Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 417 of 425
Found at i:126563954 original size:54 final size:54
Alignment explanation
Indices: 126563854--126563959 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
126563844 GACTTGAGGC
*
126563854 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
126563908 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
126563960 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:126564084 original size:72 final size:71
Alignment explanation
Indices: 126563950--126564115 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
126563940 TGAACAACGT
* * * *
126563950 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
126564015 GACTTG
66 GACTTG
*
126564021 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
*
126564086 TGAGTTG
65 TGACTTG
**
126564093 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
126564116 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GACTTG
Found at i:126564210 original size:122 final size:124
Alignment explanation
Indices: 126563990--126564236 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
126563980 GCGTGACCTG
* * *
126563990 AGGCTCAACTCACCTCTCGCAATATGACTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGACGTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
126564055 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
126564115 AGGCTTAACTCACCTCTCGCAATATGA-GT-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGACGTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
126564177 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
126564236 A
1 A
126564237 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 16 0.14
122 63 0.56
123 7 0.06
124 1 0.01
125 26 0.23
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGACGTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:126564258 original size:71 final size:70
Alignment explanation
Indices: 126564115--126564289 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 70
126564105 AAAAATTAAA
* * * * * *
126564115 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
126564179 CCCCG
66 CCCCG
*
126564184 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
126564249 GTCTTG
65 GCCCCG
126564255 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
126564290 CCCTTGAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.06
71 61 0.66
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:126566266 original size:28 final size:27
Alignment explanation
Indices: 126566205--126566267 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
126566195 CCCCTCCCAA
* *
126566205 AAAAACCTAACCCCCCCCAAAAAAAAAG
1 AAAAACCTAA-CCCCCCAAAAAAAAAAC
126566233 AAAAACCTAA-CCCCCAAAAAAAAAACC
1 AAAAACCTAACCCCCCAAAAAAAAAA-C
126566260 AAGAAACC
1 AA-AAACC
126566268 CTAGCCACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 14 0.45
27 2 0.06
28 15 0.48
ACGTcount: A:0.60, C:0.33, G:0.03, T:0.03
Consensus pattern (27 bp):
AAAAACCTAACCCCCCAAAAAAAAAAC
Found at i:126568549 original size:25 final size:26
Alignment explanation
Indices: 126568521--126568572 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
126568511 TCAAACATGC
126568521 ATTT-AGTCAATTTAAC-CCTAGGGGT
1 ATTTCAGT-AATTTAACTCCTAGGGGT
* *
126568546 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTCAGTAATTTAACTCCTAGGGGT
126568572 A
1 A
126568573 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTCAGTAATTTAACTCCTAGGGGT
Found at i:126570087 original size:26 final size:26
Alignment explanation
Indices: 126570051--126570186 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
126570041 CATGATATTC
126570051 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
126570077 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
* *
126570103 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
126570129 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
126570155 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
126570181 TTATCA
1 TTATCA
126570187 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:126573102 original size:22 final size:24
Alignment explanation
Indices: 126573054--126573099 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
126573044 GTAAGGCCCC
*
126573054 TTCTCTTGCTGCTGTTCAATTTCCG
1 TTCTCTTGCTGCTGGT-AATTTCCG
126573079 TTCTCTTGCTGCTGGT-ATTTC
1 TTCTCTTGCTGCTGGTAATTTC
126573100 GTTTCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
25 15 0.75
ACGTcount: A:0.07, C:0.26, G:0.17, T:0.50
Consensus pattern (24 bp):
TTCTCTTGCTGCTGGTAATTTCCG
Found at i:126575134 original size:22 final size:22
Alignment explanation
Indices: 126575110--126575153 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
126575100 CAATTTAAAA
*
126575110 TATAAAAATTTATT-AT-TATG
1 TATATAAATTTATTAATATATG
126575130 TATATAAATTTATTAATATATG
1 TATATAAATTTATTAATATATG
126575152 TA
1 TA
126575154 AAAACAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TATATAAATTTATTAATATATG
Found at i:126586412 original size:20 final size:20
Alignment explanation
Indices: 126586384--126586421 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
126586374 AAAATGACTA
126586384 AAAATACAAAT-TTTTTTAT
1 AAAATACAAATATTTTTTAT
126586403 AAAATAACAAATATTTTTT
1 AAAAT-ACAAATATTTTTT
126586422 TTATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATACAAATATTTTTTAT
Found at i:126587890 original size:26 final size:26
Alignment explanation
Indices: 126587860--126587913 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
126587850 TAACTCTAAT
* *
126587860 AATTTTATTTGATTCAACTCAATTCG
1 AATTTCATTTCATTCAACTCAATTCG
*
126587886 AATTTCATTTCATTCTACTCAATTCG
1 AATTTCATTTCATTCAACTCAATTCG
126587912 AA
1 AA
126587914 AAAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (26 bp):
AATTTCATTTCATTCAACTCAATTCG
Found at i:126589626 original size:125 final size:119
Alignment explanation
Indices: 126589471--126589714 Score: 416
Period size: 125 Copynumber: 2.0 Consensus size: 119
126589461 GCTGACATGG
126589471 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
1 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
*
126589536 TAAAAATTAAAAAATAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
66 TAAAAA-T----AA-AAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAAACATTT
126589596 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
1 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
*
126589661 TAAAAATGAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAAACATTT
66 TAAAAATAAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAAACATTT
126589715 GAAAAACTTA
Statistics
Matches: 117, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
119 44 0.38
120 1 0.01
124 1 0.01
125 71 0.61
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (119 bp):
AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
TAAAAATAAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAAACATTT
Found at i:126593248 original size:28 final size:27
Alignment explanation
Indices: 126593205--126593268 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 27
126593195 ACAGGCAAAC
*
126593205 TAAGTGTTGTTTGATAAACTCGAAAATT
1 TAAGTGTTGTTTGATAAACTAGAAAA-T
*
126593233 TAGGTGTTGTTTGATAAACTAGAAAAT
1 TAAGTGTTGTTTGATAAACTAGAAAAT
126593260 TAAGTGTTG
1 TAAGTGTTG
126593269 AAAATTTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (27 bp):
TAAGTGTTGTTTGATAAACTAGAAAAT
Found at i:126596877 original size:124 final size:124
Alignment explanation
Indices: 126596458--126596894 Score: 395
Period size: 124 Copynumber: 3.5 Consensus size: 124
126596448 ATGTAGCCCT
* ** * * * *
126596458 TTGAATCTCGAAATATCGAATGTTACGATCATATAAACATCTACTATTTACTTGGGAAGCAAGAA
1 TTGAATCTCAAAATATCGAACATTTCGATCATATCAACATATACTATTTACTTGGGAAACAAGAA
* * * * *
126596523 ACAATCAGACATCAATCTAAGAAACCAGCATACAACTTGGCTTCAATGCCTGCAATCAG
66 ACAATCAGACATCGATCTAAGAAACTAGCATACAACTTAGCTTCGATGCCTGCAGTCAG
* * * **
126596582 TTGATTCTCAAAATATCGAACATTTCGATCACATCAAC--AT-CT-CTTACTTGCTAAACAAGCA
1 TTGAATCTCAAAATATCGAACATTTCGATCATATCAACATATACTATTTACTTGGGAAACAAG-A
* * * * *
126596643 AGCATCAATCA-ACCAT-GAATC-AGAAAAACTCGCATACAGCTTAGCTTCGGTGCATGCAGTCA
65 A--A-CAATCAGA-CATCG-ATCTA-AGAAACTAGCATACAACTTAGCTTCGATGCCTGCAGTCA
126596705 G
124 G
* * * * * * *
126596706 TTGAATCTTAAAATATCAAACATTTTGATCATATTAGCATCTGCTATTTACTTGGGAAACAAGAA
1 TTGAATCTCAAAATATCGAACATTTCGATCATATCAACATATACTATTTACTTGGGAAACAAGAA
* * * *
126596771 ACCATCAGACATCGATCTAAGAAAGTAGCATACAACCTAGCTTCGATGCCTGCTGTCAG
66 ACAATCAGACATCGATCTAAGAAACTAGCATACAACTTAGCTTCGATGCCTGCAGTCAG
* * * * * *
126596830 TTAAATCTCGAAAAT-TTGAACATTTCAATCATATCAACAAATACTATTTACTTTGGAAGCAAGA
1 TTGAATCTC-AAAATATCGAACATTTCGATCATATCAACATATACTATTTACTTGGGAAACAAGA
126596894 A
65 A
126596895 TCAGCATTAA
Statistics
Matches: 243, Mismatches: 55, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
120 13 0.05
121 4 0.02
122 1 0.00
123 3 0.01
124 194 0.80
125 9 0.04
126 1 0.00
127 4 0.02
128 14 0.06
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (124 bp):
TTGAATCTCAAAATATCGAACATTTCGATCATATCAACATATACTATTTACTTGGGAAACAAGAA
ACAATCAGACATCGATCTAAGAAACTAGCATACAACTTAGCTTCGATGCCTGCAGTCAG
Found at i:126603530 original size:215 final size:216
Alignment explanation
Indices: 126603135--126603637 Score: 636
Period size: 215 Copynumber: 2.3 Consensus size: 216
126603125 ATAAATTCGT
* * * * *
126603135 TTGAAGCAGTCGATAATCATCAATATTCGCTTTCTGGGTAATTATTATTCACCCATAATCATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTA-CCATAATTATTGA
* * * * *
126603200 TTTTTAGTGTGCAAAACTGAAAATTTTGTTCTTGTACTTATTGTTTGAAGTCAGTTATTTACTGA
65 TTTTTAGTGTGCAAAACTGAAAATTCTGTTCTTCTACTTATTGTTCGAAGTCAATTACTTACTGA
** * * **
126603265 ATAATTGAATGAGTAAAATTATATATTTTGCTATCTCTTAGTTGAA-TTTTTGTTCTTCATCGAA
130 ATAATTGAATGAGTAAAACGATACATTGTGCTATCTCAAAGTTGAATTTTTTGTTCTTCATCGAA
*
126603329 TTATGTATAAATAGTTT-AGGC
195 TTATGTATAAATACTTTAAGGC
*
126603350 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGAGTAATTATTATTTACTCATAATTATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTAC-CATAATTATTGA
* * *
126603415 TTTTTAGTGTTCAAAACTGAGAATTCTGTT-TATCTAGTTATTGTTCGAAGTCAATTACTTACTG
65 TTTTTAGTGTGCAAAACTGAAAATTCTGTTCT-TCTACTTATTGTTCGAAGTCAATTACTTACTG
* * * *
126603479 AATAATTGAATTAGTAAACCGATACATTGTGCTGTCTCAAAAGTT-AATTTTTTTTGTTTTTCAT
129 AATAATTGAATGAGTAAAACGATACATTGTGCTATCTC-AAAGTTGAA--TTTTTTGTTCTTCAT
* *
126603543 CGAATTGTGTCTAAATACTTTAAGGC
191 CGAATTATGTATAAATACTTTAAGGC
* ** * *
126603569 TTGAAGCACTTGATAACCATCTGTTTTCGCTTTCTGGGTAATTATTATTTACCATCATTGTTGAT
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
126603634 TTTT
66 TTTT
126603638 TGCGCTCAAA
Statistics
Matches: 248, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
214 2 0.01
215 144 0.58
216 4 0.02
218 46 0.19
219 52 0.21
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (216 bp):
TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
TTTTAGTGTGCAAAACTGAAAATTCTGTTCTTCTACTTATTGTTCGAAGTCAATTACTTACTGAA
TAATTGAATGAGTAAAACGATACATTGTGCTATCTCAAAGTTGAATTTTTTGTTCTTCATCGAAT
TATGTATAAATACTTTAAGGC
Found at i:126608641 original size:19 final size:19
Alignment explanation
Indices: 126608617--126608654 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
126608607 CTTGAAAAAA
126608617 AATCAACTCCAATTATGTC
1 AATCAACTCCAATTATGTC
126608636 AATCAACTCCAATTATGTC
1 AATCAACTCCAATTATGTC
126608655 TTTTCACGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (19 bp):
AATCAACTCCAATTATGTC
Found at i:126620793 original size:90 final size:90
Alignment explanation
Indices: 126620640--126620820 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
126620630 ACAAAAGCTC
126620640 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
1 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
126620705 ATGAATTACAAAAGAAGACTTTTGT
66 ATGAATTACAAAAGAAGACTTTTGT
126620730 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
1 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
126620795 ATGAATTACAAAAGAAGACTTTTGT
66 ATGAATTACAAAAGAAGACTTTTGT
126620820 T
1 T
126620821 CAGAAGGGTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (90 bp):
TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
ATGAATTACAAAAGAAGACTTTTGT
Found at i:126623470 original size:15 final size:15
Alignment explanation
Indices: 126623431--126623473 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
126623421 GATAAACTTA
126623431 TAATATT-AAA-TTG
1 TAATATTAAAATTTG
*
126623444 TATTATTAAAAATTTG
1 TAATATT-AAAATTTG
126623460 TAATATTAAAATTT
1 TAATATTAAAATTT
126623474 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
15 10 0.40
16 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TAATATTAAAATTTG
Found at i:126625708 original size:19 final size:18
Alignment explanation
Indices: 126625684--126625726 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
126625674 AATTACTAAT
126625684 AAATAAATATTAAAATATA
1 AAATAAATA-TAAAATATA
*
126625703 AAATAAA-ATAAATTATA
1 AAATAAATATAAAATATA
126625720 AAA-AAAT
1 AAATAAAT
126625727 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 1 0.05
19 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAATATAAAATATA
Found at i:126626175 original size:59 final size:58
Alignment explanation
Indices: 126626100--126626480 Score: 426
Period size: 59 Copynumber: 6.7 Consensus size: 58
126626090 CTTTTTTGAG
* * *
126626100 TTTTTGTTGCCTTTTGACTTGATGGGTACTTTTAATTTCTTTGTTATTTTGTGGGTTTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGG-TTT
* * * * *
126626159 TTTTTCTTGTCTTTTGACTTGATGGGTAGATTTAATTT-TTGGTTATTTTGT-GGATT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTT
* * * *
126626215 TTTTTCTTGCCCTTCGGCTTGAT--GTAGTGTTAATTTCTTTGTTATTTTGCGGG---
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTT
* *
126626268 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATC-TTGTTTAGTTTGTGGGTTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTG-TTATTTTGTGGGTTT
* * *
126626326 TTCTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGG-TTT
** * * *
126626385 TTTTTCTTGCCTTTTGATTTGATGTGTAATTTTAATTTCTTTGTTAGTTTGTAGGG---
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGT-GGGTTT
* *
126626441 TTTTT-TTGCCTTTTGGCTTGATGGGTACTTTTAGTTTCTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTT
126626481 ATTTAATTTG
Statistics
Matches: 275, Mismatches: 36, Indels: 26
0.82 0.11 0.08
Matches are distributed among these distances:
53 21 0.08
54 14 0.05
55 63 0.23
56 28 0.10
57 2 0.01
58 58 0.21
59 86 0.31
60 3 0.01
ACGTcount: A:0.11, C:0.09, G:0.22, T:0.58
Consensus pattern (58 bp):
TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTT
Found at i:126626309 original size:33 final size:31
Alignment explanation
Indices: 126626271--126626362 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 31
126626261 TTGCGGGTTT
126626271 TTCTTGCCTTTTGGCTTGATGGGTAGTTTTAA
1 TTCTTGCC-TTTGGCTTGATGGGTAGTTTTAA
* * *
126626303 TATCTTG--TTTAGTTTG-TGGGT--TTTT-C
1 T-TCTTGCCTTTGGCTTGATGGGTAGTTTTAA
*
126626329 TTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
1 TTCTTGCC-TTTGGCTTGATGGGTAGTTTTAA
126626361 TT
1 TT
126626363 TCTTTGTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 4 0.09
28 7 0.16
29 9 0.20
30 7 0.16
31 4 0.09
32 3 0.07
33 5 0.11
ACGTcount: A:0.11, C:0.11, G:0.24, T:0.54
Consensus pattern (31 bp):
TTCTTGCCTTTGGCTTGATGGGTAGTTTTAA
Found at i:126626366 original size:33 final size:33
Alignment explanation
Indices: 126626270--126626366 Score: 77
Period size: 33 Copynumber: 3.2 Consensus size: 33
126626260 TTTGCGGGTT
* *
126626270 TTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAA
1 TTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
* * *
126626303 TATCTT---GTTTAG-TT--TGTG-GGTTTT--
1 TTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
126626327 TCTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
1 T-TTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
126626361 TTTCTT
1 TTTCTT
126626367 TGTTATTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 20
0.62 0.11 0.27
Matches are distributed among these distances:
24 1 0.02
25 4 0.09
26 5 0.11
27 3 0.07
28 5 0.11
29 4 0.09
30 4 0.09
31 4 0.09
32 5 0.11
33 10 0.22
34 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.23, T:0.56
Consensus pattern (33 bp):
TTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
Found at i:126630826 original size:241 final size:240
Alignment explanation
Indices: 126630133--126630857 Score: 1373
Period size: 240 Copynumber: 3.0 Consensus size: 240
126630123 ATTTTAAGGT
126630133 AAATT-ATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTT
1 AAATTGATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTT
126630197 TTTTTAATTTAGGCATTAATATTTGGATTCTTTCCTATTTTGGTCACTTGAGGCTAAATTGATAA
66 TTTTTAATTTAGGCATTAATATTTGGATTCTTTCCTATTTTGGTCACTTGAGGCTAAATTGATAA
*
126630262 CTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTATTTATTCTATCAATTTG
131 CTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTACTTATTCTATCAATTTG
126630327 ATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTAC
196 ATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTAC
126630372 AAATTGATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTT
1 AAATTGATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTT
126630437 TTTTTAATTTAGGCATTAATATTTGGATTCTTTCCTATTTTGGTCACTTGAGGCTAAATTGATAA
66 TTTTTAATTTAGGCATTAATATTTGGATTCTTTCCTATTTTGGTCACTTGAGGCTAAATTGATAA
126630502 CTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTACTTATTCTATCAATTTG
131 CTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTACTTATTCTATCAATTTG
126630567 ATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTAC
196 ATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTAC
126630612 AAATTGATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAA-TTT
1 AAATTGATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTT
* *
126630676 TTTTTAATTTAGGCATTAATATTTTTGGATTCTTTCCTATTTTGGTCGCTCGAGGCTAAATTGAT
66 TTTTTAATTTAGGCATTAATA--TTTGGATTCTTTCCTATTTTGGTCACTTGAGGCTAAATTGAT
*
126630741 AACTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTACTTATTCTATTAATT
129 AACTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTACTTATTCTATCAATT
*
126630806 TGATCCTAATATTAAATATTTCAATAAATTTAACTCTTCGTATTTAC
194 TGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTAC
126630853 AAATT
1 AAATT
126630858 AGATTAATTT
Statistics
Matches: 478, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
239 29 0.06
240 294 0.62
241 155 0.32
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (240 bp):
AAATTGATACAAATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTT
TTTTTAATTTAGGCATTAATATTTGGATTCTTTCCTATTTTGGTCACTTGAGGCTAAATTGATAA
CTGATTTTTTTAAACCAATATAATGACATATTTAGTCATCAATGCTTACTTATTCTATCAATTTG
ATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTAC
Found at i:126632765 original size:21 final size:20
Alignment explanation
Indices: 126632741--126632783 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
126632731 AATTAATTGA
126632741 TATATAATTTGAATAAAAAAT
1 TATATAATTT-AATAAAAAAT
** *
126632762 TATATTCTTTAATAAAAGAT
1 TATATAATTTAATAAAAAAT
126632782 TA
1 TA
126632784 ATTTGAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (20 bp):
TATATAATTTAATAAAAAAT
Found at i:126634816 original size:151 final size:151
Alignment explanation
Indices: 126634542--126634843 Score: 496
Period size: 151 Copynumber: 2.0 Consensus size: 151
126634532 GTATCCAAAA
126634542 CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCATTGTGAATGGTTGGGATT
1 CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCATTGTGAATGGTTGGGATT
* *
126634607 CCATGATTGTAGATGATAAGTTGTAGACAAAACGAACCAATACTCAAGGCCTAGAATAAAACCGA
66 CCATGATTGTAGATGATAAGTTGTAGACAAAACAAACCAATACTCAAGACCTAGAATAAAACCGA
** *
126634672 TTGGGCTACAGTTTTATAACT
131 TTGAACTACAGTTATATAACT
* * *
126634693 CTACTAGGTCTAGTGATGATAATATTAGATTTAGGTGGATTGATCCATTGTGAATGGTTGGGATT
1 CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCATTGTGAATGGTTGGGATT
* * *
126634758 CCATGATTGTAGATGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAGACTGA
66 CCATGATTGTAGATGATAAGTTGTAGACAAAACAAACCAATACTCAAGACCTAGAATAAAACCGA
*
126634823 TTGAACTACGGTTATATAACT
131 TTGAACTACAGTTATATAACT
126634844 GTAACTACAG
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 139 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (151 bp):
CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCATTGTGAATGGTTGGGATT
CCATGATTGTAGATGATAAGTTGTAGACAAAACAAACCAATACTCAAGACCTAGAATAAAACCGA
TTGAACTACAGTTATATAACT
Found at i:126637935 original size:218 final size:217
Alignment explanation
Indices: 126637524--126638083 Score: 780
Period size: 218 Copynumber: 2.6 Consensus size: 217
126637514 TCCTTGTATT
* * *
126637524 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCTCCAAGGCCGAGGAGCTTACACTAGTTTA
1 ACAACTTTACGCAAAAGAATTACAAAAAACAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* * *
126637589 CAGTTCTTTTGTGACATGAAACACACTATCCCTACATATAAAATGTACAAGTCATGATGCATTCA
65 CAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
* ** * * *
126637654 GCTGGGGATGAAGACGAGATACATGAATGGCGGCTTTTTCCTTTGTAAAATGTTTCAAATGCAAC
130 ACAAGGGATGAAGACGAGATACATGAATGACGGCTTTCTCCTTTATAAAATGTTTCAAATGCAAC
* * *
126637719 TACCATCCATATCGAAGACAAAA
195 TACCATCCACATCAAAAACAAAA
** * *
126637742 ACAACTTTGTGCAAAAGAATTACAAAAAACAAACCCTGCGAGGCCAAGGAGCTTACACTAATTTG
1 ACAACTTTACGCAAAAGAATTACAAAAAACAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
126637807 CAGGTCTATTGTGACATAAAACATACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
65 CAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
* * * *
126637872 ACAAGGGATGAAGATGAGATACATGAATGATGGCCTTTCTCC-TTATAAAGTGTTTCGAATGCAA
130 ACAAGGGATGAAGACGAGATACATGAATGACGG-CTTTCTCCTTTATAAAATGTTTCAAATGCAA
126637936 CTACCATCCACATCAAAAACAAAA
194 CTACCATCCACATCAAAAACAAAA
* * * * *
126637960 ACAACTTTACACAAAAAAAATACAAAAAACAAACCCTCCAGGGCCAAGGAGCTTAAACTAGTTTG
1 ACAACTTTACGCAAAAGAATTACAAAAAACAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
126638025 CACGTCTTTTTATGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGAT
65 CAGGTC-TTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGAT
126638084 CCACCATGCT
Statistics
Matches: 300, Mismatches: 40, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
218 244 0.81
219 56 0.19
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (217 bp):
ACAACTTTACGCAAAAGAATTACAAAAAACAAACCCTCAAGGCCAAGGAGCTTACACTAGTTTGC
AGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAA
CAAGGGATGAAGACGAGATACATGAATGACGGCTTTCTCCTTTATAAAATGTTTCAAATGCAACT
ACCATCCACATCAAAAACAAAA
Found at i:126639524 original size:34 final size:35
Alignment explanation
Indices: 126639481--126639550 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
126639471 ACTTCACTAT
*
126639481 ACAAAGCAACCATAAAAATCTCTATATA-TTCAGA
1 ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
*
126639515 ACAAAGCAACCATAAGAATCTCGATATAGTTCAGA
1 ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
126639550 A
1 A
126639551 ATTTTTCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 26 0.79
35 7 0.21
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (35 bp):
ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
Found at i:126644106 original size:20 final size:21
Alignment explanation
Indices: 126644083--126644122 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
126644073 AATAAAGAGT
*
126644083 AAAT-CAAATAAACGTAAAAC
1 AAATCCAAAAAAACGTAAAAC
*
126644103 AAATCCAAAAAAATGTAAAA
1 AAATCCAAAAAAACGTAAAA
126644123 AAAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATCCAAAAAAACGTAAAAC
Found at i:126644184 original size:25 final size:24
Alignment explanation
Indices: 126644150--126644197 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
126644140 AGAATCAGCA
* *
126644150 CAATTGGAATCATCTCCGGAAACAT
1 CAATGGGAAT-ATCGCCGGAAACAT
*
126644175 CAATGGGAATATCGCGGGAAACA
1 CAATGGGAATATCGCCGGAAACA
126644198 ACGTTAGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
CAATGGGAATATCGCCGGAAACAT
Found at i:126646127 original size:29 final size:30
Alignment explanation
Indices: 126646064--126646133 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
126646054 ACTAACAGTT
*
126646064 AAACGTAAATTTTGAAATCTAAAAATAAAAA
1 AAAC-TAAATTTTGAAATATAAAAATAAAAA
*
126646095 AAACTAAATTTCTGAAA-ATAAAAAT-ATAA
1 AAACTAAATTT-TGAAATATAAAAATAAAAA
126646124 AAACTAAATT
1 AAACTAAATT
126646134 CCAAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 13 0.36
30 14 0.39
31 9 0.25
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.27
Consensus pattern (30 bp):
AAACTAAATTTTGAAATATAAAAATAAAAA
Found at i:126647283 original size:20 final size:18
Alignment explanation
Indices: 126647249--126647289 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
126647239 CTCTCATACA
*
126647249 TTGTTTTTTGTTATTTTT
1 TTGTTTTTTGTTATTCTT
126647267 TTGTTCTTTTGTATATTCTT
1 TTGTT-TTTTGT-TATTCTT
126647287 TTG
1 TTG
126647290 ATTAAGTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 9 0.45
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.76
Consensus pattern (18 bp):
TTGTTTTTTGTTATTCTT
Found at i:126653956 original size:14 final size:15
Alignment explanation
Indices: 126653921--126653958 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
126653911 TTCCAACTCC
126653921 TCGTTTTTTCCCTCT
1 TCGTTTTTTCCCTCT
126653936 TCGTTTTTTCCCTCT
1 TCGTTTTTTCCCTCT
126653951 TC-TTTTTT
1 TCGTTTTTT
126653959 GAGTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.00, C:0.29, G:0.05, T:0.66
Consensus pattern (15 bp):
TCGTTTTTTCCCTCT
Found at i:126655655 original size:21 final size:21
Alignment explanation
Indices: 126655631--126655671 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
126655621 ACATATTGTA
* *
126655631 TATTCATATCCTATTCAAAAG
1 TATTCACATCATATTCAAAAG
126655652 TATTCACATCATATTCAAAA
1 TATTCACATCATATTCAAAA
126655672 ATAGTAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (21 bp):
TATTCACATCATATTCAAAAG
Found at i:126657789 original size:17 final size:17
Alignment explanation
Indices: 126657767--126657801 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
126657757 CATCATCACC
126657767 TGAAAATTTAGATAATT
1 TGAAAATTTAGATAATT
126657784 TGAAAATTTAGATAATT
1 TGAAAATTTAGATAATT
126657801 T
1 T
126657802 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TGAAAATTTAGATAATT
Found at i:126660015 original size:11 final size:11
Alignment explanation
Indices: 126659956--126660016 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
126659946 ATTATAAATT
126659956 TATTTTAATAA
1 TATTTTAATAA
126659967 TTCATTTTAAATTAA
1 -T-ATTTT-AA-TAA
126659982 TATTTTAA-AA
1 TATTTTAATAA
**
126659992 TAATTTTTTTAA
1 T-ATTTTAATAA
126660004 TATTTTAATAA
1 TATTTTAATAA
126660015 TA
1 TA
126660017 AATATGTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 6 0.15
13 10 0.25
14 3 0.08
15 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:126660073 original size:24 final size:24
Alignment explanation
Indices: 126660046--126660094 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
126660036 ATTAAAATCT
126660046 AATAAAAATTATTTT-ATAATATAA
1 AATAAAAA-TATTTTAATAATATAA
**
126660070 AATATTAATATTTTAATAATATAA
1 AATAAAAATATTTTAATAATATAA
126660094 A
1 A
126660095 TATGAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAAAAATATTTTAATAATATAA
Found at i:126660107 original size:24 final size:23
Alignment explanation
Indices: 126660055--126660106 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
126660045 TAATAAAAAT
*
126660055 TATTTTATAATATAAAATATTAA
1 TATTTTATAATATAAAATATGAA
126660078 TATTTTAATAATAT-AAATATGAA
1 TATTTT-ATAATATAAAATATGAA
126660101 TATTTT
1 TATTTT
126660107 TTTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTTTATAATATAAAATATGAA
Found at i:126667110 original size:12 final size:11
Alignment explanation
Indices: 126667071--126667142 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 11
126667061 GTATAAAATA
*
126667071 TAATAATAACTT
1 TAATTATAA-TT
126667083 T-ATTATAATT
1 TAATTATAATT
126667093 GTAATTATAATT
1 -TAATTATAATT
*
126667105 TAAATTACAATTAT
1 T-AATTATAA-T-T
*
126667119 TAATTA-AAAT
1 TAATTATAATT
126667129 T-ATTATAATT
1 TAATTATAATT
126667139 TAAT
1 TAAT
126667143 ATTGATATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
9 4 0.08
10 8 0.16
11 10 0.20
12 19 0.39
13 6 0.12
14 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (11 bp):
TAATTATAATT
Found at i:126667128 original size:19 final size:18
Alignment explanation
Indices: 126667095--126667130 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
126667085 TTATAATTGT
*
126667095 AATTATAATTTAAATTAC
1 AATTATAATTAAAATTAC
126667113 AATTATTAATTAAAATTA
1 AATTA-TAATTAAAATTA
126667131 TTATAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTATAATTAAAATTAC
Found at i:126674006 original size:13 final size:14
Alignment explanation
Indices: 126673990--126674025 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
126673980 CAAACTCATA
126673990 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
126674003 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
126674016 TCTC-ATTTCA
1 TCTCAATTTCA
126674026 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:126674230 original size:42 final size:43
Alignment explanation
Indices: 126674179--126674284 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
126674169 CCTGATCAGT
126674179 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTACCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTACCTGA
** * * * * *
126674221 ATACGACACACGAGGTCCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTACCTG-A
126674265 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
126674285 GATCGATAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 35 0.69
44 16 0.31
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTACCTGA
Found at i:126674231 original size:23 final size:21
Alignment explanation
Indices: 126674202--126674274 Score: 110
Period size: 21 Copynumber: 3.4 Consensus size: 21
126674192 AGTGCCTAAA
126674202 ACGACACACGAGGTACCTGAT
1 ACGACACACGAGGTACCTGAT
*
126674223 ACGACACACGAGGTCCCTGAT
1 ACGACACACGAGGTACCTGAT
*
126674244 ACGACACACGAGGTGCCTGAAAT
1 ACGACACACGAGGTACCTG--AT
126674267 ACGACACA
1 ACGACACA
126674275 TAAAGTGCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 38 0.79
23 10 0.21
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.12
Consensus pattern (21 bp):
ACGACACACGAGGTACCTGAT
Found at i:126674286 original size:23 final size:22
Alignment explanation
Indices: 126674179--126674274 Score: 108
Period size: 21 Copynumber: 4.5 Consensus size: 22
126674169 CCTGATCAGT
** *
126674179 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
* *
126674200 AAACGACACACGAGGTACCTG-
1 ATACGACACACGAGGTGCCTGA
*
126674221 ATACGACACACGAGGTCCCTG-
1 ATACGACACACGAGGTGCCTGA
126674242 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
126674265 ATACGACACA
1 ATACGACACA
126674275 TAAAGTGCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
21 54 0.84
23 10 0.16
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:126674683 original size:15 final size:15
Alignment explanation
Indices: 126674658--126674711 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
126674648 TCATATATAT
126674658 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
126674674 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
126674689 AATAATTTCAATCAA
1 TATAAATTCAATCAA
126674704 TATAAATT
1 TATAAATT
126674712 TAATAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:126674700 original size:30 final size:28
Alignment explanation
Indices: 126674661--126674719 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
126674651 TATATATTAT
126674661 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
*
126674690 ATAATTTCAATCAATATAAATTTAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
126674719 A
1 A
126674720 CAGATATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:126675711 original size:22 final size:19
Alignment explanation
Indices: 126675686--126675729 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
126675676 CGCCCCCTGC
126675686 TATTCTGTTTCTTTCCTCTTTT
1 TATTCT-TTTCTTT-CT-TTTT
*
126675708 TATTCTTTTGTTTCTTTTT
1 TATTCTTTTCTTTCTTTTT
126675727 TAT
1 TAT
126675730 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 2 0.10
21 6 0.29
22 6 0.29
ACGTcount: A:0.07, C:0.16, G:0.05, T:0.73
Consensus pattern (19 bp):
TATTCTTTTCTTTCTTTTT
Found at i:126675732 original size:2 final size:2
Alignment explanation
Indices: 126675727--126675755 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
126675717 GTTTCTTTTT
126675727 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126675756 ATGACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:126675748 original size:13 final size:13
Alignment explanation
Indices: 126675730--126675757 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
126675720 TCTTTTTTAT
126675730 ATATATATATATA
1 ATATATATATATA
126675743 ATATATATATATA
1 ATATATATATATA
126675756 AT
1 AT
126675758 GACAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:126687000 original size:58 final size:58
Alignment explanation
Indices: 126686903--126687024 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
126686893 ATTCTATAGT
* *
126686903 TAATTATAGAAGCTGCATTGATGTTTACATCCGCTAATCACTAATGCTTACTCTGTTA
1 TAATTATAGAAGCTGCATAGATGTTTACATCCGCTAATCACTAATGCTTACTCTGTCA
* * * *
126686961 TAATTATAGAAGCTGCATCAG-TGTTTACATTC-TTGAATCACTAATGTTTATTCTGTCA
1 TAATTATAGAAGCTGCAT-AGATGTTTACATCCGCT-AATCACTAATGCTTACTCTGTCA
126687019 T-ATTAT
1 TAATTAT
126687025 TTAAGAATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.11
58 49 0.88
59 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (58 bp):
TAATTATAGAAGCTGCATAGATGTTTACATCCGCTAATCACTAATGCTTACTCTGTCA
Found at i:126694334 original size:29 final size:29
Alignment explanation
Indices: 126694301--126694384 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 29
126694291 ATAAGTATCG
126694301 TAAATATTTAACAAAACTGTGTATTTGAC
1 TAAATATTTAACAAAACTGTGTATTTGAC
* * * *
126694330 T-AA-ATGTAAGAATA-T-T-TA-AT-A-
1 TAAATATTTAACAAAACTGTGTATTTGAC
126694351 TAAATATTTAACAAAACTGTGTATTTGAC
1 TAAATATTTAACAAAACTGTGTATTTGAC
126694380 TAAAT
1 TAAAT
126694385 GTAAGAATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 16
0.62 0.13 0.25
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 9 0.23
24 3 0.08
25 2 0.05
26 3 0.08
27 9 0.23
28 3 0.08
29 6 0.15
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (29 bp):
TAAATATTTAACAAAACTGTGTATTTGAC
Found at i:126694360 original size:50 final size:50
Alignment explanation
Indices: 126694301--126694405 Score: 210
Period size: 50 Copynumber: 2.1 Consensus size: 50
126694291 ATAAGTATCG
126694301 TAAATATTTAACAAAACTGTGTATTTGACTAAATGTAAGAATATTTAATA
1 TAAATATTTAACAAAACTGTGTATTTGACTAAATGTAAGAATATTTAATA
126694351 TAAATATTTAACAAAACTGTGTATTTGACTAAATGTAAGAATATTTAATA
1 TAAATATTTAACAAAACTGTGTATTTGACTAAATGTAAGAATATTTAATA
126694401 TAAAT
1 TAAAT
126694406 TCAAGGTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (50 bp):
TAAATATTTAACAAAACTGTGTATTTGACTAAATGTAAGAATATTTAATA
Found at i:126696669 original size:5 final size:5
Alignment explanation
Indices: 126696659--126696683 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
126696649 GTAATTTTTT
126696659 GATAA GATAA GATAA GATAA GATAA
1 GATAA GATAA GATAA GATAA GATAA
126696684 ATAGATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
GATAA
Found at i:126704862 original size:10 final size:10
Alignment explanation
Indices: 126704832--126704870 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
126704822 ATATATATTA
126704832 ATTATTAAAAT
1 ATTA-TAAAAT
126704843 ATTA-AAAAT
1 ATTATAAAAT
*
126704852 ATAATAAAAT
1 ATTATAAAAT
126704862 ATTATAAAA
1 ATTATAAAA
126704871 ATTCATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 13 0.52
11 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:126705978 original size:21 final size:21
Alignment explanation
Indices: 126705954--126706004 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
126705944 ATATATAGAC
*
126705954 TAATTATTTTTCATAAAACA-A
1 TAATTATTTTT-ATAAAAAATA
*
126705975 TAATTCA-ATTTATAAAAAATA
1 TAATT-ATTTTTATAAAAAATA
126705996 TAATTATTT
1 TAATTATTT
126706005 GATATACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTATTTTTATAAAAAATA
Found at i:126706074 original size:14 final size:13
Alignment explanation
Indices: 126706053--126706102 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
126706043 AAGAATAAAA
126706053 ATTAAATAAATTT
1 ATTAAATAAATTT
* *
126706066 ATTAGAATAGAAATA
1 ATTA-AATA-AATTT
126706081 ATTAAATAAATTT
1 ATTAAATAAATTT
126706094 ATTAGAATA
1 ATTA-AATA
126706103 GAAATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.37
14 12 0.40
15 7 0.23
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTAAATAAATTT
Found at i:126706083 original size:28 final size:28
Alignment explanation
Indices: 126706052--126706110 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
126706042 AAAGAATAAA
126706052 AATTAAATAAATTTATTAGAATAGAAAT
1 AATTAAATAAATTTATTAGAATAGAAAT
126706080 AATTAAATAAATTTATTAGAATAGAAAT
1 AATTAAATAAATTTATTAGAATAGAAAT
126706108 AAT
1 AAT
126706111 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (28 bp):
AATTAAATAAATTTATTAGAATAGAAAT
Found at i:126708151 original size:16 final size:16
Alignment explanation
Indices: 126708097--126708152 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
126708087 TTCATTTTTG
*
126708097 TTATTTTTT-TAGAAA
1 TTATTTTTTATAGTAA
*
126708112 TTATTTTTATCATACTAA
1 TTATTTTT-T-ATAGTAA
*
126708130 TAATTTTTTATAGTAA
1 TTATTTTTTATAGTAA
126708146 TTATTTT
1 TTATTTT
126708153 AAAAAATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 8 0.24
16 13 0.39
17 1 0.03
18 11 0.33
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATTTTTTATAGTAA
Found at i:126715969 original size:47 final size:47
Alignment explanation
Indices: 126715900--126715990 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 47
126715890 GGTTTCTAAA
* *
126715900 ATGAATAAACTTATGAAGCTCTTTGGCATTTACCAATAATAGACAAC
1 ATGAATAAACTTATGAAGCTCTTCGGCATTTACCAAAAATAGACAAC
*
126715947 ATGAATAAACTTGA-GAAGCTCTTCGGCATTTACTAAAAATAGAC
1 ATGAATAAACTT-ATGAAGCTCTTCGGCATTTACCAAAAATAGAC
126715991 TTGGTAATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 39 0.98
48 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (47 bp):
ATGAATAAACTTATGAAGCTCTTCGGCATTTACCAAAAATAGACAAC
Found at i:126717674 original size:20 final size:20
Alignment explanation
Indices: 126717651--126717692 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
126717641 TTTTCTACGT
126717651 AATAAAGC-ATAAATGAAAAA
1 AATAAAGCAATAAA-GAAAAA
*
126717671 AATAAATCAATAAAGAAAAA
1 AATAAAGCAATAAAGAAAAA
126717691 AA
1 AA
126717693 CCCTCATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (20 bp):
AATAAAGCAATAAAGAAAAA
Found at i:126722259 original size:33 final size:33
Alignment explanation
Indices: 126722204--126722266 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
126722194 TTTAACCAAA
*
126722204 CTATACAAAATTTTGGATTTAGCTTGTATAACC
1 CTATACAAAATTTTGGATTTAGCTCGTATAACC
126722237 CTATACAAAATTTTGGATTTAGCTCGTATA
1 CTATACAAAATTTTGGATTTAGCTCGTATA
126722267 CCACTAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (33 bp):
CTATACAAAATTTTGGATTTAGCTCGTATAACC
Found at i:126729608 original size:13 final size:13
Alignment explanation
Indices: 126729592--126729650 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
126729582 TAAATTTTTT
126729592 AAAAACACTTCTC
1 AAAAACACTTCTC
*
126729605 AAAAACACTTTTC
1 AAAAACACTTCTC
* * *
126729618 CACAGCACTTCTC
1 AAAAACACTTCTC
* * *
126729631 AAAAGCACTTTTT
1 AAAAACACTTCTC
126729644 AAAAACA
1 AAAAACA
126729651 TTGCCAAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAACACTTCTC
Found at i:126736610 original size:3 final size:3
Alignment explanation
Indices: 126736604--126736628 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
126736594 AGAAATAATA
126736604 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
126736629 GAGAGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:126740548 original size:22 final size:23
Alignment explanation
Indices: 126740508--126740562 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
126740498 CAATTAGAAT
*
126740508 TTAAT-CAATTGTTTAAGGATGC
1 TTAATCCAATTGTTTAAGGATAC
*
126740530 TTAATCCAATT-TTTGAGGATAC
1 TTAATCCAATTGTTTAAGGATAC
126740552 TTAATCCAATT
1 TTAATCCAATT
126740563 AACCCATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (23 bp):
TTAATCCAATTGTTTAAGGATAC
Found at i:126742244 original size:30 final size:29
Alignment explanation
Indices: 126742203--126742276 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
126742193 TAATTTATAT
*
126742203 TTTTATAATTTTTAAAAAATTAAAT-TAAAA
1 TTTTATTATTTTTAAAAAA-T-AATGTAAAA
* * *
126742233 TTTTATTATTTTTGAAGAATAATGTATAA
1 TTTTATTATTTTTAAAAAATAATGTAAAA
*
126742262 TTTTATTATTATTAA
1 TTTTATTATTTTTAA
126742277 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 3 0.08
29 18 0.49
30 16 0.43
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTTATTATTTTTAAAAAATAATGTAAAA
Found at i:126743268 original size:17 final size:16
Alignment explanation
Indices: 126743244--126743281 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
126743234 TAGGAAAATA
126743244 TAAAATTA-ATTTATGT
1 TAAAATTATATTTAT-T
126743260 TAAATATTATATTTATT
1 TAAA-ATTATATTTATT
126743277 TAAAA
1 TAAAA
126743282 CTGATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTATATTTATT
Found at i:126744890 original size:26 final size:25
Alignment explanation
Indices: 126744837--126744902 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
126744827 TGCATTCGAA
*
126744837 TATTTTAATATTTGATTAAAATTATT
1 TATTTTAA-ATTTGATTAAAAGTATT
126744863 TATTTTAAATTTGTATTAAAAAGT-TT
1 TATTTTAAATTTG-ATT-AAAAGTATT
* *
126744889 TAATTTAAACTTGA
1 TATTTTAAATTTGA
126744903 GTTTAATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 6 0.17
26 24 0.69
27 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (25 bp):
TATTTTAAATTTGATTAAAAGTATT
Found at i:126746188 original size:21 final size:25
Alignment explanation
Indices: 126746141--126746191 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
126746131 TACAAAAGTT
*
126746141 ATTAATATTTATTTATATTGTTATA
1 ATTAATATTTATATATATTGTTATA
126746166 ATTAATATTTA-AT-TA-TGTT-TA
1 ATTAATATTTATATATATTGTTATA
126746187 ATTAA
1 ATTAA
126746192 GTTATTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 2 0.08
24 1 0.04
25 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
ATTAATATTTATATATATTGTTATA
Found at i:126747066 original size:23 final size:24
Alignment explanation
Indices: 126747021--126747068 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
126747011 TAGTTATTTC
126747021 TGATTGTTTGATTTCTACAGAAAT
1 TGATTGTTTGATTTCTACAGAAAT
126747045 TGATTGTTTGATTT-TACAGAAAT
1 TGATTGTTTGATTTCTACAGAAAT
126747068 T
1 T
126747069 TTATAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATTGTTTGATTTCTACAGAAAT
Found at i:126752773 original size:17 final size:16
Alignment explanation
Indices: 126752743--126752776 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
126752733 AATTAATTTT
126752743 TTAAAATTTAAAATTA
1 TTAAAATTTAAAATTA
*
126752759 TTAAAATTATTAAATTA
1 TTAAAATT-TAAAATTA
126752776 T
1 T
126752777 AAGAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATTTAAAATTA
Found at i:126762515 original size:154 final size:154
Alignment explanation
Indices: 126762291--126762602 Score: 606
Period size: 154 Copynumber: 2.0 Consensus size: 154
126762281 TTAGGTAATA
126762291 AAAAATGTCTAGCACAAGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
1 AAAAATGTCTAGCACAAGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
126762356 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCGTATGATAAACAAGTGGAA
66 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCGTATGATAAACAAGTGGAA
126762421 ACATTCCTAAGAACATGCACAGAT
131 ACATTCCTAAGAACATGCACAGAT
*
126762445 AAAAATGTCTAGCACATGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
1 AAAAATGTCTAGCACAAGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
*
126762510 TGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCGTATGATAAACAAGTGGAA
66 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCGTATGATAAACAAGTGGAA
126762575 ACATTCCTAAGAACATGCACAGAT
131 ACATTCCTAAGAACATGCACAGAT
126762599 AAAA
1 AAAA
126762603 TTAGAAAGTC
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 156 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (154 bp):
AAAAATGTCTAGCACAAGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCGTATGATAAACAAGTGGAA
ACATTCCTAAGAACATGCACAGAT
Found at i:126775442 original size:269 final size:269
Alignment explanation
Indices: 126774963--126775502 Score: 1017
Period size: 269 Copynumber: 2.0 Consensus size: 269
126774953 TTAAAGTTTT
*
126774963 ATATATACATCTAAACCGAAAATTGAGTTTAATGTGTATGATTACACAAAAATCAAACTTCATTT
1 ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAAATCAAACTTCATTT
126775028 ATTAAATTGTATCAAATTACATATTAAATCAAAATTGATGTATAAATTTAATATTTACCCCTAAA
66 ATTAAATTGTATCAAATTACATATTAAATCAAAATTGATGTATAAATTTAATATTTACCCCTAAA
*
126775093 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACGTCTTGTTCAGCTGAT
131 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACGTCTTATTCAGCTGAT
126775158 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACGATAATGATACTTTAAGAGTCCGG
196 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACGATAATGATACTTTAAGAGTCCGG
126775223 GGACATATA
261 GGACATATA
* *
126775232 ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTATACAAAGATCAAACTTCATTT
1 ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAAATCAAACTTCATTT
* *
126775297 ATTAAATTGTATCAAATTACATATTAAATCAAAGTTGATGTATAAATTTAATATTTATCCCTAAA
66 ATTAAATTGTATCAAATTACATATTAAATCAAAATTGATGTATAAATTTAATATTTACCCCTAAA
*
126775362 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACGTCTTATTCGGCTGAT
131 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACGTCTTATTCAGCTGAT
126775427 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACGATAATGATACTTTAAGAGTCCGG
196 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACGATAATGATACTTTAAGAGTCCGG
126775492 GGACATATA
261 GGACATATA
126775501 AT
1 AT
126775503 GAAATTAACC
Statistics
Matches: 264, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
269 264 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (269 bp):
ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAAATCAAACTTCATTT
ATTAAATTGTATCAAATTACATATTAAATCAAAATTGATGTATAAATTTAATATTTACCCCTAAA
AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACGTCTTATTCAGCTGAT
ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACGATAATGATACTTTAAGAGTCCGG
GGACATATA
Found at i:126779087 original size:39 final size:39
Alignment explanation
Indices: 126779029--126779185 Score: 142
Period size: 39 Copynumber: 4.0 Consensus size: 39
126779019 TTCAGTGATG
**
126779029 TATATCCGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * *
126779068 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * *
126779107 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTT-GTGCTGGAAT
** *
126779146 TATA-CCGGGTTTAAATTCCCGCAGGCTTGTGCTGGTAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGG-AAT
126779185 T
1 T
126779186 GGTTTCAAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 16 0.16
39 83 0.84
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGGAAT
Found at i:126787215 original size:19 final size:19
Alignment explanation
Indices: 126787187--126787224 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
126787177 CATTAACCTT
* *
126787187 AACAATGGCTAACAAAAAC
1 AACAAAGGCTAAAAAAAAC
126787206 AACAAAGGCTAAAAAAAAC
1 AACAAAGGCTAAAAAAAAC
126787225 GAAAATGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.18, G:0.11, T:0.08
Consensus pattern (19 bp):
AACAAAGGCTAAAAAAAAC
Found at i:126807658 original size:27 final size:27
Alignment explanation
Indices: 126807620--126807672 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
126807610 TGGAGCAAAT
126807620 ATATCATAATCTCAACATCAATATACC
1 ATATCATAATCTCAACATCAATATACC
126807647 ATATCATAATCTCAACATCAATATAC
1 ATATCATAATCTCAACATCAATATAC
126807673 TAAGTATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (27 bp):
ATATCATAATCTCAACATCAATATACC
Found at i:126811337 original size:31 final size:31
Alignment explanation
Indices: 126811278--126811337 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
126811268 CACATTATTC
** *
126811278 AAATAGTTTCATTTTTTTTTTTTGTCTTTGA
1 AAATAGTTTCATTTTTTAATTATGTCTTTGA
126811309 AAATAGTTTCAATTTTTTAATTAT-TCTTT
1 AAATAGTTTC-ATTTTTTAATTATGTCTTT
126811338 TTATATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (31 bp):
AAATAGTTTCATTTTTTAATTATGTCTTTGA
Found at i:126813011 original size:13 final size:15
Alignment explanation
Indices: 126812963--126813013 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
126812953 TTCGGAATAT
* *
126812963 ATATAATCTAGAAAA
1 ATATAATTTATAAAA
126812978 ATATAATTTATAAAA
1 ATATAATTTATAAAA
126812993 ATATAATTT-TAAAA
1 ATATAATTTATAAAA
126813007 A-ATAATT
1 ATATAATT
126813014 GAAAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 22 0.65
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
ATATAATTTATAAAA
Found at i:126813264 original size:22 final size:21
Alignment explanation
Indices: 126813217--126813272 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
126813207 ATATTATTTT
*
126813217 AATATTTTAAATTTATAATTA
1 AATATTTTAAATTTATAATAA
*
126813238 TATATTTTAGAATTTTATAA-AA
1 AATATTTTA-AA-TTTATAATAA
126813260 AATATTTTTAAAT
1 AATA-TTTTAAAT
126813273 ATTTTTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 9 0.31
22 8 0.28
23 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATTTTAAATTTATAATAA
Found at i:126813274 original size:10 final size:10
Alignment explanation
Indices: 126813259--126813315 Score: 62
Period size: 10 Copynumber: 5.8 Consensus size: 10
126813249 ATTTTATAAA
126813259 AAATATTTTT
1 AAATATTTTT
126813269 AAATATTTTT
1 AAATATTTTT
*
126813279 AAACATTTTT
1 AAATATTTTT
* *
126813289 ATATA-TTAT
1 AAATATTTTT
*
126813298 ATATATTTTT
1 AAATATTTTT
*
126813308 ATATATTT
1 AAATATTT
126813316 AATCAGTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
9 8 0.20
10 33 0.80
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
AAATATTTTT
Found at i:126819787 original size:15 final size:15
Alignment explanation
Indices: 126819748--126819777 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126819738 CCCCTCTCCC
126819748 CCTCTCC-TTTCTCT
1 CCTCTCCTTTTCTCT
126819762 CCTCTCCTTTTCTCT
1 CCTCTCCTTTTCTCT
126819777 C
1 C
126819778 TTCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (15 bp):
CCTCTCCTTTTCTCT
Found at i:126821020 original size:17 final size:17
Alignment explanation
Indices: 126821000--126821032 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
126820990 TATACTATGT
126821000 GTATATATATCTAGTAA
1 GTATATATATCTAGTAA
*
126821017 GTATATATATTTAGTA
1 GTATATATATCTAGTA
126821033 TCATTACGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (17 bp):
GTATATATATCTAGTAA
Found at i:126832372 original size:68 final size:69
Alignment explanation
Indices: 126832105--126832448 Score: 334
Period size: 69 Copynumber: 4.9 Consensus size: 69
126832095 TTTTGGTACT
* * * **
126832105 CTGAGGTATCTTTAATTCATGTTTCAAAAATCAATTCATATTGCGAGAAATGAGTTGAGCCTCAG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-
*
126832170 TCACACG
65 --AGACG
* ** **
126832177 CTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAATTTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
126832242 AGGTCACG
64 AAG--ACG
* * *
126832250 CTGAGGTGTTTTTAATTTTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
126832315 GACG
66 GACG
* * * * *
126832319 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A
*
126832383 GGCACG
65 AG-ACG
* * ** * * *
126832389 CTGAGGTATTTTTAGTTTAT-TTT-AGAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
126832449 TTTAATTTCT
Statistics
Matches: 224, Mismatches: 41, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
68 39 0.17
69 50 0.22
70 21 0.09
71 35 0.16
72 22 0.10
73 25 0.11
74 32 0.14
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (69 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACG
Found at i:126832401 original size:139 final size:142
Alignment explanation
Indices: 126832105--126832402 Score: 368
Period size: 145 Copynumber: 2.1 Consensus size: 142
126832095 TTTTGGTACT
* *
126832105 CTGAGGTATCTTTAATTCATGTTTCAAAAATCAATTCATATTGCGAGAAATGAGTTGAGCCTCAG
1 CTGAGGTATTTTTAATTCATGTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-
* * * **
126832170 TCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTC
65 -CACACGCTGAGGTAATTTCAATTTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTC
*
126832235 AAGCCTCAGGTCACG
128 AAGCCTCAGGGCACG
* ** * **
126832250 CTGAGGTGTTTTTAATTTTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA-
1 CTGAGGTATTTTTAATTCATGTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAC
* * * **
126832314 AGACGTTGAGGTAATTTCAATTTATG-TTC-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTCAAG
*
126832377 CCTCGGGGCACG
131 CCTCAGGGCACG
126832389 CTGAGGTATTTTTA
1 CTGAGGTATTTTTA
126832403 GTTTATTTTA
Statistics
Matches: 132, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
139 52 0.39
141 3 0.02
142 21 0.16
145 56 0.42
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (142 bp):
CTGAGGTATTTTTAATTCATGTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAC
ACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTCAAG
CCTCAGGGCACG
Found at i:126834154 original size:15 final size:15
Alignment explanation
Indices: 126834115--126834144 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126834105 CCCCTCTCCC
126834115 CCTCTCC-TTTCTCT
1 CCTCTCCTTTTCTCT
126834129 CCTCTCCTTTTCTCT
1 CCTCTCCTTTTCTCT
126834144 C
1 C
126834145 TTCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (15 bp):
CCTCTCCTTTTCTCT
Found at i:126834680 original size:17 final size:17
Alignment explanation
Indices: 126834658--126834692 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
126834648 ATTTTTTAAG
126834658 TACGTATAAATATATAT
1 TACGTATAAATATATAT
*
126834675 TACGTATATATATATAT
1 TACGTATAAATATATAT
126834692 T
1 T
126834693 TTATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
TACGTATAAATATATAT
Found at i:126835382 original size:17 final size:17
Alignment explanation
Indices: 126835362--126835394 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
126835352 TATACTATGT
126835362 GTATATATATCTAGTAA
1 GTATATATATCTAGTAA
*
126835379 GTATATATATTTAGTA
1 GTATATATATCTAGTA
126835395 TCATTACGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (17 bp):
GTATATATATCTAGTAA
Found at i:126837755 original size:5 final size:5
Alignment explanation
Indices: 126837745--126837769 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
126837735 AGAACTTATT
126837745 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
126837770 TAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:126838825 original size:25 final size:26
Alignment explanation
Indices: 126838791--126838844 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
126838781 CACTTTCAAG
126838791 AATTTT-AAAAATATTATTTTGT-TTT
1 AATTTTAAAAAATA-TATTTTGTATTT
*
126838816 AATTTTAAAAAATATATTTTTTATTT
1 AATTTTAAAAAATATATTTTGTATTT
126838842 AAT
1 AAT
126838845 AAAATATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
AATTTTAAAAAATATATTTTGTATTT
Found at i:126840001 original size:42 final size:43
Alignment explanation
Indices: 126839919--126840002 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
126839909 TTTTTTAAAT
*
126839919 TTTAAATAAATAATGATAAAATTGTACTTTATCTAAAAAAAGG
1 TTTAAATAAATAATGATAAAATTATACTTTATCTAAAAAAAGG
* * *
126839962 TTTAAATCAGTAATGATAAATTTATACTTTATCTAAAAAAA
1 TTTAAATAAATAATGATAAAATTATACTTTATCTAAAAAAA
126840003 ATTAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (43 bp):
TTTAAATAAATAATGATAAAATTATACTTTATCTAAAAAAAGG
Found at i:126842310 original size:23 final size:24
Alignment explanation
Indices: 126842284--126842328 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
126842274 GATTTGTTAC
126842284 ATAAAATTTTTGGG-ATTTTATTG
1 ATAAAATTTTTGGGAATTTTATTG
*
126842307 ATAAGATTTTTGGGAATTTTAT
1 ATAAAATTTTTGGGAATTTTAT
126842329 GTTTCTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (24 bp):
ATAAAATTTTTGGGAATTTTATTG
Found at i:126847353 original size:15 final size:16
Alignment explanation
Indices: 126847329--126847365 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
126847319 TAAAGAATAA
*
126847329 GTTAATATTTTT-TTT
1 GTTAAAATTTTTATTT
126847344 GTTAAAATTTTTATTT
1 GTTAAAATTTTTATTT
126847360 -TTAAAA
1 GTTAAAA
126847366 AATAGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
GTTAAAATTTTTATTT
Found at i:126847427 original size:76 final size:77
Alignment explanation
Indices: 126847285--126847521 Score: 223
Period size: 76 Copynumber: 3.0 Consensus size: 77
126847275 TTTGTTTATG
* * * * * **
126847285 TAAAAAATAATAAATTAATTAATGTATA-TTAGATTAAAGAATAAGTTAATATTTTTT-TTGTTA
1 TAAAAAATAATAAATTAGTTTATGTA-ACTTAGATTAAAGAACAAATTAGTATTTTTTATT-AAA
126847348 AAATT-TTTATTTT
64 AAATTATTTATTTT
* * *
126847361 TAAAAAATAGTAAATTGGTTTATGTAACTTAGATCAAAGAACAAATTAGTATTTTTTATTAAAAA
1 TAAAAAATAATAAATTAGTTTATGTAACTTAGATTAAAGAACAAATTAGTATTTTTTATTAAAAA
126847426 ATTTATTTATTTT
66 A-TTATTTATTTT
* * * *
126847439 TACTGTTAAAAATAACAAATTAGTTTATATATCCTAGATTAAAG-ACTAAATTAGTA-TTTTTAT
1 TA-----AAAAATAATAAATTAGTTTATGTAACTTAGATTAAAGAAC-AAATTAGTATTTTTTAT
*
126847502 TAAAAAATTATTAATTTT
60 TAAAAAATTATTTATTTT
126847520 TA
1 TA
126847522 GGATTAAAAA
Statistics
Matches: 133, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
75 1 0.01
76 51 0.38
77 4 0.03
78 10 0.08
81 12 0.09
82 16 0.12
83 39 0.29
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (77 bp):
TAAAAAATAATAAATTAGTTTATGTAACTTAGATTAAAGAACAAATTAGTATTTTTTATTAAAAA
ATTATTTATTTT
Found at i:126847490 original size:83 final size:81
Alignment explanation
Indices: 126847349--126847521 Score: 213
Period size: 83 Copynumber: 2.1 Consensus size: 81
126847339 TTTTTGTTAA
* * ** * * *
126847349 AATTTTTATTTTTAAAAAATAGTAAATTGGTTTATGTAACTTAGATCAAAGAACAAATTAGTATT
1 AATTTTTACTGTT-AAAAATAACAAATTAGTTTATATAACCTAGATCAAAGAACAAATTAGTA-T
126847414 TTTTATTAAAAAATTTATT
64 TTTTATTAAAAAA-TTATT
* * *
126847433 TATTTTTACTGTTAAAAATAACAAATTAGTTTATATATCCTAGATTAAAG-ACTAAATTAGTATT
1 AATTTTTACTGTTAAAAATAACAAATTAGTTTATATAACCTAGATCAAAGAAC-AAATTAGTATT
126847497 TTTATTAAAAAATTATT
65 TTTATTAAAAAATTATT
126847514 AATTTTTA
1 AATTTTTA
126847522 GGATTAAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 12 0.16
82 16 0.21
83 39 0.51
84 10 0.13
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (81 bp):
AATTTTTACTGTTAAAAATAACAAATTAGTTTATATAACCTAGATCAAAGAACAAATTAGTATTT
TTATTAAAAAATTATT
Found at i:126860970 original size:31 final size:33
Alignment explanation
Indices: 126860935--126861001 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 33
126860925 CAAGTTGAAA
*
126860935 AAACTCAGGTACCA-AAA-TGAATATTGAAGTC
1 AAACTCAGGTACCACAAATTGAATATTGAAATC
*
126860966 AAACTCATGTACCACCAAATTGAATATTGAAATC
1 AAACTCAGGTACCA-CAAATTGAATATTGAAATC
126861000 AA
1 AA
126861002 GTTCAAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 13 0.42
33 3 0.10
34 15 0.48
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (33 bp):
AAACTCAGGTACCACAAATTGAATATTGAAATC
Found at i:126861012 original size:34 final size:34
Alignment explanation
Indices: 126860945--126861012 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
126860935 AAACTCAGGT
* *
126860945 ACCAAAATGAATATTGAAGTCAAACTCATGTACC
1 ACCAAAATGAATATTGAAATCAAACTCAAGTACC
* **
126860979 ACCAAATTGAATATTGAAATCAAGTTCAAGTACC
1 ACCAAAATGAATATTGAAATCAAACTCAAGTACC
126861013 GAATAGTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (34 bp):
ACCAAAATGAATATTGAAATCAAACTCAAGTACC
Found at i:126864391 original size:32 final size:33
Alignment explanation
Indices: 126864354--126864417 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
126864344 AATAGTTATT
126864354 AAACTAT-TT-GAAAGTTTTTTATTTAAGTCACA
1 AAACTATATTCGAAAG-TTTTTATTTAAGTCACA
*
126864386 AAACTATATTCGAGAGTTTTTATTTAAGTCAC
1 AAACTATATTCGAAAGTTTTTATTTAAGTCAC
126864418 TAAGCTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.24
33 18 0.62
34 4 0.14
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (33 bp):
AAACTATATTCGAAAGTTTTTATTTAAGTCACA
Found at i:126868390 original size:29 final size:29
Alignment explanation
Indices: 126868358--126868418 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
126868348 TCCTTATATT
126868358 CTTTAAACTTTTAAAATTTAATCATGTTA
1 CTTTAAACTTTTAAAATTTAATCATGTTA
* ** * *
126868387 CTTTTATTTTTTAAAATTTAATTATTTTA
1 CTTTAAACTTTTAAAATTTAATCATGTTA
126868416 CTT
1 CTT
126868419 ATCGAATTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (29 bp):
CTTTAAACTTTTAAAATTTAATCATGTTA
Found at i:126868624 original size:12 final size:12
Alignment explanation
Indices: 126868609--126868635 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
126868599 AATCAGATCT
126868609 AAAATTAAAATA
1 AAAATTAAAATA
126868621 AAAATTAAAATA
1 AAAATTAAAATA
126868633 AAA
1 AAA
126868636 TGTAAAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:126868641 original size:12 final size:11
Alignment explanation
Indices: 126868608--126868641 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
126868598 AAATCAGATC
126868608 TAAAATTAAAA
1 TAAAATTAAAA
126868619 TAAAAATTAAAA
1 T-AAAATTAAAA
126868631 TAAAATGTAAA
1 TAAAAT-TAAA
126868642 GTATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAATTAAAA
Found at i:126868667 original size:21 final size:20
Alignment explanation
Indices: 126868615--126868667 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
126868605 ATCTAAAATT
*
126868615 AAAATAAA-AATTAAAATAA
1 AAAATAAATATTTAAAATAA
**
126868634 AATGTAAAGTATTTAAAATAA
1 AAAATAAA-TATTTAAAATAA
126868655 ATAAATAAATATT
1 A-AAATAAATATT
126868668 AATTAAGCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 6 0.23
21 15 0.58
22 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAATAAATATTTAAAATAA
Found at i:126868922 original size:10 final size:9
Alignment explanation
Indices: 126868907--126868967 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
126868897 AAATAACTTG
126868907 AATATTATAA
1 AATATTA-AA
126868917 AATATTAAA
1 AATATTAAA
126868926 AA-ATATAAA
1 AATAT-TAAA
126868935 AATA-TAAA
1 AATATTAAA
*
126868943 AGTTCATTAAA
1 A-AT-ATTAAA
*
126868954 AATTTTAAA
1 AATATTAAA
126868963 AATAT
1 AATAT
126868968 AGTATAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.17
9 20 0.48
10 10 0.24
11 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AATATTAAA
Found at i:126873739 original size:33 final size:33
Alignment explanation
Indices: 126873697--126873763 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
126873687 CATTATATTG
126873697 TTTTCTTTTTTAATTTTTGAAACTATAAGAGGA
1 TTTTCTTTTTTAATTTTTGAAACTATAAGAGGA
126873730 TTTTCTTTTTTAATTTTTGAAACTATAAGAGGA
1 TTTTCTTTTTTAATTTTTGAAACTATAAGAGGA
126873763 T
1 T
126873764 GGTTAGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (33 bp):
TTTTCTTTTTTAATTTTTGAAACTATAAGAGGA
Found at i:126876326 original size:27 final size:27
Alignment explanation
Indices: 126876288--126876342 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
126876278 CATACTAATC
*
126876288 AAGGTTTAATAATGCCTTACATGGACT
1 AAGGCTTAATAATGCCTTACATGGACT
126876315 AAGGCTTAATAATGCCTTACATGGACT
1 AAGGCTTAATAATGCCTTACATGGACT
126876342 A
1 A
126876343 TCCCTAGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (27 bp):
AAGGCTTAATAATGCCTTACATGGACT
Found at i:126878273 original size:6 final size:6
Alignment explanation
Indices: 126878262--126878299 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
126878252 TAGATTTAAA
*
126878262 AAAAAG AAAAAG AAAAGG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
126878300 GACTTAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:126879675 original size:11 final size:11
Alignment explanation
Indices: 126879659--126879684 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
126879649 TTAAATCGAT
126879659 TTGTATCGTTG
1 TTGTATCGTTG
126879670 TTGTATCGTTG
1 TTGTATCGTTG
126879681 TTGT
1 TTGT
126879685 TGTAAGTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.27, T:0.58
Consensus pattern (11 bp):
TTGTATCGTTG
Found at i:126881998 original size:95 final size:95
Alignment explanation
Indices: 126881881--126882059 Score: 211
Period size: 95 Copynumber: 1.9 Consensus size: 95
126881871 CAAAAGTAAA
* * * ** * * *
126881881 AAAAAAATGTCACGTTAGCAATCTGTTAGTAGA-TAAACGGAGTTTTTAAC-AGCAGTGACCAAT
1 AAAAAAATATCACATCAGCAATCCATTAGTAGACT-AACGAAATTTTTAACGA-CAATGACCAAT
*
126881944 TCGAA-CAATTATTTTAATTATTAGTCAAAAGT
64 TC-AAGCAATTATCTTAATTATTAGTCAAAAGT
*
126881976 AAAAAAATATCACATCAGCAATCCATTAGTGGACTAACGAAATTTTTAACGACAATGACCAATTC
1 AAAAAAATATCACATCAGCAATCCATTAGTAGACTAACGAAATTTTTAACGACAATGACCAATTC
*
126882041 AAGTAATTATCTTAATTAT
66 AAGCAATTATCTTAATTAT
126882060 AGTGACTATA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
94 2 0.03
95 66 0.94
96 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (95 bp):
AAAAAAATATCACATCAGCAATCCATTAGTAGACTAACGAAATTTTTAACGACAATGACCAATTC
AAGCAATTATCTTAATTATTAGTCAAAAGT
Found at i:126896866 original size:6 final size:6
Alignment explanation
Indices: 126896848--126896904 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
126896838 ACCATCACCA
* * * *
126896848 TCATCT TCTTTT TCATTT TCATCT TCATCT CCATCT TCATCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
126896896 TCATCT TCA
1 TCATCT TCA
126896905 ACATCATCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.53
Consensus pattern (6 bp):
TCATCT
Found at i:126896911 original size:18 final size:18
Alignment explanation
Indices: 126896872--126896912 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
126896862 ATTTTCATCT
* *
126896872 TCATCTCCATCTTCATCT
1 TCATCTCCATCTTCAACA
*
126896890 TCATCTTCATCTTCAACA
1 TCATCTCCATCTTCAACA
126896908 TCATC
1 TCATC
126896913 CTCTCCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (18 bp):
TCATCTCCATCTTCAACA
Found at i:126898126 original size:130 final size:130
Alignment explanation
Indices: 126897987--126898228 Score: 387
Period size: 130 Copynumber: 1.9 Consensus size: 130
126897977 GCTTCACATC
* * * *
126897987 TTTTTCCTTCAATTTTGGGTCCCGGCTTCTCACCTACATGAAAACATTGAAATTTCATGACAAAA
1 TTTTTCCTTCAATTTTGGATCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAAA
*
126898052 A-ATCACTAATAAATTGACAAAAATTTCAATTTTCACACCAATTAGCAAAAAAAAAAAAAAACAC
66 ATATCACTAATAAATTAACAAAAATTTCAATTTTCACA-CAATTAGCAAAAAAAAAAAAAAACAC
126898116 T
130 T
* * *
126898117 TTTTTCCTTCAATTTTGGATCACTGCTTCTCGCCTACATGAAAACATTGAAATCTCAAGATAAAA
1 TTTTTCCTTCAATTTTGGATCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAAA
*
126898182 ATATCACTAATAAATTAACAAAAATTTCAATTTTCACACAGTTAGCA
66 ATATCACTAATAAATTAACAAAAATTTCAATTTTCACACAATTAGCA
126898229 GAACAACAAC
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
130 67 0.66
131 35 0.34
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (130 bp):
TTTTTCCTTCAATTTTGGATCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAAA
ATATCACTAATAAATTAACAAAAATTTCAATTTTCACACAATTAGCAAAAAAAAAAAAAAACACT
Found at i:126899544 original size:6 final size:6
Alignment explanation
Indices: 126899533--126899567 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
126899523 GGTATGCCAC
*
126899533 TTTCTT TTTCTT TTTCTT TCTCTT TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
126899568 AATTTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:126905200 original size:22 final size:22
Alignment explanation
Indices: 126905174--126905217 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
126905164 ATTATTTCAT
126905174 GCATTTGTAATATTTGTATATA
1 GCATTTGTAATATTTGTATATA
126905196 GCATTTGTAATATTTGTATATA
1 GCATTTGTAATATTTGTATATA
126905218 TAAGTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (22 bp):
GCATTTGTAATATTTGTATATA
Found at i:126910822 original size:2 final size:2
Alignment explanation
Indices: 126910815--126910840 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
126910805 ACAATACATC
126910815 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
126910841 TACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126911703 original size:44 final size:43
Alignment explanation
Indices: 126911624--126911716 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
126911614 TAGGATTCAT
** *
126911624 TTATTCCATGTTATCATTTTTTATAAAATATTTATTCAACATTA
1 TTATTCCATGTTAGAATTATTTATAAAATATTTATTCAACA-TA
* *
126911668 TTATTCCATGTTAAGAATTATTTATTAAAA-A-TTATTTAATATA
1 TTATTCCATGTT-AGAATTATTTA-TAAAATATTTATTCAACATA
126911711 TTATTC
1 TTATTC
126911717 ATAAAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 8 0.19
44 20 0.48
45 9 0.21
46 5 0.12
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.52
Consensus pattern (43 bp):
TTATTCCATGTTAGAATTATTTATAAAATATTTATTCAACATA
Found at i:126913128 original size:15 final size:16
Alignment explanation
Indices: 126913103--126913138 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
126913093 AAGTGAAGAA
126913103 TATTATTAAAAATTAT
1 TATTATTAAAAATTAT
*
126913119 TATT-TTAAAATTTAT
1 TATTATTAAAAATTAT
126913134 TATTA
1 TATTA
126913139 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTAAAAATTAT
Found at i:126913142 original size:13 final size:13
Alignment explanation
Indices: 126913103--126913142 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
126913093 AAGTGAAGAA
*
126913103 TATTATTAAAAAT
1 TATTATTAAAATT
126913116 TATTATTTTAAAATT
1 TATTA--TTAAAATT
126913131 TATTATTAAAAT
1 TATTATTAAAAT
126913143 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTATTAAAATT
Found at i:126915899 original size:71 final size:71
Alignment explanation
Indices: 126915765--126915908 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
126915755 GATTATGGAT
* * * *
126915765 AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGTTAAAAGAGTGCTGATAGAGCATAAAGTTAGTA
1 AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGCTAAAAGAGTGCTGACAAAGCATAAACTTAGTA
126915830 TTATTG
66 TTATTG
* * * * * *
126915836 AATGGTGGAGAAAAGAATGTAAAGGCTAAGGGCTAAAAGAGTGTTGGCAAAGTATAGACTTAGTA
1 AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGCTAAAAGAGTGCTGACAAAGCATAAACTTAGTA
*
126915901 TTTTTG
66 TTATTG
126915907 AA
1 AA
126915909 GGATTGATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (71 bp):
AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGCTAAAAGAGTGCTGACAAAGCATAAACTTAGTA
TTATTG
Found at i:126921454 original size:2 final size:2
Alignment explanation
Indices: 126921447--126921479 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
126921437 AAGTTTTACT
126921447 TA TA TA TA 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 TA TA TA TA T
126921480 GAATTAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:126928929 original size:39 final size:39
Alignment explanation
Indices: 126928886--126928963 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
126928876 GGATCCATAA
*
126928886 ACTATTCATAATTGCATGTTTGAAGTTGAAACAATAGCC
1 ACTATTCATAATTGCATGTTTGAAGTTGAAAAAATAGCC
126928925 ACTATTCATAATTGCATGTTTGAAGTTGAAAAAATAGCC
1 ACTATTCATAATTGCATGTTTGAAGTTGAAAAAATAGCC
126928964 TTTTGCCACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (39 bp):
ACTATTCATAATTGCATGTTTGAAGTTGAAAAAATAGCC
Found at i:126931880 original size:32 final size:32
Alignment explanation
Indices: 126931844--126931908 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
126931834 TAAGCTCAGA
126931844 ATTCATTAAAAATAACCATTGGATGTTACAGG
1 ATTCATTAAAAATAACCATTGGATGTTACAGG
126931876 ATTCATTAAAAATAACCATTGGATGTTACAGG
1 ATTCATTAAAAATAACCATTGGATGTTACAGG
126931908 A
1 A
126931909 GAGATGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (32 bp):
ATTCATTAAAAATAACCATTGGATGTTACAGG
Found at i:126933437 original size:3 final size:3
Alignment explanation
Indices: 126933429--126933479 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
126933419 GATCATATTT
*
126933429 ATA ATA ATA ATA ATA ACA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
126933476 ATA A
1 ATA A
126933480 AAGAAGAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:126935880 original size:11 final size:11
Alignment explanation
Indices: 126935859--126935912 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
126935849 GATTAGTTCG
126935859 ATTTAATTAAAA
1 ATTT-ATTAAAA
126935871 ATTTATTAAAA
1 ATTTATTAAAA
*
126935882 ATTCA-TAAAA
1 ATTTATTAAAA
* *
126935892 ATTAAATAAAA
1 ATTTATTAAAA
126935903 A-TTATTAAAA
1 ATTTATTAAAA
126935913 TAGAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 16 0.43
11 17 0.46
12 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTTATTAAAA
Done.