAAAACA
Found at i:33002468 original size:18 final size:20
Alignment explanation
Indices: 33002445--33002482 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
33002435 CTAAACTGGT
33002445 TTTTATT-AATTT-ATTAAG
1 TTTTATTAAATTTAATTAAG
33002463 TTTTATTAAATTTAATTAAG
1 TTTTATTAAATTTAATTAAG
33002483 GTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTATTAAATTTAATTAAG
Found at i:33019152 original size:71 final size:71
Alignment explanation
Indices: 33019036--33019175 Score: 280
Period size: 71 Copynumber: 2.0 Consensus size: 71
33019026 TTGAGGTGAC
33019036 ATATAAGGAAATGTCTAGAAATTTTGTTTTATTATTATTATTATTATTATTATTATTATTATTAT
1 ATATAAGGAAATGTCTAGAAATTTTGTTTTATTATTATTATTATTATTATTATTATTATTATTAT
33019101 TATTTA
66 TATTTA
33019107 ATATAAGGAAATGTCTAGAAATTTTGTTTTATTATTATTATTATTATTATTATTATTATTATTAT
1 ATATAAGGAAATGTCTAGAAATTTTGTTTTATTATTATTATTATTATTATTATTATTATTATTAT
33019172 TATT
66 TATT
33019176 ATTATTATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56
Consensus pattern (71 bp):
ATATAAGGAAATGTCTAGAAATTTTGTTTTATTATTATTATTATTATTATTATTATTATTATTAT
TATTTA
Found at i:33019202 original size:3 final size:3
Alignment explanation
Indices: 33019064--33019190 Score: 123
Period size: 3 Copynumber: 41.7 Consensus size: 3
33019054 AAATTTTGTT
*
33019064 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* ** * * ** *
33019110 TAA GGAA ATG TCTA GAAA TT- TTG TT- TTA TTA TTA TTA TTA TTA TTA
1 TTA -TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33019156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33019191 TAATCTTATT
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
2 4 0.04
3 94 0.90
4 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:33019526 original size:31 final size:28
Alignment explanation
Indices: 33019470--33019532 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
33019460 TAGATATTTA
*
33019470 TTATTTATTATTATTAAATAAAAGATGT
1 TTATTTATAATTATTAAATAAAAGATGT
* *
33019498 TTATTTGATAATTAATTAAATTATAAGATTT
1 TTATTT-ATAATT-ATTAAA-TAAAAGATGT
33019529 TTAT
1 TTAT
33019533 GAGGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 5 0.17
30 6 0.21
31 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (28 bp):
TTATTTATAATTATTAAATAAAAGATGT
Found at i:33019962 original size:25 final size:25
Alignment explanation
Indices: 33019928--33019984 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
33019918 AGAGAAGAAA
*
33019928 TTTTCTGAGATTCAAGAAGAGATTT
1 TTTTTTGAGATTCAAGAAGAGATTT
* *
33019953 TTTTTTGAGATTCAAGAGGGGATTT
1 TTTTTTGAGATTCAAGAAGAGATTT
33019978 TTCTTTT
1 TT-TTTT
33019985 TTTTAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (25 bp):
TTTTTTGAGATTCAAGAAGAGATTT
Found at i:33020465 original size:3 final size:3
Alignment explanation
Indices: 33020457--33020525 Score: 129
Period size: 3 Copynumber: 22.7 Consensus size: 3
33020447 TGCATTTTAA
33020457 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33020505 TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT -TAT TA
33020526 GTGTATATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:33020628 original size:3 final size:3
Alignment explanation
Indices: 33020620--33020646 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33020610 TGTATTTCTA
33020620 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
33020647 AATATGGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33020775 original size:16 final size:15
Alignment explanation
Indices: 33020744--33020786 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
33020734 CCTTCATTCC
*
33020744 ATTATTATTATTACT
1 ATTATTATTTTTACT
33020759 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
33020775 ATCATTATTTTT
1 ATTATTATTTTT
33020787 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:33020876 original size:3 final size:3
Alignment explanation
Indices: 33020852--33021047 Score: 96
Period size: 3 Copynumber: 64.7 Consensus size: 3
33020842 TTACTACCTC
* * * * *
33020852 TAT TAT GTAT TAT TAA TA- TAT TAT TAC TAC TAT TGT TAC TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
33020897 TAT CAT CACT TGT TAT TCT CAT CAC TAT TAT TAT AATT TAT TAT TGT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * *
33020944 TACT TAT TAT T-T TAC TAT TAT TAT CTAA TA- TAT CAT CAT TAT CAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * *
33020989 TAT T-T TCAT TAT AACT TAA TA- GAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33021034 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
33021048 GCACTACTTT
Statistics
Matches: 148, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
2 9 0.06
3 124 0.84
4 15 0.10
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:33020964 original size:11 final size:13
Alignment explanation
Indices: 33020934--33020965 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33020924 TTATTATAAT
33020934 TTATTATTGTTAC
1 TTATTATTGTTAC
33020947 TTATTATT-TTAC
1 TTATTATTGTTAC
33020959 -TATTATT
1 TTATTATT
33020966 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:33021091 original size:12 final size:13
Alignment explanation
Indices: 33021011--33021093 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 13
33021001 AACTTAATAG
*
33021011 ATTATTATTA-TT
1 ATTACTATTATTT
*
33021023 ATTATTATTA-TT
1 ATTACTATTATTT
*
33021035 ATTATTATTA-TT
1 ATTACTATTATTT
** *
33021047 AGCACTACT-TTT
1 ATTACTATTATTT
33021059 ATTACTATTATTT
1 ATTACTATTATTT
*
33021072 AATA-TATTATTT
1 ATTACTATTATTT
33021084 -TTACTATTAT
1 ATTACTATTAT
33021094 CGTCATATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
11 2 0.03
12 51 0.86
13 6 0.10
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (13 bp):
ATTACTATTATTT
Found at i:33021162 original size:22 final size:22
Alignment explanation
Indices: 33021125--33021192 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
33021115 TATTATGTTA
33021125 TTATATCTTTTACTATTATTATTG
1 TTATAT-TTTT-CTATTATTATTG
* * *
33021149 TTGTATTTTTCTATTATTGTTA
1 TTATATTTTTCTATTATTATTG
*
33021171 TTATATTTTTCT-TTATTTTTG
1 TTATATTTTTCTATTATTATTG
33021192 T
1 T
33021193 ATTTACTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.21
22 21 0.55
23 4 0.11
24 5 0.13
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATATTTTTCTATTATTATTG
Found at i:33022428 original size:15 final size:15
Alignment explanation
Indices: 33022408--33022438 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33022398 ACATAGAAGA
33022408 AAAAGAAAGAAAGTT
1 AAAAGAAAGAAAGTT
33022423 AAAAGAAAGAAAGTT
1 AAAAGAAAGAAAGTT
33022438 A
1 A
33022439 CAGAGAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (15 bp):
AAAAGAAAGAAAGTT
Found at i:33024036 original size:12 final size:12
Alignment explanation
Indices: 33024013--33024043 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
33024003 TATGAGAAAG
33024013 TGAAATTATGAAT
1 TGAAA-TATGAAT
33024026 TGAAATATGAAT
1 TGAAATATGAAT
33024038 TGAAAT
1 TGAAAT
33024044 TGAGATATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:33024327 original size:14 final size:15
Alignment explanation
Indices: 33024308--33024341 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33024298 TTGAGATATA
33024308 GAAATAA-AATTTAT
1 GAAATAATAATTTAT
*
33024322 GAAATAATGATTTAT
1 GAAATAATAATTTAT
33024337 GAAAT
1 GAAAT
33024342 GGTTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
GAAATAATAATTTAT
Found at i:33035165 original size:26 final size:26
Alignment explanation
Indices: 33035129--33035238 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
33035119 CATGTAATTC
33035129 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33035155 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
33035181 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
33035207 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33035233 TTATCA
1 TTATCA
33035239 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33038298 original size:20 final size:19
Alignment explanation
Indices: 33038260--33038315 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
33038250 AATAAAAAAA
33038260 TTTATAA-TTTTAAATTTG
1 TTTATAATTTTTAAATTTG
*
33038278 TTTATAATTTTTATGATTTG
1 TTTATAATTTTTA-AATTTG
*
33038298 TTTATAATTTTAAAATTT
1 TTTATAATTTTTAAATTT
33038316 TAAAAGAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.21
19 9 0.27
20 17 0.52
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTAAATTTG
Found at i:33038307 original size:11 final size:11
Alignment explanation
Indices: 33038268--33038307 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
33038258 AATTTATAAT
33038268 TTTA-AATTTG
1 TTTATAATTTG
33038278 TTTATAA-TT-
1 TTTATAATTTG
*
33038287 TTTATGATTTG
1 TTTATAATTTG
33038298 TTTATAATTT
1 TTTATAATTT
33038308 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.24
10 8 0.32
11 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTATAATTTG
Found at i:33041050 original size:150 final size:152
Alignment explanation
Indices: 33040777--33041075 Score: 388
Period size: 150 Copynumber: 2.0 Consensus size: 152
33040767 GATGTGACAT
* *
33040777 TGATACATACACAGATGGGGTGAAATTTACTACATTCCATTCACCGAAGGTGCCAATTTCTAAAT
1 TGATACATACACAGAGGGGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAAT
* * * * *
33040842 TTGGAAACTCAATTGACTTGCGATAACTTTTTAGATAGGATTCTAATATTTCTAGGTCAAT-T-T
66 TTGGAAAATCAATTGAATTGCGACAACTTTTTAGATAGGATACTAACATTTCTAGGTCAATATGT
*
33040905 CCTCATATCGATTGAAGATATG
131 CCTCATATCGATCGAAGATATG
* * * * * *
33040927 TGATACATATACGGAGGGGGTGAAATTTATTAAATTCCATTCACCGAAGGTGTCAATTTTTAAGT
1 TGATACATACACAGAGGGGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAAT
* * * *
33040992 TTGGAAAATCAATTGAATTGTGACAACTTTTTGGATTGGATAC-AGACATTTCTGGGTCAATATG
66 TTGGAAAATCAATTGAATTGCGACAACTTTTTAGATAGGATACTA-ACATTTCTAGGTCAATATG
* *
33041056 TCTTCATATTGATCGAAGAT
130 TCCTCATATCGATCGAAGAT
33041076 CTATCTCTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 1 0.01
150 107 0.85
151 1 0.01
152 17 0.13
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (152 bp):
TGATACATACACAGAGGGGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAAT
TTGGAAAATCAATTGAATTGCGACAACTTTTTAGATAGGATACTAACATTTCTAGGTCAATATGT
CCTCATATCGATCGAAGATATG
Found at i:33043446 original size:20 final size:20
Alignment explanation
Indices: 33043423--33043460 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33043413 CGATGCTTTT
**
33043423 TGTTAATTTTTAGTTTTTAG
1 TGTTAATTGGTAGTTTTTAG
33043443 TGTTAATTGGTAGTTTTT
1 TGTTAATTGGTAGTTTTT
33043461 CTTACATTTT
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:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TGTTAATTGGTAGTTTTTAG
Found at i:33044765 original size:13 final size:14
Alignment explanation
Indices: 33044747--33044779 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33044737 AATCTATGTG
33044747 TTTTTTA-TTTTAT
1 TTTTTTATTTTTAT
33044760 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
33044774 TTTTTT
1 TTTTTT
33044780 CACAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:33057026 original size:24 final size:24
Alignment explanation
Indices: 33056993--33057048 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
33056983 TTTATTTTTA
33056993 TATAAA-TAAA-AAATAAAATTAAT
1 TATAAATTAAAGAAA-AAAATTAAT
*
33057016 TATAAATTAAAGGAAAAAATTAAT
1 TATAAATTAAAGAAAAAAATTAAT
*
33057040 T-TTAATTAA
1 TATAAATTAA
33057049 GGTAATCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 13 0.45
24 14 0.48
25 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
TATAAATTAAAGAAAAAAATTAAT
Found at i:33061067 original size:28 final size:28
Alignment explanation
Indices: 33061035--33061088 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
33061025 TCGTATGTGA
33061035 GTAAATATGTATTAGTTGAATAAGTTGT
1 GTAAATATGTATTAGTTGAATAAGTTGT
33061063 GTAAATATGTATTAGTTGAATAAGTT
1 GTAAATATGTATTAGTTGAATAAGTT
33061089 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (28 bp):
GTAAATATGTATTAGTTGAATAAGTTGT
Found at i:33069971 original size:64 final size:64
Alignment explanation
Indices: 33069870--33069997 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
33069860 TCCCAAGCTA
** * *
33069870 CTTTGCATTCATCAGATGTCTCATCTTTTTCTCAAACTTGCTTGGCTTTTGTCACTTTCTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTGCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
*
33069934 CTTTGCATTCATTAGATGTCTCATCTGCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTGCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
33069998 AATCATCTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.15, C:0.27, G:0.12, T:0.46
Consensus pattern (64 bp):
CTTTGCATTCATCAGATGTCTCATCTGCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
Found at i:33070714 original size:11 final size:11
Alignment explanation
Indices: 33070698--33070728 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33070688 ATGTTCTATA
33070698 TATATATTTTT
1 TATATATTTTT
33070709 TATATATTTTT
1 TATATATTTTT
*
33070720 GATATATTT
1 TATATATTT
33070729 AAAAGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TATATATTTTT
Found at i:33073060 original size:32 final size:32
Alignment explanation
Indices: 33072994--33073061 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
33072984 TTTTTGTTAA
* *
33072994 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
33073026 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
33073058 TGTT
1 TGTT
33073062 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:33073109 original size:32 final size:32
Alignment explanation
Indices: 33073070--33073130 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
33073060 TTAGATATTG
*
33073070 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCATGTTAGATATTGAATTT
* *
33073102 ATTATGTTTTAAGCATGTTGGATATTGAA
1 ATTATGTTTCAAGCATGTTAGATATTGAA
33073131 ATGATTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (32 bp):
ATTATGTTTCAAGCATGTTAGATATTGAATTT
Found at i:33074674 original size:93 final size:93
Alignment explanation
Indices: 33074562--33074733 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33074552 CGCCCATAAG
* *
33074562 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33074627 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
33074655 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33074720 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33074734 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33074730 original size:46 final size:46
Alignment explanation
Indices: 33074555--33074730 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33074545 TGTAACCCGC
* * *
33074555 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
33074601 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33074651 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33074694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33074731 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33082240 original size:93 final size:93
Alignment explanation
Indices: 33082128--33082299 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33082118 CGCCCATAAG
* *
33082128 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33082193 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
33082221 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33082286 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33082300 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33082296 original size:46 final size:46
Alignment explanation
Indices: 33082121--33082296 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33082111 TGTAACCCGC
* * *
33082121 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
33082167 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33082217 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33082260 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33082297 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33084500 original size:22 final size:22
Alignment explanation
Indices: 33084429--33084500 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
33084419 TAATGTGGTG
33084429 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCACTTGGA
* * * *
33084451 CAAAATTGTTGTTAT-CA-TGTGGTG
1 TAATA-T-TAGTTATGCACT-TGG-A
33084475 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCACTTGGA
33084497 TAAT
1 TAAT
33084501 GTTGTTGTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
22 14 0.39
23 12 0.33
24 10 0.28
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (22 bp):
TAATATTAGTTATGCACTTGGA
Found at i:33084543 original size:46 final size:46
Alignment explanation
Indices: 33084421--33084549 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
33084411 GATACTTTTA
* *
33084421 ATGTGGTGTAATATTAGTTATGCACTTGGACAAAATTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
*
33084467 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
* * *
33084513 ATGTGGTGTAATACTAATTATGCATTTGGATAATATT
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATT
33084550 ATTAATTTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (46 bp):
ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
Found at i:33084734 original size:18 final size:19
Alignment explanation
Indices: 33084708--33084743 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33084698 TTGAGTATTA
33084708 TTATATATTTA-AAATAAT
1 TTATATATTTATAAATAAT
*
33084726 TTATTTATTTATAAATAA
1 TTATATATTTATAAATAA
33084744 ATCATTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATATTTATAAATAAT
Found at i:33084982 original size:15 final size:14
Alignment explanation
Indices: 33084950--33085016 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
33084940 CCAGAAAAGT
*
33084950 AAATCATTTTCCAG
1 AAATTATTTTCCAG
33084964 AAATTATTTTCCAAG
1 AAATTATTTTCC-AG
33084979 AAATTATTTTCCAG
1 AAATTATTTTCCAG
*
33084993 AAATTATTTTCCGG
1 AAATTATTTTCCAG
*
33085007 AAAATATTTT
1 AAATTATTTT
33085017 ACCTGTAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
14 35 0.71
15 14 0.29
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:33091471 original size:8 final size:8
Alignment explanation
Indices: 33091460--33091487 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33091450 TTAAAAATTC
33091460 AAAATAAT
1 AAAATAAT
33091468 AAAATAAT
1 AAAATAAT
33091476 AAAATAAT
1 AAAATAAT
33091484 AAAA
1 AAAA
33091488 GCTGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:33092151 original size:16 final size:16
Alignment explanation
Indices: 33092125--33092158 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
33092115 ATCATAGTTT
33092125 AATTAATTTAAACCTTA
1 AATTAATTTAAA-CTTA
33092142 AATTAA-TTAAACTTA
1 AATTAATTTAAACTTA
33092157 AA
1 AA
33092159 ACCTTGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATTTAAACTTA
Found at i:33105904 original size:31 final size:31
Alignment explanation
Indices: 33105858--33105928 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
33105848 TATACAAAAA
*
33105858 TAAACAAAAATACCCACAAAGGGAAGACGTAT
1 TAAAC-AATATACCCACAAAGGGAAGACGTAT
33105890 TAAACAATATACCCACAAAGGGAAGACGTAT
1 TAAACAATATACCCACAAAGGGAAGACGTAT
33105921 TAAACAAT
1 TAAACAAT
33105929 GGAAAACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 33 0.87
32 5 0.13
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.15
Consensus pattern (31 bp):
TAAACAATATACCCACAAAGGGAAGACGTAT
Found at i:33108372 original size:14 final size:15
Alignment explanation
Indices: 33108350--33108390 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
33108340 AACTAAATTA
33108350 TTAAAATTAATAAAT-
1 TTAAAATTAA-AAATG
33108365 TT-AAATTAAAAATG
1 TTAAAATTAAAAATG
33108379 TTAAAATTAAAA
1 TTAAAATTAAAA
33108391 TTGTGTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAAAATTAAAAATG
Found at i:33108851 original size:169 final size:163
Alignment explanation
Indices: 33108595--33108913 Score: 399
Period size: 169 Copynumber: 1.9 Consensus size: 163
33108585 AAATTTAAAC
* *
33108595 TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAGAGAAACTTTTA
1 TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAAAGAAAATTTTA
* * * *
33108660 AATTTAAACTAAATACTAAAATTAAAAAATTTAAATTTCGAATTTAAAATAAAAATATTAAAATT
66 AATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAATAAAAA-ATAAAAAAT
* *
33108725 AAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
130 AAAATTATGTTACGAATTTTTAAATTGTTGGGAT
* * *
33108759 TTTAAACTATA-TTTTTAAAGGATAAATAAGAAAACATATTACTT-AAATTAAATTTTAAATGAA
1 TTTAAACTATATTTTTTAAAGGAGAAAT-A-AAAACATATTATTTGAAA-T--A-TATAAA-GAA
* * * * *
33108822 AATTTTAACTTTAAACTAAATATTAAAATTAATAATTTTAAACTTATAATTTAAAATAAAAAATA
59 AATTTTAAATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAATAAAAAATA
*
33108887 AAAAATAAAATTATGTTACGGATTTTT
124 AAAAATAAAATTATGTTACGAATTTTT
33108914 TATTAAAATT
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
163 15 0.11
164 15 0.11
165 14 0.11
167 1 0.01
168 29 0.22
169 57 0.44
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (163 bp):
TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAAAGAAAATTTTA
AATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAATAAAAAATAAAAAATA
AAATTATGTTACGAATTTTTAAATTGTTGGGAT
Found at i:33109623 original size:2 final size:2
Alignment explanation
Indices: 33109616--33109640 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33109606 TTATCAATGG
33109616 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
33109641 TAATTTAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33110592 original size:24 final size:24
Alignment explanation
Indices: 33110552--33110615 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
33110542 ATATATATTT
*
33110552 TAAAAAATTATACATAAAAAATA-C
1 TAAAAAATTA-AAATAAAAAATATC
* *
33110576 TAAAAATATTAAAATAAATATTATC
1 TAAAAA-ATTAAAATAAAAAATATC
*
33110601 TAACAAATTAAAATA
1 TAAAAAATTAAAATA
33110616 TATATTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAAAATTAAAATAAAAAATATC
Found at i:33111429 original size:29 final size:31
Alignment explanation
Indices: 33111397--33111461 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
33111387 ATATTTTGCG
* * *
33111397 TATAAAATTGCACAA-AATC-AAAGTTCATA
1 TATAAAATTACACAATAAACTAAAATTCATA
33111426 TATAAAATTACACAATAAACTAAAATTCATA
1 TATAAAATTACACAATAAACTAAAATTCATA
33111457 TATAA
1 TATAA
33111462 TTTTGAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.45
30 3 0.10
31 14 0.45
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.29
Consensus pattern (31 bp):
TATAAAATTACACAATAAACTAAAATTCATA
Found at i:33114809 original size:4 final size:4
Alignment explanation
Indices: 33114800--33115776 Score: 1151
Period size: 4 Copynumber: 246.2 Consensus size: 4
33114790 TTCTGTGTGT
33114800 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
33114848 TGTA TGTA TGTA TGTA TGCA TGTA TGTA TGTA TGCA TGTA TGTA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * *
33114896 TGCA TGCA TGTA TGTA TGCA TGTA TGCA TGCA TGTA TGCA TGCA TG--
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
33114942 TGTG TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
33114990 TGTA TGTA TATA TGTA CGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * *
33115038 TGTA TGTA TTTA TGCA TGCA TGTA TGAA TGCA TATA TGTA TGTA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * *
33115086 TGCA TATA TGTA TGCA AGCA TGCA TGCA TG-- TGTG TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
33115132 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
33115180 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * *
33115228 TTTA TGCA TGCA TGTA TGTA TGTA TGCA TGCA TGCA TGCA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
33115276 TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * *
33115324 TGTA TGTA TGTA TGCA TATA TGAA TGCA TATA TGTA TGTA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
33115372 TGTA TGTA TGCA TGCA TGCA TGCA TG-- TGTG TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
33115418 TATA TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
33115466 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
33115514 TGTA TGTA TGTA TGTA TGTA TATA TGTA TGCA TGTA TGTA TATA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
33115562 TGTA TGCA TGGA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* ** * * * *
33115610 TGTA TGTA TGTA TGTA TGCA TACA TGTA TATA TATA TGTA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * *
33115658 TGCA TATA TGAA TGCA TATA TGTA TGTA TGGA TGCA TGCA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
33115706 TATA TGTA TGTA TG-- TGTG TGTA TGTA TGTA TGTA TATA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * *
33115752 TGTA TATA TGAA TGCA TGCA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
33115777 ATTTGTGTGT
Statistics
Matches: 866, Mismatches: 99, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
2 8 0.01
4 858 0.99
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (4 bp):
TGTA
Found at i:33120582 original size:17 final size:19
Alignment explanation
Indices: 33120533--33120584 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
33120523 AATAGTATTT
33120533 TATTGATTTAATATTAAAG
1 TATTGATTTAATATTAAAG
33120552 TGATT-ATCTTAATATTAAA-
1 T-ATTGAT-TTAATATTAAAG
33120571 T-TTGATTTAATATT
1 TATTGATTTAATATT
33120585 TATCTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (19 bp):
TATTGATTTAATATTAAAG
Found at i:33123006 original size:70 final size:71
Alignment explanation
Indices: 33122876--33123016 Score: 196
Period size: 70 Copynumber: 2.0 Consensus size: 71
33122866 GTTTTTAAAA
* *
33122876 AAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAACATACTTTAAAAGT
1 AAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTT-AAAGA
33122941 AATTAAT
65 AATTAAT
* * * **
33122948 AAAACTT-G-AAAAAATTACTTAATACATAAAATATTACTTCAAGCATGAAAATGTTTTAAAGAA
1 AAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTTAAAGAA
33123011 ATTAAT
66 ATTAAT
33123017 TCATTTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
69 11 0.18
70 43 0.69
71 1 0.02
72 7 0.11
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (71 bp):
AAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTTAAAGAA
ATTAAT
Found at i:33131635 original size:19 final size:18
Alignment explanation
Indices: 33131607--33131645 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
33131597 TGCAATGCTA
33131607 TAAATATAAATATAAAATT
1 TAAATATAAAT-TAAAATT
* *
33131626 TAAATTTAAATTTAAATT
1 TAAATATAAATTAAAATT
33131644 TA
1 TA
33131646 TTAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATATAAATTAAAATT
Found at i:33131643 original size:6 final size:6
Alignment explanation
Indices: 33131607--33131645 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
33131597 TGCAATGCTA
* *
33131607 TAAATA TAAATAT AAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAAT-T TAAATT TAAATT TAAATT TAAATT TA
33131646 TTAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:33132141 original size:17 final size:18
Alignment explanation
Indices: 33132121--33132165 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
33132111 TTTTTAAAAA
33132121 AAAATTAAAAACT-TATG
1 AAAATTAAAAACTCTATG
* *
33132138 AAAAATAAAAACTCTTTG
1 AAAATTAAAAACTCTATG
33132156 -AAATTAAAAA
1 AAAATTAAAAA
33132166 AAATACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAATTAAAAACTCTATG
Found at i:33140421 original size:43 final size:43
Alignment explanation
Indices: 33140354--33140439 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
33140344 TCAAACAAAC
* *
33140354 TAAACATAAAAATTTCACAAAAATTTAAATATT-ACTAACAATT
1 TAAACATAAAAATTTCACAAAAATTAAAAT-TTCAATAACAATT
33140397 TAAACATAAAAA-TTC-CAAGCAAATTAAAATTTCAATAACAATT
1 TAAACATAAAAATTTCACAA--AAATTAAAATTTCAATAACAATT
33140440 CCAGACAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 3 0.08
42 5 0.13
43 30 0.79
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (43 bp):
TAAACATAAAAATTTCACAAAAATTAAAATTTCAATAACAATT
Found at i:33143735 original size:22 final size:22
Alignment explanation
Indices: 33143708--33143749 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33143698 TTAACCCAAA
33143708 TCAATTACCCAAATAATTAAAC
1 TCAATTACCCAAATAATTAAAC
* *
33143730 TCAATTACCCCATTAATTAA
1 TCAATTACCCAAATAATTAA
33143750 TCAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (22 bp):
TCAATTACCCAAATAATTAAAC
Found at i:33146125 original size:25 final size:25
Alignment explanation
Indices: 33146104--33146150 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33146094 TTTTATATTA
33146104 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAATATAATT
33146129 ATATTAATATTAAATAAA-ATAA
1 ATATTAATATTAAATAAATATAA
33146151 AAATCCCGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAATT
Found at i:33154965 original size:31 final size:31
Alignment explanation
Indices: 33154927--33154987 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
33154917 GTTAAAATGG
**
33154927 GCCCATGCAGCCTGCTTATGTGGCCCCAGAC
1 GCCCATGCAGCCTGCCCATGTGGCCCCAGAC
*
33154958 GCCCATGCAGCCTGCCCGTGTGGCCCCAGA
1 GCCCATGCAGCCTGCCCATGTGGCCCCAGA
33154988 TGCTCGTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.41, G:0.28, T:0.16
Consensus pattern (31 bp):
GCCCATGCAGCCTGCCCATGTGGCCCCAGAC
Found at i:33163334 original size:18 final size:18
Alignment explanation
Indices: 33163313--33163348 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33163303 TAAAATAAAA
33163313 AAAATTAA-AATATATATT
1 AAAATTAAGAAT-TATATT
33163331 AAAATTAAGAATTATATT
1 AAAATTAAGAATTATATT
33163349 TTTTGAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATTAAGAATTATATT
Found at i:33164071 original size:10 final size:9
Alignment explanation
Indices: 33164055--33164097 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
33164045 ATTATGTGAA
33164055 AAATAAAAT
1 AAATAAAAT
33164064 AGAATAAAAT
1 A-AATAAAAT
33164074 AAATAAAAAT
1 AAAT-AAAAT
*
33164084 AAAGAAACAT
1 AAATAAA-AT
33164094 AAAT
1 AAAT
33164098 TTTACGTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:33168525 original size:10 final size:9
Alignment explanation
Indices: 33168509--33168551 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
33168499 AATTTGTGAA
33168509 AAATAAAAT
1 AAATAAAAT
33168518 AGAATAAAAT
1 A-AATAAAAT
33168528 AAATAAAAAT
1 AAAT-AAAAT
*
33168538 AAAGAAACAT
1 AAATAAA-AT
33168548 AAAT
1 AAAT
33168552 TTTACGTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:33175444 original size:18 final size:18
Alignment explanation
Indices: 33175417--33175456 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33175407 TGTGGGCCAT
33175417 ACGGGCGTGTAGGTCCAC
1 ACGGGCGTGTAGGTCCAC
* * *
33175435 ACGGGTGTGTGGGTCCAT
1 ACGGGCGTGTAGGTCCAC
33175453 ACGG
1 ACGG
33175457 ATGAACCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.42, T:0.20
Consensus pattern (18 bp):
ACGGGCGTGTAGGTCCAC
Found at i:33177929 original size:17 final size:18
Alignment explanation
Indices: 33177894--33177932 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
33177884 GTGCGAGGCA
*
33177894 GTTATATTTGTGTGCTGT
1 GTTATATTTGTGAGCTGT
*
33177912 GTTATA-TTGTGAGTTGT
1 GTTATATTTGTGAGCTGT
33177929 GTTA
1 GTTA
33177933 ACTTGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.15, C:0.03, G:0.28, T:0.54
Consensus pattern (18 bp):
GTTATATTTGTGAGCTGT
Found at i:33189861 original size:29 final size:29
Alignment explanation
Indices: 33189815--33189873 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
33189805 CACGCTCGTG
33189815 TGCCATGGCCATGAGAAAACTAGGAAGGT
1 TGCCATGGCCATGAGAAAACTAGGAAGGT
*
33189844 TGCCATGGCCATGGGAAAACTAGGAAGGT
1 TGCCATGGCCATGAGAAAACTAGGAAGGT
33189873 T
1 T
33189874 ACTAACTCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (29 bp):
TGCCATGGCCATGAGAAAACTAGGAAGGT
Found at i:33206452 original size:15 final size:16
Alignment explanation
Indices: 33206426--33206471 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
33206416 CGAATTTTAG
*
33206426 AAATTTATAAATA-AA
1 AAATTTAAAAATATAA
*
33206441 ATATTTAAAAATATAA
1 AAATTTAAAAATATAA
*
33206457 AAATTCAAAAA-ATAA
1 AAATTTAAAAATATAA
33206472 TGAATCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATATAA
Found at i:33211478 original size:14 final size:14
Alignment explanation
Indices: 33211459--33211489 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33211449 TTAAAGAAAA
33211459 AATCTTATAGTACC
1 AATCTTATAGTACC
*
33211473 AATCTTATAGTGCC
1 AATCTTATAGTACC
33211487 AAT
1 AAT
33211490 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (14 bp):
AATCTTATAGTACC
Found at i:33217507 original size:5 final size:5
Alignment explanation
Indices: 33217497--33217522 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33217487 AAACTTTATT
33217497 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
33217523 AAGTGTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:33223168 original size:14 final size:15
Alignment explanation
Indices: 33223149--33223186 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
33223139 GTTTGCCAGT
33223149 AAAATATTTTTC-GA
1 AAAATATTTTTCTGA
33223163 AAAATA-TTTTCTGA
1 AAAATATTTTTCTGA
33223177 AAAATGATTT
1 AAAAT-ATTT
33223187 ACTTTTCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 13 0.62
15 1 0.05
16 2 0.10
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (15 bp):
AAAATATTTTTCTGA
Found at i:33224564 original size:14 final size:14
Alignment explanation
Indices: 33224545--33224573 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33224535 CTTTTTACTT
33224545 TGTTATATAGATTA
1 TGTTATATAGATTA
33224559 TGTTATATAGATTA
1 TGTTATATAGATTA
33224573 T
1 T
33224574 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:33227937 original size:29 final size:29
Alignment explanation
Indices: 33227889--33227946 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33227879 AGCATTCTAT
*
33227889 TAGGAATAGCATTTTAATATGATAATAAA
1 TAGGAATAGCATTTCAATATGATAATAAA
* * *
33227918 TAGGAATAGCGTTTCGATATGATACTAAA
1 TAGGAATAGCATTTCAATATGATAATAAA
33227947 AATGGGTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (29 bp):
TAGGAATAGCATTTCAATATGATAATAAA
Found at i:33230235 original size:7 final size:7
Alignment explanation
Indices: 33230223--33230262 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
33230213 AAAGCGAGAG
33230223 AAACCCT
1 AAACCCT
33230230 AAACCCT
1 AAACCCT
33230237 AAACCCT
1 AAACCCT
33230244 AAACCCT
1 AAACCCT
33230251 AAACCCT
1 AAACCCT
33230258 AAACC
1 AAACC
33230263 TTCCGGGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:33237855 original size:26 final size:26
Alignment explanation
Indices: 33237825--33237880 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
33237815 GACCCTGTGA
33237825 AGAGGAATGAGATTTGCCTGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAG
33237851 AGAGGAATGAGATTTGCCTGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAG
33237877 AGAG
1 AGAG
33237881 AAAGAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.36, T:0.18
Consensus pattern (26 bp):
AGAGGAATGAGATTTGCCTGAGAAAG
Found at i:33242850 original size:20 final size:20
Alignment explanation
Indices: 33242825--33242864 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33242815 ATGTGTTAGT
33242825 ACTAATTAATTCTGTACTTC
1 ACTAATTAATTCTGTACTTC
*
33242845 ACTAATTAGTTCTGTACTTC
1 ACTAATTAATTCTGTACTTC
33242865 TTTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (20 bp):
ACTAATTAATTCTGTACTTC
Found at i:33244342 original size:2 final size:2
Alignment explanation
Indices: 33244335--33244359 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33244325 TTTCTTCGAT
33244335 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
33244360 TAATGGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33250231 original size:9 final size:9
Alignment explanation
Indices: 33250163--33250303 Score: 66
Period size: 10 Copynumber: 15.4 Consensus size: 9
33250153 AAAGTAATGA
33250163 TTTTATATAT
1 TTTTATA-AT
*
33250173 TTTTAAATAT
1 TTTTATA-AT
33250183 TTTTATAAT
1 TTTTATAAT
*
33250192 TCTTATAAGT
1 TTTTATAA-T
33250202 TTCTTATAA-
1 TT-TTATAAT
* *
33250211 TATTCT-AT
1 TTTTATAAT
33250219 TTTTATAA-
1 TTTTATAAT
33250227 TTTT-TAAT
1 TTTTATAAT
33250235 ATTTTAT-AT
1 -TTTTATAAT
*
33250244 TTATATAAT
1 TTTTATAAT
33250253 TTTCTAT-A-
1 TTT-TATAAT
*
33250261 -TTTATACT
1 TTTTATAAT
33250269 TTTCT-TAATTT
1 TTT-TATAA--T
33250280 TTTTGATAAT
1 TTTT-ATAAT
33250290 TTTTAGTAAT
1 TTTTA-TAAT
33250300 TTTT
1 TTTT
33250304 TGTTTTAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
6 3 0.03
7 6 0.06
8 16 0.16
9 27 0.27
10 36 0.36
11 10 0.10
12 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:33250235 original size:23 final size:25
Alignment explanation
Indices: 33250208--33250255 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
33250198 AAGTTTCTTA
33250208 TAATATTCTAT-TTT-TATAATTTT
1 TAATATTCTATATTTATATAATTTT
*
33250231 TAATATTTTATATTTATATAATTTT
1 TAATATTCTATATTTATATAATTTT
33250256 CTATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 3 0.14
25 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TAATATTCTATATTTATATAATTTT
Found at i:33250252 original size:18 final size:17
Alignment explanation
Indices: 33250217--33250266 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
33250207 ATAATATTCT
33250217 ATTTTTATAATTT-T-TA
1 ATTTTTAT-ATTTATATA
33250233 ATATTTTATATTTATATA
1 AT-TTTTATATTTATATA
33250251 ATTTTCTATATTTATA
1 ATTTT-TATATTTATA
33250267 CTTTTCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.20
17 10 0.33
18 14 0.47
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTATATTTATATA
Found at i:33251843 original size:18 final size:18
Alignment explanation
Indices: 33251817--33251872 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
33251807 ATTGTTTCTC
*
33251817 AAAAGTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
33251835 AAAATTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
*
33251853 AAAATTGCTTTTGAGCAA
1 AAAATTGCTTTTGGGCAA
33251871 AA
1 AA
33251873 GCTAAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (18 bp):
AAAATTGCTTTTGGGCAA
Found at i:33252720 original size:13 final size:12
Alignment explanation
Indices: 33252686--33252721 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
33252676 AGGTTTCTTA
*
33252686 AAATGGAAATGG
1 AAATAGAAATGG
33252698 AAATAGAAATGG
1 AAATAGAAATGG
33252710 AAATAAGAAATG
1 AAAT-AGAAATG
33252722 ATATATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (12 bp):
AAATAGAAATGG
Found at i:33256551 original size:46 final size:46
Alignment explanation
Indices: 33256497--33256809 Score: 430
Period size: 46 Copynumber: 6.8 Consensus size: 46
33256487 CTATGATAGA
33256497 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
33256543 AAACGTGTAAGATCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
*
33256589 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * *
33256635 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* ***
33256681 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATG
** * * *
33256728 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * * *
33256773 AAAATGAGTAAGACCATAGTTGAAAGAGACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
33256810 TCATGTCAAA
Statistics
Matches: 243, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 203 0.84
47 39 0.16
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:33258996 original size:3 final size:3
Alignment explanation
Indices: 33258988--33259020 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33258978 GTGATATTAA
33258988 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33259021 TCATTAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33262676 original size:21 final size:22
Alignment explanation
Indices: 33262636--33262677 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
33262626 GTTTTTGCAT
33262636 TGTTTAAAGTTAAAAAAAAATA
1 TGTTTAAAGTTAAAAAAAAATA
33262658 TGTTT-AA-TTAAATAAAAAAT
1 TGTTTAAAGTTAAA-AAAAAAT
33262678 TAAGTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
TGTTTAAAGTTAAAAAAAAATA
Found at i:33265138 original size:46 final size:47
Alignment explanation
Indices: 33265076--33265204 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 47
33265066 GTGCGAATAA
* * * * *
33265076 TACCTTGATTTGGCTACGGGCCATGGAATAGGTATTTTGTGA-GAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
33265122 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
* * *
33265169 TATCTTGATTTGGCTACGGGACATGGTATAGATACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
33265205 TATCAAATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 38 0.51
47 36 0.49
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
Found at i:33266241 original size:18 final size:18
Alignment explanation
Indices: 33266218--33266261 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
33266208 AACCAATATG
33266218 TCAATCATAATTTGCATT
1 TCAATCATAATTTGCATT
33266236 TCAATCATAATTTGCATT
1 TCAATCATAATTTGCATT
33266254 TCACATCA
1 TCA-ATCA
33266262 CAAATATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (18 bp):
TCAATCATAATTTGCATT
Found at i:33266871 original size:26 final size:25
Alignment explanation
Indices: 33266832--33266941 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 25
33266822 TGATACAAAT
*
33266832 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
33266858 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTTCA
*
33266884 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
33266910 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTTCA
33266936 TGATAA
1 TGATAA
33266942 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.05
26 72 0.92
27 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:33266889 original size:52 final size:52
Alignment explanation
Indices: 33266832--33266941 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
33266822 TGATACAAAT
*
33266832 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGCAAATGTTCCATGATAATGGATTAGGTAAATGTTTCA
* * *
33266884 TGATAATGGGTTAGGCAAATGTTTCATGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGCAAATGTTCCATGATAATGGATTAGGTAAATGTTTCA
33266936 TGATAA
1 TGATAA
33266942 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGCAAATGTTCCATGATAATGGATTAGGTAAATGTTTCA
Found at i:33268424 original size:28 final size:26
Alignment explanation
Indices: 33268382--33268456 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
33268372 AAAAGTAGCT
* *
33268382 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* * *
33268410 AAATTACTGTTATACCTCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
33268436 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
33268457 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Done.