Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 104 of 163
Found at i:33647183 original size:87 final size:86
Alignment explanation
Indices: 33647082--33647248 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 86
33647072 AATAGCAGGG
* * * * *
33647082 GCTTAATTGCTTTTTTAA-ACATTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
1 GCTTAATTGCTTTTTGAAGA-AGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTCAAGTACCCA
33647146 ATCGAGTGAA-AAAAAGTATGA
65 ATCGAGTGAAGAAAAAGTATGA
*
33647167 GCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTCAAGTACTC
1 GCTTAATTGC--TTTTTGAAGAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTCAAGTACCC
*
33647232 AATTGAGTGAAGAAAAA
64 AATCGAGTGAAGAAAAA
33647249 AAAAAGAAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 10 0.14
87 55 0.77
88 6 0.08
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (86 bp):
GCTTAATTGCTTTTTGAAGAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTCAAGTACCCAA
TCGAGTGAAGAAAAAGTATGA
Found at i:33647541 original size:31 final size:31
Alignment explanation
Indices: 33647506--33647573 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
33647496 AAAAATATTC
*
33647506 ATTTAAGTTATTGAACTATTCAAAAGTTTTG
1 ATTTAAGTCATTGAACTATTCAAAAGTTTTG
* ** *
33647537 ATTTAAGTCATTGAATTATTTGAAAGTTTTT
1 ATTTAAGTCATTGAACTATTCAAAAGTTTTG
33647568 ATTTAA
1 ATTTAA
33647574 ATCACTAGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTTAAGTCATTGAACTATTCAAAAGTTTTG
Found at i:33656147 original size:18 final size:19
Alignment explanation
Indices: 33656124--33656162 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33656114 TAAAAGTGTG
33656124 ATTATGAT-TATTTTCAAT
1 ATTATGATATATTTTCAAT
* *
33656142 ATTATGTTATATTTTGAAT
1 ATTATGATATATTTTCAAT
33656161 AT
1 AT
33656163 CATTTATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTATGATATATTTTCAAT
Found at i:33668590 original size:25 final size:22
Alignment explanation
Indices: 33668546--33668595 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 22
33668536 TATGATAATT
*
33668546 ATTTTAATAAATATATATTACA
1 ATTTTAATAAATATATATTAAA
33668568 ATTTTAATAAATAATTATAATTAAA
1 ATTTTAATAAAT-A-TAT-ATTAAA
33668593 ATT
1 ATT
33668596 AAAAAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
23 1 0.04
24 3 0.12
25 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTTAATAAATATATATTAAA
Found at i:33671681 original size:26 final size:26
Alignment explanation
Indices: 33671656--33671703 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33671646 TTAGTCTTTC
*
33671656 TCTCTTT-CTTTCT-TTTCTTTTTTT
1 TCTCTTTCCTTTATCTTTCTTTTTTT
33671680 TCTCTTTCCTTTATCTTTCTTTTT
1 TCTCTTTCCTTTATCTTTCTTTTT
33671704 CCACCTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (26 bp):
TCTCTTTCCTTTATCTTTCTTTTTTT
Found at i:33676845 original size:2 final size:2
Alignment explanation
Indices: 33676838--33676862 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33676828 ATGATAATAC
33676838 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
33676863 GAAAACATGA
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:33677560 original size:24 final size:24
Alignment explanation
Indices: 33677523--33677583 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
33677513 TCCGGGCTGT
*
33677523 ATAACGAGAAGCTCAT-AAGAGCC-
1 ATAACGGGAAGCTCATGAA-AGCCA
33677546 ATAATCGGGAAGCTCATGAAAGCCA
1 ATAA-CGGGAAGCTCATGAAAGCCA
*
33677571 ATAACGGGTAGCT
1 ATAACGGGAAGCT
33677584 TCGAAGAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 4 0.12
24 23 0.70
25 6 0.18
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (24 bp):
ATAACGGGAAGCTCATGAAAGCCA
Found at i:33677792 original size:24 final size:24
Alignment explanation
Indices: 33677765--33677835 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
33677755 GGATGCTCCG
33677765 AAGAGCTATTAACGGGAAGCTCAC
1 AAGAGCTATTAACGGGAAGCTCAC
* * **
33677789 AAGAGCTATCAACGGGAAACTCGT
1 AAGAGCTATTAACGGGAAGCTCAC
* *
33677813 AAGAACAATATAACGGGAAGCTC
1 AAGAGCTAT-TAACGGGAAGCTC
33677836 GAGAGGGCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 27 0.71
25 11 0.29
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTCAC
Found at i:33678204 original size:21 final size:21
Alignment explanation
Indices: 33678180--33678222 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
33678170 TAAATTTAAC
*
33678180 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
33678201 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
33678222 T
1 T
33678223 TTAGGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:33684160 original size:21 final size:20
Alignment explanation
Indices: 33684129--33684167 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33684119 AATAAAATAT
33684129 TTTTAAAATAATTATTTTTATA
1 TTTTAAAATAA--ATTTTTATA
33684151 TTTT-AAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
33684168 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAATAAATTTTTATA
Found at i:33687676 original size:28 final size:26
Alignment explanation
Indices: 33687644--33687702 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
33687634 TTTAAATTGA
*
33687644 ATTTTTATTATTTATTTGTACAAAA-AAT
1 ATTTTTATTA-TAATTT-TA-AAAATAAT
*
33687672 ATTTTTTTTATAATTTTAAAAATAAT
1 ATTTTTATTATAATTTTAAAAATAAT
33687698 ATTTT
1 ATTTT
33687703 ACCAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 10 0.36
27 5 0.18
28 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTTTTATTATAATTTTAAAAATAAT
Found at i:33690805 original size:43 final size:43
Alignment explanation
Indices: 33690744--33690829 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
33690734 ACCAAAAAAG
*
33690744 TGTAAAACTTCAACTGGTAAAAGAAGAATATCATCTATTTGAC
1 TGTAAAACTTCAACTGGTAAAAGAAGAATATCATCTATCTGAC
33690787 TGTAAAACTTCAACTGGTAAAAGAAGAATATCATCTATCTGAC
1 TGTAAAACTTCAACTGGTAAAAGAAGAATATCATCTATCTGAC
33690830 ACAGGCAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (43 bp):
TGTAAAACTTCAACTGGTAAAAGAAGAATATCATCTATCTGAC
Found at i:33694205 original size:2 final size:2
Alignment explanation
Indices: 33694198--33694233 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33694188 ACCTCTGCTA
33694198 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33694234 AACAGTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:33694469 original size:18 final size:19
Alignment explanation
Indices: 33694446--33694483 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
33694436 CGAATTTGGA
*
33694446 AAAAATGGTTAG-ATTTTT
1 AAAAATAGTTAGAATTTTT
*
33694464 AAAAATATTTAGAATTTTT
1 AAAAATAGTTAGAATTTTT
33694483 A
1 A
33694484 GCTGATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAAATAGTTAGAATTTTT
Found at i:33698204 original size:104 final size:104
Alignment explanation
Indices: 33698024--33698219 Score: 295
Period size: 104 Copynumber: 1.9 Consensus size: 104
33698014 TATCGATACC
* * *
33698024 GTATCGATACTTCGTAGGGTTTGAGAAAAACAAAATGCTATTTTGGTATTGCTTTTAAGATAGGG
1 GTATCGATACTTAGTAGGGTTTGAGAAAAACAAAATGCTATTTTGGTATCGCTTTTAAGAGAGGG
*
33698089 TATTGATAATTCAAAAAATATCGATACTTGACCAAAAAG
66 TATCGATAATTCAAAAAATATCGATACTTGACCAAAAAG
* * * *
33698128 GTATCGATACTTAGTAGGGTTTGTGAAAAATAGAATGC-ATTTTTGGTATCGCTTTTAAGAGGGG
1 GTATCGATACTTAGTAGGGTTTGAGAAAAACAAAATGCTA-TTTTGGTATCGCTTTTAAGAGAGG
*
33698192 GTATCGATAATTCAAAAAATATTGATAC
65 GTATCGATAATTCAAAAAATATCGATAC
33698220 CTTTTTGGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 1 0.01
104 81 0.99
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (104 bp):
GTATCGATACTTAGTAGGGTTTGAGAAAAACAAAATGCTATTTTGGTATCGCTTTTAAGAGAGGG
TATCGATAATTCAAAAAATATCGATACTTGACCAAAAAG
Found at i:33698436 original size:22 final size:24
Alignment explanation
Indices: 33698411--33698454 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
33698401 ATTTTGTTCA
*
33698411 ATTTTAACTT-TTAT-TCAAAAAC
1 ATTTCAACTTGTTATATCAAAAAC
*
33698433 ATTTCAATTTGTTATATCAAAA
1 ATTTCAACTTGTTATATCAAAA
33698455 TATTTTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 4 0.22
24 6 0.33
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTCAACTTGTTATATCAAAAAC
Found at i:33701006 original size:63 final size:63
Alignment explanation
Indices: 33700934--33701070 Score: 157
Period size: 63 Copynumber: 2.2 Consensus size: 63
33700924 TATATCCCTA
* * * * * * * * *
33700934 AATGTGTTGATGTAGGGAATGATTGCGCGTGTTGTGGTGGTTGTGTAAAATAAACTAGTGTTG
1 AATGTGTTGATGTAAGAAATGATTGCGCATGCTATGGTGCTTGGGTAAAATAAACCAGAGTTG
* *
33700997 AATGTGTTGATTTAAGAAATGATTGTGCATGCTATGGTGCTTGGGTAAAATAAACCAGAGTTG
1 AATGTGTTGATGTAAGAAATGATTGCGCATGCTATGGTGCTTGGGTAAAATAAACCAGAGTTG
* *
33701060 AAGGTTTTGAT
1 AATGTGTTGAT
33701071 ACGGGGAATG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.36
Consensus pattern (63 bp):
AATGTGTTGATGTAAGAAATGATTGCGCATGCTATGGTGCTTGGGTAAAATAAACCAGAGTTG
Found at i:33702885 original size:14 final size:14
Alignment explanation
Indices: 33702866--33702892 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33702856 TTAAAAATAT
33702866 AATTGAGGATTGAA
1 AATTGAGGATTGAA
33702880 AATTGAGGATTGA
1 AATTGAGGATTGA
33702893 GAATATAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
AATTGAGGATTGAA
Found at i:33704287 original size:22 final size:20
Alignment explanation
Indices: 33704259--33704304 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
33704249 CTAAAGTTAT
*
33704259 AAAATTTTTTGAAAAATATATA
1 AAAATTTATT-AAAAATA-ATA
33704281 AAAATTTATTAAAAATAATA
1 AAAATTTATTAAAAATAATA
33704301 AAAA
1 AAAA
33704305 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATTTATTAAAAATAATA
Found at i:33704304 original size:21 final size:20
Alignment explanation
Indices: 33704225--33704314 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
33704215 AAATTTTGTT
* *
33704225 AATTTTTTAAAAT-TTTAAA
1 AATTTTTAAAAATATATAAA
* *
33704244 AATTTCT-AAAGT-TATAAA
1 AATTTTTAAAAATATATAAA
*
33704262 ATTTTTTGAAAAATATATAAA
1 AATTTTT-AAAAATATATAAA
33704283 AATTTATTAAAAATA-ATAAAA
1 AATTT-TTAAAAATATAT-AAA
*
33704304 AATATTTAAAA
1 AATTTTTAAAA
33704315 TACTTAAACT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
18 14 0.24
19 6 0.10
20 12 0.21
21 24 0.41
22 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTTTAAAAATATATAAA
Found at i:33704305 original size:22 final size:22
Alignment explanation
Indices: 33704259--33704311 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
33704249 CTAAAGTTAT
* *
33704259 AAAATTTTTTGAAAAATATATA
1 AAAATTTATTGAAAAATATAAA
33704281 AAAATTTATT-AAAAATAATAAA
1 AAAATTTATTGAAAAAT-ATAAA
33704303 AAATATTTA
1 AAA-ATTTA
33704312 AAATACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 16 0.59
23 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTTATTGAAAAATATAAA
Found at i:33704312 original size:20 final size:21
Alignment explanation
Indices: 33704270--33704316 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
33704260 AAATTTTTTG
*
33704270 AAAAATATATAAAAATTTATT
1 AAAAATATATAAAAATATATT
33704291 AAAAATA-ATAAAAA-ATATT
1 AAAAATATATAAAAATATATT
*
33704310 TAAAATA
1 AAAAATA
33704317 CTTAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATATAAAAATATATT
Found at i:33704422 original size:46 final size:47
Alignment explanation
Indices: 33704372--33704460 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
33704362 CAAGTTATAA
*
33704372 AAAAATATTAAATA-TATTAAAAATAATAT-AAAATTGCAAAAATGTT
1 AAAAATA-TAAAAACTATTAAAAATAATATAAAAATTGCAAAAATGTT
** *
33704418 AAAAATATAAAAACTATTAAATTTATTATAAAAATTGCAAAAA
1 AAAAATATAAAAACTATTAAAAATAATATAAAAATTGCAAAAA
33704461 ATTATATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 5 0.14
46 19 0.51
47 13 0.35
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (47 bp):
AAAAATATAAAAACTATTAAAAATAATATAAAAATTGCAAAAATGTT
Found at i:33707073 original size:21 final size:22
Alignment explanation
Indices: 33707039--33707092 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
33707029 ATATGTGGAT
*
33707039 TATAAAAATA-ACATAAAATAA
1 TATATAAATATACATAAAATAA
***
33707060 TATAT-AATATACATATTTTAA
1 TATATAAATATACATAAAATAA
33707081 TATATAAATATA
1 TATATAAATATA
33707093 TATATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 17 0.63
22 6 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATAAATATACATAAAATAA
Found at i:33707273 original size:3 final size:3
Alignment explanation
Indices: 33707258--33707349 Score: 107
Period size: 3 Copynumber: 30.7 Consensus size: 3
33707248 AAAACCTAAC
* * * *
33707258 AAT AAT AAC AAT AAT ATT AAT GAAT -AT AAA AAT AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
*
33707302 AGAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33707348 AA
1 AA
33707350 AATTGACAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
2 3 0.04
3 69 0.91
4 4 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:33710336 original size:21 final size:20
Alignment explanation
Indices: 33710310--33710368 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
33710300 TTTCGTGTTT
33710310 AGTTTCCGTTTAGCTCTCACG
1 AGTTTCCGTTTAGCTCT-ACG
* * *
33710331 AGTTTCTGTTTAACTCATATG
1 AGTTTCCGTTTAGCTC-TACG
*
33710352 AGTTTCCGTTCAGCTCT
1 AGTTTCCGTTTAGCTCT
33710369 TTTAAGCTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (20 bp):
AGTTTCCGTTTAGCTCTACG
Found at i:33710419 original size:42 final size:42
Alignment explanation
Indices: 33710311--33710440 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
33710301 TTCGTGTTTA
* * * * * * *
33710311 GTTTCCGTTTAGCTCTCACGAGTTTCTGTTTAACTCATATGA
1 GTTTCCGCTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGG
* ***
33710353 GTTTCCGTTCAGCTCTTTTAAGCTTCTGTTTAACCCTTATGG
1 GTTTCCGCTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGG
* *
33710395 GTTTCTGCTCAGCTCTTACGAGCTT-TCGTTCAACCCTTATGG
1 GTTTCCGCTCAGCTCTTACGAGCTTCT-GTTTAACCCTTATGG
33710437 GTTT
1 GTTT
33710441 TTTTAGCTCT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 71 0.99
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (42 bp):
GTTTCCGCTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGG
Found at i:33710460 original size:40 final size:42
Alignment explanation
Indices: 33710384--33710466 Score: 107
Period size: 40 Copynumber: 2.0 Consensus size: 42
33710374 GCTTCTGTTT
*
33710384 AACCCTTATGGGTTTCTGCTCAGCTCTTACGAGCTTTCGTTC
1 AACCCTTATGGGTTTCTGCTCAGCTCTCACGAGCTTTCGTTC
* * * *
33710426 AACCCTTATGGGTTT-T-TTTAGCTCTCATGAGCTTTTGTTC
1 AACCCTTATGGGTTTCTGCTCAGCTCTCACGAGCTTTCGTTC
33710466 A
1 A
33710467 GCTTTCGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 20 0.56
41 1 0.03
42 15 0.42
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
AACCCTTATGGGTTTCTGCTCAGCTCTCACGAGCTTTCGTTC
Found at i:33711291 original size:17 final size:17
Alignment explanation
Indices: 33711269--33711302 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33711259 TTTGATCTGG
33711269 AAATGATATGAAATGTT
1 AAATGATATGAAATGTT
33711286 AAATGATATGAAATGTT
1 AAATGATATGAAATGTT
33711303 CGTATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
AAATGATATGAAATGTT
Found at i:33713417 original size:22 final size:23
Alignment explanation
Indices: 33713391--33713438 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
33713381 AATACTTTTC
33713391 AATTTTTATATATTT-AG-AATTT
1 AATTTTTATAT-TTTAAGAAATTT
*
33713413 AATTTTTTTATTTTAAGAAATTT
1 AATTTTTATATTTTAAGAAATTT
33713436 AAT
1 AAT
33713439 CTCTTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 3 0.13
22 12 0.52
23 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
AATTTTTATATTTTAAGAAATTT
Found at i:33714845 original size:16 final size:17
Alignment explanation
Indices: 33714818--33714849 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33714808 TTTATTCCAA
33714818 AATAAGTTTTATATATC
1 AATAAGTTTTATATATC
33714835 AATAA-TTTTATATAT
1 AATAAGTTTTATATAT
33714850 GCATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
AATAAGTTTTATATATC
Found at i:33714961 original size:13 final size:13
Alignment explanation
Indices: 33714943--33714967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33714933 AATATCTCTT
33714943 TTTTTTAAATATA
1 TTTTTTAAATATA
33714956 TTTTTTAAATAT
1 TTTTTTAAATAT
33714968 TTTACTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTAAATATA
Found at i:33715847 original size:25 final size:24
Alignment explanation
Indices: 33715790--33715847 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
33715780 TAATTATGAA
*
33715790 TTGTTATATGGAATAATTTTATTGT
1 TTGTT-TATGGAATAATTTTATTGC
* *
33715815 TTAATTTATGGAATAATTTGTTTTGC
1 TT-GTTTATGGAATAATTT-TATTGC
33715841 TTGTTTA
1 TTGTTTA
33715848 ATTTTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.57
Consensus pattern (24 bp):
TTGTTTATGGAATAATTTTATTGC
Found at i:33716374 original size:24 final size:24
Alignment explanation
Indices: 33716347--33716412 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
33716337 AAATTTTATT
33716347 TTTATGTATATTTTA-TATTTAAAA
1 TTTAT-TATATTTTATTATTTAAAA
* *
33716371 TTTACTTA-ATTTTATTATTTGATA
1 TTTA-TTATATTTTATTATTTAAAA
*
33716395 TTTATAAATATTTT-TTAT
1 TTTAT-TATATTTTATTAT
33716413 ATGCATACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 7 0.20
24 22 0.63
25 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTATTATATTTTATTATTTAAAA
Found at i:33719586 original size:20 final size:22
Alignment explanation
Indices: 33719561--33719600 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
33719551 ATAGTAATTA
33719561 TTGATATGA-AAAAT-AAAAAT
1 TTGATATGATAAAATGAAAAAT
33719581 TTGATATGATAAAATGAAAA
1 TTGATATGATAAAATGAAAA
33719601 CTTTCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (22 bp):
TTGATATGATAAAATGAAAAAT
Found at i:33729594 original size:14 final size:15
Alignment explanation
Indices: 33729566--33729598 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
33729556 AAGGTTTATA
33729566 GATTATGGAATTAGG
1 GATTATGGAATTAGG
33729581 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
33729595 GATT
1 GATT
33729599 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:33729719 original size:13 final size:13
Alignment explanation
Indices: 33729694--33729731 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
33729684 TATTAAATAA
33729694 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
33729708 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
33729721 GGTTTAGGGTT
1 GGTTTAGGGTT
33729732 TAGATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:33729727 original size:74 final size:75
Alignment explanation
Indices: 33729644--33729782 Score: 228
Period size: 74 Copynumber: 1.9 Consensus size: 75
33729634 GGTGTCAAGC
* *
33729644 TAGGATTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TT-TATATTAAATAAGGTTTAGGGGTTA
1 TAGGATTTAGGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAGATATAGGGGTTA
33729707 GGGATTTGGGT
65 GGGATTTGGGT
*
33729718 TAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAGATATAGGGGTTAG
1 TAGGATTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAGATATAGGGGTTAG
33729783 TAGTTAGGGG
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
73 6 0.10
74 30 0.50
75 24 0.40
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (75 bp):
TAGGATTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAGATATAGGGGTTAG
GGATTTGGGT
Found at i:33729795 original size:7 final size:7
Alignment explanation
Indices: 33729773--33729837 Score: 67
Period size: 7 Copynumber: 9.3 Consensus size: 7
33729763 AAATAAGATA
33729773 TAGGGGT
1 TAGGGGT
**
33729780 TAGTAGT
1 TAGGGGT
33729787 TAGGGGT
1 TAGGGGT
*
33729794 TAAGGGT
1 TAGGGGT
*
33729801 TTGGGGT
1 TAGGGGT
33729808 TAGGGGT
1 TAGGGGT
* *
33729815 TTGTGGT
1 TAGGGGT
33729822 TAGGGGT
1 TAGGGGT
*
33729829 TAGAGGT
1 TAGGGGT
33729836 TA
1 TA
33729838 AATGTTAAGA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.35
Consensus pattern (7 bp):
TAGGGGT
Found at i:33729801 original size:21 final size:21
Alignment explanation
Indices: 33729776--33729852 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
33729766 TAAGATATAG
*
33729776 GGGTTAGTAGTTAGGGGTTAA
1 GGGTTAGGAGTTAGGGGTTAA
* * *
33729797 GGGTTTGGGGTTAGGGGTT-T
1 GGGTTAGGAGTTAGGGGTTAA
* *
33729817 GTGGTTAGGGGTTAGAGGTTAA
1 G-GGTTAGGAGTTAGGGGTTAA
** *
33729839 ATGTTAAGAGTTAG
1 GGGTTAGGAGTTAG
33729853 TGATTTAAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.02
21 42 0.98
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (21 bp):
GGGTTAGGAGTTAGGGGTTAA
Found at i:33732214 original size:40 final size:41
Alignment explanation
Indices: 33732129--33732270 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 41
33732119 GTCGGTAAAT
* * * *
33732129 ATATGAACTA-TG-AATAATTGATTTTTGCTAATTTGTTTC
1 ATATAAACTATTGAAATGATTGATTTTTGCTAATTTCTTAC
* * * *
33732168 ACATAAACTGTTGTAA-GATTGATTTTTGCTAATTTCTTGC
1 ATATAAACTATTGAAATGATTGATTTTTGCTAATTTCTTAC
* * *
33732208 ATATAAATTATTGAAATG-TTGATTTTTGATAATTCCTTAC
1 ATATAAACTATTGAAATGATTGATTTTTGCTAATTTCTTAC
*
33732248 ATATTAAA-TATTGAAGTG-TTGAT
1 ATA-TAAACTATTGAAATGATTGAT
33732271 ATTCAAGCTA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 7 0.08
40 71 0.84
41 7 0.08
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.46
Consensus pattern (41 bp):
ATATAAACTATTGAAATGATTGATTTTTGCTAATTTCTTAC
Found at i:33733489 original size:43 final size:43
Alignment explanation
Indices: 33733420--33733695 Score: 376
Period size: 43 Copynumber: 6.5 Consensus size: 43
33733410 GAGAAGCGTT
* **
33733420 GCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGGAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
*
33733462 GCTAAAGGTCTTGATCTATAGCGGCGTTTATGGAAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* *
33733505 GCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGAAAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * *
33733548 GCTAAAGGTCTTGATCTATAGCGGTGTTTGT-GCAAAAGCGTC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* *
33733590 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAATCACC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * * *
33733633 GCTAAAGGTCCTGATTTATAGCGGCGTTTGTGGGAAAAGCGCT
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * *
33733676 GCAAAAGGTCATGGTCTATA
1 GCTAAAGGTCTTGATCTATA
33733696 ACAACGTTTA
Statistics
Matches: 205, Mismatches: 27, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
42 47 0.23
43 158 0.77
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
Found at i:33733627 original size:85 final size:86
Alignment explanation
Indices: 33733413--33733695 Score: 374
Period size: 85 Copynumber: 3.3 Consensus size: 86
33733403 TTTTTGCGAG
* * **
33733413 AAGCGTTGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCTTGAT
1 AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
*
33733477 CTATAGCGGCGTTTATGGAAA
66 CTATAGCGGCGTTTGTGGAAA
* * *
33733498 AAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCTTGAT
1 AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
* *
33733563 CTATAGCGGTGTTTGT-GCAA
66 CTATAGCGGCGTTTGTGGAAA
* * *
33733583 AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAATCACCGCTAAAGGTCCTGAT
1 AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
* *
33733648 TTATAGCGGCGTTTGTGGGAA
66 CTATAGCGGCGTTTGTGGAAA
* * *
33733669 AAGCG-CTGCAAAAGGTCATGGTCTATA
1 AAGCGTC-GCTAAAGGTCTTGATCTATA
33733696 ACAACGTTTA
Statistics
Matches: 173, Mismatches: 22, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
85 91 0.53
86 82 0.47
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (86 bp):
AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
CTATAGCGGCGTTTGTGGAAA
Found at i:33733627 original size:128 final size:129
Alignment explanation
Indices: 33733420--33733695 Score: 385
Period size: 128 Copynumber: 2.2 Consensus size: 129
33733410 GAGAAGCGTT
* **
33733420 GCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* *
33733484 GGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGAAAAAAGCGCC
66 GGCGTTTATGGAAAAAGCACCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGAAAAAAGCGCC
* *
33733548 GCTAAAGGTCTTGATCTATAGCGGTGTTTGT-GCAAAAGCGTCGCTAAAGGTCTTGATCTATAGC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * ** ** *
33733612 GGCGTTTGTGGAAAAATCACCGCTAAAGGTCCTGATTTATAGCGGCGTTTGTGGGAAAAGCGCT
66 GGCGTTTATGGAAAAAGCACCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGAAAAAAGCGCC
* * *
33733676 GCAAAAGGTCATGGTCTATA
1 GCTAAAGGTCTTGATCTATA
33733696 ACAACGTTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
128 111 0.85
129 19 0.15
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (129 bp):
GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
GGCGTTTATGGAAAAAGCACCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGAAAAAAGCGCC
Found at i:33738395 original size:773 final size:772
Alignment explanation
Indices: 33736935--33740031 Score: 4876
Period size: 773 Copynumber: 4.0 Consensus size: 772
33736925 TTTTAGCCTC
** *
33736935 ATTCTTGGCATAAATGTTACCAATCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
1 ATTCTTGGCATAAATGTTGTCAGTCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
* * *
33737000 TTGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTAGTGGTCATATGACCATATCGGG
66 TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTGGTGGTCATATGACCATATCGAG
* * *
33737065 ATCCGTCATCAAAACTTTAAGCTCATTACCATGGCTCCATGGTACCCAACCACTCAAGAAAAAAA
131 ATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTA-AAAAAAG
* * *
33737130 AGTATTCGTTTTACTGTGGATATCAACCACAAGCCTGGTTAGCCTTTGCTTGAAACAGTGTTGTT
195 AGTATTCGTTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTT
* * * *
33737195 CCAGCTCGTACGCTGTGTATGTATTTCGAAAAGACAAGCTACCTTTTCGAATTAAATTATGAAAG
260 CCAGCTCGTACGCTGCGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAATTTATGGAAG
* *
33737260 TATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTATTTGCCCTA
325 TATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTGTTTGCGCTA
* ** * * *
33737325 GTCTGCATTCATGTAGTCTCGGTAGAAGTTGGTAACAGTGTGGTGGATACAGTAAATAGATTTTC
390 GTCTGCATTCATGTAGTCTCAGTAGAAGTTGGCGACAATATGGCGGATACAGTAAATAGATTTTC
* * *
33737390 GTGGAACACCAGAACGCCTAATCGTGACAATTAGTCTTCTACCTATCAAATATGATGCAAATATT
455 ATGGAACACCGGAACGCCTAATCGCGACAATTAGTCTTCTACCTATCAAATATGATGCAAATA-T
* * * *
33737455 GTCTTCTCTAACAACATACGT-CTGCAAGTTCGTCAGGAAGAATTCTGGTGATTTCATATTCTCT
519 GTCTTCTCTAACAACATACGTCCT-CAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCC
* * *
33737519 AACTCCACAATGGCAACCACTATCGATAGTAAGTTATGGTTCCCGTCTTGTGCAACCACAATAAG
583 AACTCCACAATGGCAAACACTATCGATAGCAAGTTCTGGTTCCCGTCTTGTGCAACCACAATAAG
33737584 AAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAGG
648 AAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAGG
*
33737649 GAAAGACCTACATGCATAGATCGAATGTCCAGGACATTTGGTGAAAAATTCTTCTTCCCA
713 GAAAGACCCACATGCATAGATCGAATGTCCAGGACATTTGGTGAAAAATTCTTCTTCCCA
* *
33737709 ATTCTTGGCATAAATGTTGTTAGTCTGTAAAATATAGTTGAGAAAATAAATAAAATTAGAAAATG
1 ATTCTTGGCATAAATGTTGTCAGTCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
* *
33737774 TCGTGTTCGCTTCAAGACAAAGTTAATAACATTTGTTAGGTTGGTGGTCATATGACCATATCGAG
66 TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTGGTGGTCATATGACCATATCGAG
* *
33737839 ATCTGTCATCAAAACTTTGAGCTCATTACCATGGCTCCTTGGTACCCAACCACTCTAAAAAAAGA
131 ATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTAAAAAAAGA
*
33737904 GTATTCATTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTTC
196 GTATTCGTTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTTC
*
33737969 CAGCTCGTACGCTGCGTATGTATTTCAAAAAGACATGCTACCTTTTCGAATTAATTTATGGAAGT
261 CAGCTCGTACGCTGCGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAATTTATGGAAGT
* *
33738034 ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTTTTTGCGCTAT
326 ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTGTTTGCGCTAG
* * * *
33738099 TCTGCATTCTTGTAGTCTCAGTGGAAGTTGGCGACAATGTGGCGGATACAGTAAACAGATTTTCA
391 TCTGCATTCATGTAGTCTCAGTAGAAGTTGGCGACAATATGGCGGATACAGTAAATAGATTTTCA
* * * * *
33738164 TGAAACATCGGATCTCCTAATCGCGACAATTAGTCTCTTCTACCTATCGAATATGATGCAAATA-
456 TGGAACACCGGAACGCCTAATCGCGACAATTAG--TCTTCTACCTATCAAATATGATGCAAATAT
*
33738228 ATCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCCA
519 GTCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCCA
* * *
33738293 ACTCCACAATGGCAAACACTATCGGTAGCAAGTTCTGGTAT-TCGTCTTGTGCAACCATAATAAG
584 ACTCCACAATGGCAAACACTATCGATAGCAAGTTCTGGT-TCCCGTCTTGTGCAACCACAATAAG
* * *
33738357 AAGTATCTGAGTATATTTTTCGTATAATCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAGG
648 AAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAGG
* *
33738422 GAAAGACCCACATGCATAGATCGAATATCCAGGACATTTGGTGAAAAATTCTTCTTTCCA
713 GAAAGACCCACATGCATAGATCGAATGTCCAGGACATTTGGTGAAAAATTCTTCTTCCCA
* * * * *
33738482 ATTCTTGGTATAAATGTT-TGCGGTCTGTAAAATATAGTTGAGAAAATAAATAAAATTAAAAAAC
1 ATTCTTGGCATAAATGTTGT-CAGTCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAAT
* * *
33738546 ATCGTGTTTGCTTTAAGACAAAGTTAATATCATTTGTCAGGTTGGTGGTCATATGACCATATCGA
65 GTCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTGGTGGTCATATGACCATATCGA
* *
33738611 GATCCGTCATCAAAACTTTGAGTTCATTACCATGGCTTCATGGTACCCAACCACTCTAAAAAAAG
130 GATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTAAAAAAAG
* *
33738676 TGTATTCGTTTTACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTT
195 AGTATTCGTTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTT
* *
33738741 CCAGCTCGTACGCTGCGTATGTATTTCGAAAAGACAAGCTACATTTTCGAATTAATTTATGGAAG
260 CCAGCTCGTACGCTGCGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAATTTATGGAAG
33738806 TATTAAG-ATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTGTTTGCGCTA
325 TATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTGTTTGCGCTA
* * ** *
33738870 GTCTGCATTCTTGTAGTCTCAGTGGAAGTTGGCGGTAATATGGCGGATACAGTAAAGAGATTTTC
390 GTCTGCATTCATGTAGTCTCAGTAGAAGTTGGCGACAATATGGCGGATACAGTAAATAGATTTTC
* * * *
33738935 ATGGAACACCGAAACTCCTAATCACGACAATTAGTCTCTTCTACCTATCGAATATGATGCAAATA
455 ATGGAACACCGGAACGCCTAATCGCGACAATTAG--TCTTCTACCTATCAAATATGATGCAAATA
* * *
33739000 TTGTCTTCTCTAACAACATACGTCCGCAAGTTCGTCAGGAAGAATTCTGGCGATTTCATGTTCTT
518 -TGTCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTC
* *
33739065 TAACTCCACAATGGCAAACACTATCGATAGCAAGTTCTGGTTCCCATCTTGTGCAACCACAATAA
582 CAACTCCACAATGGCAAACACTATCGATAGCAAGTTCTGGTTCCCGTCTTGTGCAACCACAATAA
* * *
33739130 GAAGGATCTGCGTATATTTTTCATATAACCAGGTGTCATCAACTTGCACAAGCAGCTTGCAGTAG
647 GAAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAG
* * *
33739195 GAAAAGACCCACATGCATAGATCGAATGTCCAGGACATTTTGTGGAAAATTCTTCTTCCCA
712 GGAAAGACCCACATGCATAGATCGAATGTCCAGGACATTTGGTGAAAAATTCTTCTTCCCA
* * *
33739256 ATTCTTGGCATAAATGTTGTCACTCTATAAAATATAGTTGAAAAAATAAATAAAATTGGAAAATG
1 ATTCTTGGCATAAATGTTGTCAGTCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
* * * * *
33739321 TCGTGTTTGCTTCATGATAAAGTTAATAACACTTGTTAGGTTGGTGGTCATATGACCATATCAAG
66 TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTGGTGGTCATATGACCATATCGAG
33739386 ATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTAAAAAAAGA
131 ATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTAAAAAAAGA
* * * *
33739451 GTATTTGCTTCACTGTAGATATCAACCTCAAGCCTGGTTAGCCTTTGCTTGAAACAGTGTTGTTC
196 GTATTCGTTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTTC
* * * *
33739516 CAGCTCGTACACTGCGTATATATTTCGAAAAA-ACATGCTACCTTTTCGAATTAATTTATAGAAG
261 CAGCTCGTACGCTGCGTATGTATTTC-AAAAAGACAAGCTACCTTTTCGAATTAATTTATGGAAG
*
33739580 TATTAAGAATATTTAAAAATATGTTGAAATCCAAATTTACCCATGCTCACTACTTGTTTGCGCTA
325 TATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTGTTTGCGCTA
*
33739645 GTCTGCATTCATGTAGTCTCAGTAGAAGTTGGC-AGCAATATGGTGGATACAGTAAATAGATTTT
390 GTCTGCATTCATGTAGTCTCAGTAGAAGTTGGCGA-CAATATGGCGGATACAGTAAATAGATTTT
* ** *
33739709 CATGGAACACCGGAACGCCTAATTGCGGTAATTAGTCTTCTACCTATCAAATATGATACAAATAT
454 CATGGAACACCGGAACGCCTAATCGCGACAATTAGTCTTCTACCTATCAAATATGATGCAAATA-
33739774 TGTCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCC
518 TGTCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCC
* *
33739839 AACTCCACAATGGCAAACACTATCGGTAGCAAGTTCTGGTTCCAGTCTTGTGCAACCACAATAAG
583 AACTCCACAATGGCAAACACTATCGATAGCAAGTTCTGGTTCCCGTCTTGTGCAACCACAATAAG
* *
33739904 AAGGATCTGCGTATATTTTTCGTATAACTAGGTGTCATCAACCTGTACAAGCGGCTTGCAGTAGG
648 AAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAGG
* * * * *
33739969 GAAAGACCCATATGCATAGATCTAATGTCCAAGACATTCGGTGGAAAATTCTTCTTCCCA
713 GAAAGACCCACATGCATAGATCGAATGTCCAGGACATTTGGTGAAAAATTCTTCTTCCCA
33740029 ATT
1 ATT
33740032 GTAGTTGGTA
Statistics
Matches: 2137, Mismatches: 174, Indels: 25
0.91 0.07 0.01
Matches are distributed among these distances:
772 177 0.08
773 1083 0.51
774 702 0.33
775 175 0.08
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (772 bp):
ATTCTTGGCATAAATGTTGTCAGTCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTGGTGGTCATATGACCATATCGAG
ATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTAAAAAAAGA
GTATTCGTTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTTC
CAGCTCGTACGCTGCGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAATTTATGGAAGT
ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTGTTTGCGCTAG
TCTGCATTCATGTAGTCTCAGTAGAAGTTGGCGACAATATGGCGGATACAGTAAATAGATTTTCA
TGGAACACCGGAACGCCTAATCGCGACAATTAGTCTTCTACCTATCAAATATGATGCAAATATGT
CTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCCAAC
TCCACAATGGCAAACACTATCGATAGCAAGTTCTGGTTCCCGTCTTGTGCAACCACAATAAGAAG
GATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCTTGCAGTAGGGAA
AGACCCACATGCATAGATCGAATGTCCAGGACATTTGGTGAAAAATTCTTCTTCCCA
Found at i:33740638 original size:25 final size:23
Alignment explanation
Indices: 33740595--33740642 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 23
33740585 AAAATATATT
33740595 AAATATATATTTTTTTATTTTTA
1 AAATATATATTTTTTTATTTTTA
33740618 AAATATAATAGTTTTTTTATTTTTA
1 AAATAT-ATA-TTTTTTTATTTTTA
33740643 GTTTCATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.26
24 3 0.13
25 14 0.61
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
AAATATATATTTTTTTATTTTTA
Found at i:33741736 original size:16 final size:16
Alignment explanation
Indices: 33741715--33741748 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33741705 ATATATATGT
33741715 ATAACAATTAATTTTA
1 ATAACAATTAATTTTA
*
33741731 ATAACAATTAGTTTTA
1 ATAACAATTAATTTTA
33741747 AT
1 AT
33741749 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
ATAACAATTAATTTTA
Found at i:33743745 original size:106 final size:107
Alignment explanation
Indices: 33743555--33743778 Score: 425
Period size: 106 Copynumber: 2.1 Consensus size: 107
33743545 TCATTTCAGT
*
33743555 TATTAATTTT-ATTTTTTGTATTATTGGGATAAAAAAGGTGTAAATACTAGATCCATATTTGAAC
1 TATTATTTTTAATTTTTTGTATTATTGGGATAAAAAAGGTGTAAATACTAGATCCATATTTGAAC
33743619 TGATTAGATTTCAAATCATTTAATTATTAAAAAATAAAAAAA
66 TGATTAGATTTCAAATCATTTAATTATTAAAAAATAAAAAAA
33743661 T-TTATTTTTAATTTTTTGTATTATTGGGATAAAAAAGGTGTAAATACTAGATCCATATTTGAAC
1 TATTATTTTTAATTTTTTGTATTATTGGGATAAAAAAGGTGTAAATACTAGATCCATATTTGAAC
33743725 TGATTAGATTTCAAATCATTTAATTATTAAAAAATAAAAAAA
66 TGATTAGATTTCAAATCATTTAATTATTAAAAAATAAAAAAA
33743767 TATTATTTTTAA
1 TATTATTTTTAA
33743779 ATTAATAAAC
Statistics
Matches: 115, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
105 7 0.06
106 98 0.85
107 10 0.09
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (107 bp):
TATTATTTTTAATTTTTTGTATTATTGGGATAAAAAAGGTGTAAATACTAGATCCATATTTGAAC
TGATTAGATTTCAAATCATTTAATTATTAAAAAATAAAAAAA
Found at i:33743817 original size:18 final size:17
Alignment explanation
Indices: 33743776--33743808 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33743766 ATATTATTTT
33743776 TAAATTAATAAACAAAAA
1 TAAA-TAATAAACAAAAA
33743794 TAAATAATAAA-AAAA
1 TAAATAATAAACAAAA
33743809 TCATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAATAATAAACAAAAA
Found at i:33772532 original size:15 final size:15
Alignment explanation
Indices: 33772503--33772532 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33772493 AAAAAAGTAT
*
33772503 TTAAAAAAATTAAAA
1 TTAAAAAAATAAAAA
33772518 TTAAAAAAATAAAAA
1 TTAAAAAAATAAAAA
33772533 CATATATTTA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TTAAAAAAATAAAAA
Found at i:33773105 original size:16 final size:18
Alignment explanation
Indices: 33773066--33773099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33773056 TAAGTTTATA
33773066 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
33773083 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
33773100 AATTTAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:33773426 original size:19 final size:18
Alignment explanation
Indices: 33773402--33773472 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 18
33773392 GACCGAATGT
*
33773402 TTTTTTACTATTTTGTTG
1 TTTTTTACTATTTTATTG
*
33773420 TTGTTTT-TTATTATTATTG
1 TT-TTTTACTATT-TTATTG
* *
33773439 TTTTGTTGCTATTTTCTTG
1 TTTT-TTACTATTTTATTG
*
33773458 TTCTTTCACTATTTT
1 TT-TTTTACTATTTT
33773473 TCTACCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
18 8 0.19
19 28 0.67
20 6 0.14
ACGTcount: A:0.11, C:0.08, G:0.10, T:0.70
Consensus pattern (18 bp):
TTTTTTACTATTTTATTG
Found at i:33773428 original size:21 final size:21
Alignment explanation
Indices: 33773402--33773445 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
33773392 GACCGAATGT
33773402 TTTTTTACTATT-TTGTTGTTG
1 TTTTTTACTATTATTGTT-TTG
*
33773423 TTTTTTATTATTATTGTTTTG
1 TTTTTTACTATTATTGTTTTG
33773444 TT
1 TT
33773446 GCTATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.75
Consensus pattern (21 bp):
TTTTTTACTATTATTGTTTTG
Found at i:33773437 original size:24 final size:23
Alignment explanation
Indices: 33773401--33773446 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
33773391 GGACCGAATG
33773401 TTTTTTTACTATT-TTGTTGTTGT
1 TTTTTTTACTATTGTT-TTGTTGT
*
33773424 TTTTTATTATTATTGTTTTGTTG
1 TTTTT-TTACTATTGTTTTGTTG
33773447 CTATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 13 0.65
25 2 0.10
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.74
Consensus pattern (23 bp):
TTTTTTTACTATTGTTTTGTTGT
Found at i:33774782 original size:29 final size:28
Alignment explanation
Indices: 33774750--33774810 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
33774740 AAAAAGCCAT
* *
33774750 TTTTTTTAAAATTTACCGAAATGGGCCGA
1 TTTTTTGAAAATTTACCGAAATGGACC-A
** *
33774779 TTTTTTGATTATTTACCGGAATGGACCA
1 TTTTTTGAAAATTTACCGAAATGGACCA
33774807 TTTT
1 TTTT
33774811 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTGAAAATTTACCGAAATGGACCA
Found at i:33775070 original size:22 final size:22
Alignment explanation
Indices: 33775043--33775093 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
33775033 CTCTCTAATC
33775043 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
33775065 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
33775087 CTCTCAA
1 CTCTCAA
33775094 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:33777121 original size:24 final size:24
Alignment explanation
Indices: 33777088--33777143 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
33777078 ATGCGGAACC
*
33777088 GGAAGAACCACAACCACCACCGGA
1 GGAAGAACCACAACCACCACCAGA
* *
33777112 GGAAGGACCACAATCACCACCAGA
1 GGAAGAACCACAACCACCACCAGA
33777136 GGAAGAAC
1 GGAAGAAC
33777144 AACCGCTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.32, G:0.23, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAGA
Found at i:33777380 original size:29 final size:29
Alignment explanation
Indices: 33777347--33777437 Score: 103
Period size: 29 Copynumber: 3.0 Consensus size: 29
33777337 ATAAAATAAA
*
33777347 AACCCTAATTTAATTGAAAACCCTAACCT
1 AACCCTAATTTAATTAAAAACCCTAACCT
33777376 AACCCTAACCTAAATTAATTAAAAACCCTAACACT
1 AACCCTAA--T---TTAATTAAAAACCCTAAC-CT
*
33777411 AA-CCTAAATTAATTAAAAACCCTAACC
1 AACCCTAATTTAATTAAAAACCCTAACC
33777438 CNNNNNNNNN
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
28 1 0.02
29 26 0.48
31 1 0.02
34 22 0.41
35 4 0.07
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCCTAATTTAATTAAAAACCCTAACCT
Found at i:33777388 original size:34 final size:30
Alignment explanation
Indices: 33777373--33777437 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
33777363 AAAACCCTAA
33777373 CCTAACC-CTAACCTAAATTAATTAAAAAC
1 CCTAACCACTAACCTAAATTAATTAAAAAC
33777402 CCTAA-CACTAACCTAAATTAATTAAAAAC
1 CCTAACCACTAACCTAAATTAATTAAAAAC
33777431 CCTAACC
1 CCTAACC
33777438 CNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (30 bp):
CCTAACCACTAACCTAAATTAATTAAAAAC
Found at i:33780791 original size:125 final size:126
Alignment explanation
Indices: 33780481--33780819 Score: 599
Period size: 125 Copynumber: 2.7 Consensus size: 126
33780471 CCCAAACTTG
33780481 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
33780546 TAGAAACAATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAATTATTTCTTACATAAC
66 TAGAAACAATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAATTATTTCTTACATAAC
*
33780607 CTACTGTAGCAAAATCGCGTCCACGAGGGAGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* * *
33780672 TAGAATCAATTTTATACTATTTGCTCAGAAACATTAG-AAAAAAATTATTTCTTACATGAC
66 TAGAAACAATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAATTATTTCTTACATAAC
* *
33780732 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
33780797 TAGAAGCGATTTTATACTATTTG
66 TAGAAACAATTTTATACTATTTG
33780820 ACCAGAGACG
Statistics
Matches: 204, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
125 105 0.51
126 99 0.49
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACAATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAATTATTTCTTACATAAC
Found at i:33781014 original size:29 final size:28
Alignment explanation
Indices: 33780956--33781016 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
33780946 GATTTCCCGG
*
33780956 AAAATGGACCATTCCGGTAAATAATCAA
1 AAAATGGACCATTCCGGTAAATAATAAA
* * **
33780984 AAAATCGGCCCATTTCGGTAAATTTTAAA
1 AAAAT-GGACCATTCCGGTAAATAATAAA
33781013 AAAA
1 AAAA
33781017 AAGGGCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (28 bp):
AAAATGGACCATTCCGGTAAATAATAAA
Found at i:33781859 original size:29 final size:27
Alignment explanation
Indices: 33781818--33781890 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
33781808 ATTTTTTAGA
* * * *
33781818 AAATTATTAAATTTCTTACAATTTTGT
1 AAATTACTGAATTTCTTAAAACTTTGT
*
33781845 AATACTTACCT-AATTCCTTAAAACTTTGT
1 AA-A-TTA-CTGAATTTCTTAAAACTTTGT
33781874 AAATTACTGAATTTCTT
1 AAATTACTGAATTTCTT
33781891 GCGAAATTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 2 0.05
29 20 0.54
30 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.47
Consensus pattern (27 bp):
AAATTACTGAATTTCTTAAAACTTTGT
Found at i:33792333 original size:148 final size:148
Alignment explanation
Indices: 33792100--33792386 Score: 574
Period size: 148 Copynumber: 1.9 Consensus size: 148
33792090 ACAAATACAA
33792100 TTATCTCATTCATGTTAACTCTCTAAGCTTCTAATGATTTCACAAATGAACCTTTGGGTTAGTTA
1 TTATCTCATTCATGTTAACTCTCTAAGCTTCTAATGATTTCACAAATGAACCTTTGGGTTAGTTA
33792165 AATTAAGCTAAAACGAACTCAAAAACATAAAAATCAATAAAAATGGACCTCAAAAACTCGCCCAA
66 AATTAAGCTAAAACGAACTCAAAAACATAAAAATCAATAAAAATGGACCTCAAAAACTCGCCCAA
33792230 GCAAGGAAGTGGCAAAAC
131 GCAAGGAAGTGGCAAAAC
33792248 TTATCTCATTCATGTTAACTCTCTAAGCTTCTAATGATTTCACAAATGAACCTTTGGGTTAGTTA
1 TTATCTCATTCATGTTAACTCTCTAAGCTTCTAATGATTTCACAAATGAACCTTTGGGTTAGTTA
33792313 AATTAAGCTAAAACGAACTCAAAAACATAAAAATCAATAAAAATGGACCTCAAAAACTCGCCCAA
66 AATTAAGCTAAAACGAACTCAAAAACATAAAAATCAATAAAAATGGACCTCAAAAACTCGCCCAA
33792378 GCAAGGAAG
131 GCAAGGAAG
33792387 GAAGCTTGGC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 139 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.26
Consensus pattern (148 bp):
TTATCTCATTCATGTTAACTCTCTAAGCTTCTAATGATTTCACAAATGAACCTTTGGGTTAGTTA
AATTAAGCTAAAACGAACTCAAAAACATAAAAATCAATAAAAATGGACCTCAAAAACTCGCCCAA
GCAAGGAAGTGGCAAAAC
Found at i:33793490 original size:22 final size:22
Alignment explanation
Indices: 33793463--33793550 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
33793453 GTATTTTAAT
33793463 AGTAGGCACCGTAGTGCAAAGT-
1 AGTAGGCACCGTAGTGCAAA-TC
* **
33793485 AGTAGGCACCGAAGTGTGAATC
1 AGTAGGCACCGTAGTGCAAATC
* *
33793507 AATAGGCACTGTAGTGCAAATC
1 AGTAGGCACCGTAGTGCAAATC
* *
33793529 AGTATGCACCATAGTGCAAATC
1 AGTAGGCACCGTAGTGCAAATC
33793551 TCGTTCAAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 1 0.02
22 52 0.98
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.20
Consensus pattern (22 bp):
AGTAGGCACCGTAGTGCAAATC
Found at i:33803849 original size:9 final size:9
Alignment explanation
Indices: 33803835--33803893 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
33803825 TTTGGTTAAA
33803835 AATTACCCG
1 AATTACCCG
*
33803844 AATTACCTG
1 AATTACCCG
*
33803853 AATTAACCG
1 AATTACCCG
33803862 AATTA-CCG
1 AATTACCCG
*
33803870 AAAAATACCCG
1 --AATTACCCG
33803881 AATTACCCG
1 AATTACCCG
33803890 AATT
1 AATT
33803894 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 3 0.07
9 32 0.76
10 4 0.10
11 3 0.07
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:33804011 original size:40 final size:39
Alignment explanation
Indices: 33803966--33804054 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
33803956 GACTTTAATA
*
33803966 AATTGGGTTGTCTTTTAGCTTTAGTTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAGCTTTAGTTTTATTGGATTGGGT
** * *
33804006 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAGCTTTAGTTTTATTGGATTGGGT
33804045 AATTGGGTTG
1 AATTGGGTTG
33804055 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.49
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGCTTTAGTTTTATTGGATTGGGT
Found at i:33804051 original size:13 final size:13
Alignment explanation
Indices: 33804033--33804062 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
33804023 TTTTAGTTTT
33804033 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
33804046 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
33804059 ATTG
1 ATTG
33804063 AGTTTGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:33807659 original size:28 final size:28
Alignment explanation
Indices: 33807623--33807684 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
33807613 TGGCGTAATG
*
33807623 AAGGAATGGACGAATTGTTATGGGATTT
1 AAGGGATGGACGAATTGTTATGGGATTT
*
33807651 AAGGGATGGACGGATTGTTATGGGATTT
1 AAGGGATGGACGAATTGTTATGGGATTT
33807679 AAGGGA
1 AAGGGA
33807685 GTTTGGCAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.37, T:0.29
Consensus pattern (28 bp):
AAGGGATGGACGAATTGTTATGGGATTT
Found at i:33807798 original size:37 final size:37
Alignment explanation
Indices: 33807750--33807822 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
33807740 GACGATTTTT
33807750 TATTGGTCCTTTGAGGTAACACCGTG-ACAATGGTATC
1 TATTGGTCCTTTGAGGTAACACCGTGTA-AATGGTATC
*
33807787 TATTGGTCCTTTGAGGTAATACCGTGTAAATGGTAT
1 TATTGGTCCTTTGAGGTAACACCGTGTAAATGGTAT
33807823 ATAAGTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (37 bp):
TATTGGTCCTTTGAGGTAACACCGTGTAAATGGTATC
Found at i:33811638 original size:11 final size:11
Alignment explanation
Indices: 33811622--33811647 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33811612 AAAAATTAAA
33811622 AAAAGTATTTT
1 AAAAGTATTTT
33811633 AAAAGTATTTT
1 AAAAGTATTTT
33811644 AAAA
1 AAAA
33811648 TTAAAAAAAT
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:33811695 original size:41 final size:41
Alignment explanation
Indices: 33811595--33811716 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 41
33811585 CCAAAAATTT
**
33811595 ATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAGT
1 ATTTT-AAAATT-AAA-AAAAATTAAAAAAAGTATTTTAAAAAA
33811639 ATTTTAAAATT-AAAAAAATTAAAAAAAGTATTTTAAAAAA
1 ATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAAA
*
33811679 ATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAA
1 ATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAA
33811717 GTTAAAAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
40 36 0.49
41 27 0.36
43 6 0.08
44 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (41 bp):
ATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAAA
Found at i:33811742 original size:30 final size:31
Alignment explanation
Indices: 33811672--33811742 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
33811662 AAAAGTATTT
* **
33811672 TAAAAAAATTTTAAAATTAAAAAAATTTAAA
1 TAAAAATATTTTAAAATTAAAAAAATAAAAA
* *
33811703 -AAAAGTATTTTAAAGTT-AAAAAATAAAAA
1 TAAAAATATTTTAAAATTAAAAAAATAAAAA
33811732 TAAAAATATTT
1 TAAAAATATTT
33811743 ATTATTCGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
TAAAAATATTTTAAAATTAAAAAAATAAAAA
Found at i:33813397 original size:23 final size:23
Alignment explanation
Indices: 33813346--33813423 Score: 88
Period size: 25 Copynumber: 3.3 Consensus size: 23
33813336 GGCCCATATC
* *
33813346 AAATATATATTT-AATATATAA-A
1 AAATATATATTTGATTA-AAAATA
33813368 AAATATATATTTGATTAAAAATAA
1 AAATATATATTTGATTAAAAAT-A
33813392 AATATATATATTTGATTAAAAATA
1 AA-ATATATATTTGATTAAAAATA
*
33813416 ATATATAT
1 AAATATAT
33813424 TTAATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
22 15 0.31
23 9 0.18
24 5 0.10
25 20 0.41
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
AAATATATATTTGATTAAAAATA
Found at i:33813398 original size:25 final size:25
Alignment explanation
Indices: 33813363--33813423 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
33813353 TATTTAATAT
*
33813363 ATAAAAAATATATATTTGATTAAAA
1 ATAAAATATATATATTTGATTAAAA
33813388 ATAAAATATATATATTTGATTAAAA
1 ATAAAATATATATATTTGATTAAAA
*
33813413 ATAATATATAT
1 ATAAAATATAT
33813424 TTAATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (25 bp):
ATAAAATATATATATTTGATTAAAA
Found at i:33814688 original size:14 final size:14
Alignment explanation
Indices: 33814669--33814695 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33814659 CATTTTAGGG
33814669 TGACTTAATTATTA
1 TGACTTAATTATTA
33814683 TGACTTAATTATT
1 TGACTTAATTATT
33814696 TTTGTACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TGACTTAATTATTA
Found at i:33816411 original size:18 final size:20
Alignment explanation
Indices: 33816373--33816416 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
33816363 ATAGATTTTC
33816373 TTTTAATTAAAAAGTATATGT
1 TTTTAATTAAAAAG-ATATGT
33816394 TTTTAA-TAAAAA-ATATGT
1 TTTTAATTAAAAAGATATGT
*
33816412 ATTTA
1 TTTTA
33816417 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
20 6 0.27
21 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TTTTAATTAAAAAGATATGT
Found at i:33817366 original size:31 final size:31
Alignment explanation
Indices: 33817328--33817390 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
33817318 GGCTCATTTT
33817328 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAA
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAA
*
33817359 TATTTTAAAAATATTTTAAAATTAAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAAA
33817390 T
1 T
33817391 TAAAAAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAA
Found at i:33817368 original size:11 final size:11
Alignment explanation
Indices: 33817328--33817379 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
33817318 GGCTCATTTT
33817328 TATTTT-AAAA
1 TATTTTAAAAA
33817338 -ATTTTAAAAA
1 TATTTTAAAAA
**
33817348 -ATTAAAAAAAA
1 TATT-TTAAAAA
33817359 TATTTTAAAAA
1 TATTTTAAAAA
33817370 TATTTTAAAA
1 TATTTTAAAA
33817380 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 7 0.20
11 20 0.57
12 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:33819161 original size:19 final size:19
Alignment explanation
Indices: 33819137--33819176 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
33819127 AATGAATGAG
33819137 AATACATGTAATTATATCA
1 AATACATGTAATTATATCA
33819156 AATACATGTAATTATATCA
1 AATACATGTAATTATATCA
33819175 AA
1 AA
33819177 AGAGACGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (19 bp):
AATACATGTAATTATATCA
Found at i:33826400 original size:21 final size:21
Alignment explanation
Indices: 33826376--33826510 Score: 80
Period size: 21 Copynumber: 6.4 Consensus size: 21
33826366 CTCTCCTACG
* *
33826376 TCATCCCCCGGTTACAGCCCA
1 TCATCACCTGGTTACAGCCCA
* * * *
33826397 TCATCTCCTGGATACAGTCCG
1 TCATCACCTGGTTACAGCCCA
*
33826418 TCATCACCTGGTTACAGTCC-
1 TCATCACCTGGTTACAGCCCA
* * *
33826438 TACCTCTCCTGGTTACAGTCC-
1 T-CATCACCTGGTTACAGCCCA
* *
33826459 TACATCTCCTGGGTACAGTCCCA
1 T-CATCACCTGGTTACAG-CCCA
* *
33826482 -CCTCTCCTGGTTACAGCCCCA
1 TCATCACCTGGTTACAG-CCCA
33826503 -CATCACCT
1 TCATCACCT
33826511 ACTTACAGTC
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.01
21 91 0.97
22 2 0.02
ACGTcount: A:0.19, C:0.40, G:0.15, T:0.27
Consensus pattern (21 bp):
TCATCACCTGGTTACAGCCCA
Found at i:33826517 original size:63 final size:63
Alignment explanation
Indices: 33826398--33826542 Score: 157
Period size: 63 Copynumber: 2.3 Consensus size: 63
33826388 TACAGCCCAT
** * * * * **
33826398 CATCTCCTGGATACAGTCCGTCATCACCTGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTA
1 CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
* * *
33826461 CATCTCCTGGGTACAGTCCCACCTCTCCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
1 CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
* *
33826524 GC-TCACCAGGATACAGTCC
1 -CATCTCCTGGATACAGTCC
33826543 GACAAGTCCA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
63 66 0.99
64 1 0.01
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (63 bp):
CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
Found at i:33826518 original size:42 final size:42
Alignment explanation
Indices: 33826385--33826521 Score: 159
Period size: 42 Copynumber: 3.3 Consensus size: 42
33826375 GTCATCCCCC
* * **
33826385 GGTTACAG-CCCATCATCTCCTGGATACAGTCCGTCATCACCT
1 GGTTACAGTCCCA-CCTCTCCTGGTTACAGTCCCACATCACCT
* * *
33826427 GGTTACAGTCCTACCTCTCCTGGTTACAGTCCTACATCTCCT
1 GGTTACAGTCCCACCTCTCCTGGTTACAGTCCCACATCACCT
* *
33826469 GGGTACAGTCCCACCTCTCCTGGTTACAGCCCCACATCACCT
1 GGTTACAGTCCCACCTCTCCTGGTTACAGTCCCACATCACCT
**
33826511 ACTTACAGTCC
1 GGTTACAGTCC
33826522 TAGCTCACCA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 77 0.96
43 3 0.04
ACGTcount: A:0.20, C:0.38, G:0.15, T:0.27
Consensus pattern (42 bp):
GGTTACAGTCCCACCTCTCCTGGTTACAGTCCCACATCACCT
Found at i:33826616 original size:21 final size:21
Alignment explanation
Indices: 33826586--33826644 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
33826576 ATATTCTCCA
* *
33826586 ACCTCACCAAGCTATAGCCCT
1 ACCTCTCCAAGCTACAGCCCT
*
33826607 ACCTCTCCAAGTTACAGCCCT
1 ACCTCTCCAAGCTACAGCCCT
* *
33826628 ACATCTCCAAGTTACAG
1 ACCTCTCCAAGCTACAG
33826645 TCCCACATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.22
Consensus pattern (21 bp):
ACCTCTCCAAGCTACAGCCCT
Found at i:33826652 original size:21 final size:21
Alignment explanation
Indices: 33826610--33826671 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
33826600 TAGCCCTACC
33826610 TCTCCAAGTTACAG-CCCTACA
1 TCTCCAAGTTACAGTCCC-ACA
33826631 TCTCCAAGTTACAGTCCCACA
1 TCTCCAAGTTACAGTCCCACA
* *
33826652 TCCCCCAGTTACAGTCCCAC
1 TCTCCAAGTTACAGTCCCAC
33826672 TTCACCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 35 0.92
22 3 0.08
ACGTcount: A:0.26, C:0.42, G:0.10, T:0.23
Consensus pattern (21 bp):
TCTCCAAGTTACAGTCCCACA
Found at i:33826685 original size:21 final size:21
Alignment explanation
Indices: 33826640--33826699 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
33826630 ATCTCCAAGT
* * *
33826640 TACAGTCCCACATCCCCCAGT
1 TACAGTCCCACTTCACCCAGC
*
33826661 TACAGTCCCACTTCACCTAGC
1 TACAGTCCCACTTCACCCAGC
*
33826682 TACAGCCCCACTTCACCC
1 TACAGTCCCACTTCACCC
33826700 GTATATAGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.48, G:0.08, T:0.20
Consensus pattern (21 bp):
TACAGTCCCACTTCACCCAGC
Found at i:33826709 original size:21 final size:21
Alignment explanation
Indices: 33826667--33826889 Score: 209
Period size: 21 Copynumber: 10.6 Consensus size: 21
33826657 CAGTTACAGT
* *
33826667 CCCACTTCACCTAGC-TACAGC
1 CCCACTTCTCCT-GCATATAGC
* * *
33826688 CCCACTTCACCCGTATATAGC
1 CCCACTTCTCCTGCATATAGC
33826709 CCCACTTCTCCTGCATATAGC
1 CCCACTTCTCCTGCATATAGC
33826730 CCCACTTCTCCTGCATATAGC
1 CCCACTTCTCCTGCATATAGC
* *
33826751 CCCACTTCTCCAT-CGTACAGC
1 CCCACTTCTCC-TGCATATAGC
* *
33826772 CCCACATCTCCAT-CATACAGC
1 CCCACTTCTCC-TGCATATAGC
* * * *
33826793 CCCACATCTCCTTCGTACAGC
1 CCCACTTCTCCTGCATATAGC
* * *
33826814 CCCACATCTCCTTCCTATAGC
1 CCCACTTCTCCTGCATATAGC
* *
33826835 CCCACATCTCCTTCATATAGC
1 CCCACTTCTCCTGCATATAGC
* * *
33826856 CCCACTTCACCCGCTTATAGC
1 CCCACTTCTCCTGCATATAGC
33826877 CCCACTTCTCCTG
1 CCCACTTCTCCTG
33826890 GGTACAGTCC
Statistics
Matches: 178, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
20 2 0.01
21 175 0.98
22 1 0.01
ACGTcount: A:0.21, C:0.46, G:0.08, T:0.25
Consensus pattern (21 bp):
CCCACTTCTCCTGCATATAGC
Found at i:33826887 original size:63 final size:63
Alignment explanation
Indices: 33826703--33826888 Score: 237
Period size: 63 Copynumber: 3.0 Consensus size: 63
33826693 TTCACCCGTA
* * * *
33826703 TATAGCCCCACTTCTCCTGCATATAGCCCCACTTCTCCTGCATATAGCCCCACTTCTCCATCG
1 TATAGCCCCACATCTCCTTCATATAGCCCCACTTCTCCTGCATATAGCCCCACTTCTCCTTCC
* * * * * * * *
33826766 TACAGCCCCACATCTCCATCATACAGCCCCACATCTCCTTCGTACAGCCCCACATCTCCTTCC
1 TATAGCCCCACATCTCCTTCATATAGCCCCACTTCTCCTGCATATAGCCCCACTTCTCCTTCC
* * *
33826829 TATAGCCCCACATCTCCTTCATATAGCCCCACTTCACCCGCTTATAGCCCCACTTCTCCT
1 TATAGCCCCACATCTCCTTCATATAGCCCCACTTCTCCTGCATATAGCCCCACTTCTCCT
33826889 GGGTACAGTC
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.20, C:0.46, G:0.08, T:0.26
Consensus pattern (63 bp):
TATAGCCCCACATCTCCTTCATATAGCCCCACTTCTCCTGCATATAGCCCCACTTCTCCTTCC
Found at i:33826918 original size:21 final size:21
Alignment explanation
Indices: 33826892--33826958 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
33826882 TTCTCCTGGG
33826892 TACAGTCCAACCTCACCAAGT
1 TACAGTCCAACCTCACCAAGT
* * *
33826913 TACAGTCCCACATCACCAAGC
1 TACAGTCCAACCTCACCAAGT
* * * *
33826934 TATAGCCCTACCTCTCCAAGT
1 TACAGTCCAACCTCACCAAGT
33826955 TACA
1 TACA
33826959 ACCCGCAGTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.39, G:0.09, T:0.21
Consensus pattern (21 bp):
TACAGTCCAACCTCACCAAGT
Found at i:33828341 original size:17 final size:16
Alignment explanation
Indices: 33828319--33828352 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33828309 CCATCAAGGA
33828319 TATTTTTTACTATTTTC
1 TATTTTTTACT-TTTTC
*
33828336 TATTTTTTTCTTTTTC
1 TATTTTTTACTTTTTC
33828352 T
1 T
33828353 TCGACTGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTTTTACTTTTTC
Found at i:33830721 original size:13 final size:13
Alignment explanation
Indices: 33830703--33830727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33830693 AGTTCTTTAT
33830703 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
33830716 TGCTTTTGAGAA
1 TGCTTTTGAGAA
33830728 ATTTGAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:33833124 original size:18 final size:18
Alignment explanation
Indices: 33833103--33833150 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
33833093 CCCATCAATT
33833103 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
33833121 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
33833139 TGAACATCATTT
1 TGAACATCATTT
33833151 CTCCTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:33834180 original size:12 final size:12
Alignment explanation
Indices: 33834165--33834193 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33834155 AAGCAATAAT
33834165 ATATTGTAAATC
1 ATATTGTAAATC
33834177 ATATTGTAAATC
1 ATATTGTAAATC
33834189 ATATT
1 ATATT
33834194 AAACTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (12 bp):
ATATTGTAAATC
Found at i:33836567 original size:29 final size:29
Alignment explanation
Indices: 33836534--33836590 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
33836524 CTCCAATTTC
*
33836534 ACCAGCAGAGGGGAAAGAACGTTTGGGGA
1 ACCAGCAGAGGGGAAAAAACGTTTGGGGA
33836563 ACCAGCAGAGGGGAAAAAACGTTTGGGG
1 ACCAGCAGAGGGGAAAAAACGTTTGGGG
33836591 GAGAAGACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.14, G:0.40, T:0.11
Consensus pattern (29 bp):
ACCAGCAGAGGGGAAAAAACGTTTGGGGA
Found at i:33842898 original size:46 final size:46
Alignment explanation
Indices: 33842831--33842959 Score: 240
Period size: 46 Copynumber: 2.8 Consensus size: 46
33842821 ATAACTTAGC
*
33842831 ATGGTTTCCTTCACTGAAACACCATACCTACTTTTCACAACTCAGT
1 ATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACTCAGT
33842877 ATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACTCAGT
1 ATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACTCAGT
*
33842923 ATGGCTTTCTTCACTGAAACACCATACCTACTTTTCA
1 ATGGTTTTCTTCACTGAAACACCATACCTACTTTTCA
33842960 TAAATTTCCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
ATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACTCAGT
Found at i:33843493 original size:32 final size:32
Alignment explanation
Indices: 33843450--33843511 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
33843440 TTTAGGCTAT
* *
33843450 TATAAAGCCTTTTATATTCATAATTTCAGTCA
1 TATAAAGCCTTTGATATTCAGAATTTCAGTCA
* *
33843482 TATACAGCCTTTGATATTTAGAATTTCAGT
1 TATAAAGCCTTTGATATTCAGAATTTCAGT
33843512 ACAAAACCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (32 bp):
TATAAAGCCTTTGATATTCAGAATTTCAGTCA
Found at i:33844239 original size:17 final size:17
Alignment explanation
Indices: 33844217--33844252 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
33844207 AAATTCTTTT
33844217 TAAATCATAAAATTCAC
1 TAAATCATAAAATTCAC
*
33844234 TAAATCATAGAATTCAC
1 TAAATCATAAAATTCAC
33844251 TA
1 TA
33844253 GTTCAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAATCATAAAATTCAC
Found at i:33844940 original size:9 final size:9
Alignment explanation
Indices: 33844919--33844960 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
33844909 TATTTTTAAA
33844919 AAAAATTAT
1 AAAAATTAT
33844928 -AAAATTAT
1 AAAAATTAT
*
33844936 AAAAATTCT
1 AAAAATTAT
33844945 AAAAAATATAT
1 -AAAAAT-TAT
33844956 AAAAA
1 AAAAA
33844961 AAGTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 8 0.29
9 7 0.25
10 11 0.39
11 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33846583 original size:3 final size:3
Alignment explanation
Indices: 33846575--33846610 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33846565 CTGCATGACC
33846575 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33846611 TTAAAATTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33847658 original size:43 final size:43
Alignment explanation
Indices: 33847467--33847651 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
33847457 CACTAAATAA
*
33847467 CATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAATGGT
1 CATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGT
* * *
33847510 CATGTTCTTTAGTGGCGCTTTTCCCACAAACGCTGCTAATGGT
1 CATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGT
* * * *
33847553 CATGTTCTTTAGCGGCGCCTCTCTCACAAACGCCGCTAAAGTT
1 CATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGT
** * * * *
33847596 CATGTTCTTTAATGGCGCTTTTCGCAAAAATGCCGCTAAAGTT
1 CATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGT
33847639 CATGTTCTTTAGC
1 CATGTTCTTTAGC
33847652 ATCGCTTCCC
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (43 bp):
CATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGT
Found at i:33848036 original size:21 final size:21
Alignment explanation
Indices: 33848012--33848061 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
33848002 CTCTGCTCTG
33848012 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
*
33848033 CTCTGCTTCCCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
33848054 CTCTGCTT
1 CTCTGCTT
33848062 TAAGTTGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.48, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCCGC
Found at i:33849568 original size:21 final size:21
Alignment explanation
Indices: 33849518--33849587 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
33849508 CCCAAATCCC
* *
33849518 TAACCCATAACCCCTAAATC-
1 TAACCCCTAACCCCTAAAGCA
* * *
33849538 T--CCCTTAACCCTTAAAGCT
1 TAACCCCTAACCCCTAAAGCA
33849557 TAACCCCTAACCCCTAAAGCA
1 TAACCCCTAACCCCTAAAGCA
33849578 TAACCCCTAA
1 TAACCCCTAA
33849588 AAAATTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 14 0.34
19 1 0.02
20 1 0.02
21 25 0.61
ACGTcount: A:0.36, C:0.40, G:0.03, T:0.21
Consensus pattern (21 bp):
TAACCCCTAACCCCTAAAGCA
Found at i:33850368 original size:7 final size:7
Alignment explanation
Indices: 33850356--33850394 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
33850346 CTAACCGTTG
33850356 AAACCCT
1 AAACCCT
33850363 AAACCCT
1 AAACCCT
*
33850370 AAACCCC
1 AAACCCT
33850377 AAATCCCT
1 AAA-CCCT
*
33850385 AACCCCT
1 AAACCCT
33850392 AAA
1 AAA
33850395 TCCCCCTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:33850373 original size:14 final size:15
Alignment explanation
Indices: 33850356--33850398 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
33850346 CTAACCGTTG
33850356 AAACCCTAAA-CCCT
1 AAACCCTAAATCCCT
*
33850370 AAACCCCAAATCCCT
1 AAACCCTAAATCCCT
*
33850385 AACCCCTAAATCCC
1 AAACCCTAAATCCC
33850399 CCTAACCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCTAAATCCCT
Found at i:33850879 original size:113 final size:113
Alignment explanation
Indices: 33850674--33850902 Score: 291
Period size: 113 Copynumber: 2.0 Consensus size: 113
33850664 TATTTTAAAT
* * *
33850674 CCCTGAGCATTAGTGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCATAGAAAACGGCGT
1 CCCTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAACATAGAAAACAGCGT
*
33850739 CGTTGGGCTTAGTTTTTCTTGCTGCGCTATCCCAAAAACGCCGCCAAA
66 CGTTGGGCTTAGTTTTTCTTGCGGCGCTATCCCAAAAACGCCGCCAAA
* * * * * *
33850787 CCCTGAGCATTAGCGGCGCTTTCTTAGAAACGCCGGTAGATCCCC-AAAATATCAGGAAACAGCG
1 CCCTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAACAT-AGAAAACAGCG
* ** * *
33850851 TCGTTGGGCTTAGGTTTTT-TTGCGGCGCTTTCTGAAAAACGCTGCTAAA
65 TCGTTGGGCTTA-GTTTTTCTTGCGGCGCTATCCCAAAAACGCCGCCAAA
33850900 CCC
1 CCC
33850903 CCAAAAAGCT
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
112 5 0.05
113 88 0.89
114 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (113 bp):
CCCTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAACATAGAAAACAGCGT
CGTTGGGCTTAGTTTTTCTTGCGGCGCTATCCCAAAAACGCCGCCAAA
Found at i:33850919 original size:73 final size:73
Alignment explanation
Indices: 33850799--33851042 Score: 321
Period size: 73 Copynumber: 3.3 Consensus size: 73
33850789 CTGAGCATTA
* * * * * *
33850799 GCGGCGCTTTCTTAGAAACGCCGGTAGATCCCCAAAATA--TCAGGAAACAGCGTCGTTGGGCTT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAACCCCCAAAA-AGCTCA-GAAACAGTGTCGTTGGGCTT
33850862 AGGTTTTTTT
64 AGGTTTTTTT
* * *
33850872 GCGGCGCTTTCTGAAAAACGCTGCTAAACCCCCAAAAAGCTCAGAAACGGTGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAACCCCCAAAAAGCTCAGAAACAGTGTCGTTGGGCTTAG
33850937 GTTTTTTT
66 GTTTTTTT
* * * *
33850945 GCAGCGCTTTCTCAAAAACACCGTTAAATCCCCCCAAAAGCTCAGAAACAGTGTCGTTGGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA-CCCCCAAAAAGCTCAGAAACAGTGTCGTTGGGCTTA
33851010 GGTTTTTTT
65 GGTTTTTTT
*
33851019 GCGGCGCTTTCTCAAAACCGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGC
33851043 AAAAGACCTG
Statistics
Matches: 149, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
72 1 0.01
73 82 0.55
74 66 0.44
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAACCCCCAAAAAGCTCAGAAACAGTGTCGTTGGGCTTAG
GTTTTTTT
Found at i:33850999 original size:74 final size:73
Alignment explanation
Indices: 33850828--33851035 Score: 308
Period size: 74 Copynumber: 2.8 Consensus size: 73
33850818 GCCGGTAGAT
** * * *
33850828 CCCCAAAATATCAGGAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTGAAAAACGC
1 CCCCAAAAGCTCA-GAAACAGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACAC
*
33850893 TGCTAAACC
65 CGCTAAACC
* * *
33850902 CCCAAAAAGCTCAGAAACGGTGTCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTCAAAAACACC
1 CCCCAAAAGCTCAGAAACAGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACACC
*
33850967 GTTAAATCC
66 GCTAAA-CC
33850976 CCCCAAAAGCTCAGAAACAGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAA
1 CCCCAAAAGCTCAGAAACAGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAA
33851036 CCGCCGCAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
73 51 0.43
74 69 0.57
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (73 bp):
CCCCAAAAGCTCAGAAACAGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACACC
GCTAAACC
Found at i:33853117 original size:63 final size:63
Alignment explanation
Indices: 33852885--33853097 Score: 340
Period size: 63 Copynumber: 3.4 Consensus size: 63
33852875 TTGTAGGCCA
* * * *
33852885 TGTAACTCACTGTTTTAGAGTTAGAGGCACACGGGCTAGAGATAC-GG-GCATATGTCCAGGTCG
1 TGTAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCATA--TCCAGGTCG
33852948 TGTAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCATATCCAGGTCG
1 TGTAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCATATCCAGGTCG
* *
33853011 TGTAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCGTATCCAAGTCG
1 TGTAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCATATCCAGGTCG
33853074 TGTAACTCACTGTTTTGGAATTAG
1 TGTAACTCACTGTTTTGGAATTAG
33853098 GGACACATGG
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
63 135 0.95
64 2 0.01
65 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (63 bp):
TGTAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCATATCCAGGTCG
Found at i:33853143 original size:63 final size:63
Alignment explanation
Indices: 33852887--33853153 Score: 245
Period size: 63 Copynumber: 4.2 Consensus size: 63
33852877 GTAGGCCATG
* * * * * * ** *
33852887 TAACTCACTGTTTTAGAGTTAGAGGCACACGGGCTAGAGATAC-GG-GCATATGTCCAGGTCGTG
1 TAACTCACTGTTTTGGAATTAGAGGCACACGGGCCAAAGACACAGGCGCGTA--TCCAACTCGTC
* * ** *
33852950 TAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCATATCCAGGTCGTG
1 TAACTCACTGTTTTGGAATTAGAGGCACACGGGCCAAAGACACAGGCGCGTATCCAACTCGTC
* * *
33853013 TAACTCACTGTTTTGGAATTAGAGGCACACGGGCTAAAGACACAGGCGCGTATCCAAGTCGTG
1 TAACTCACTGTTTTGGAATTAGAGGCACACGGGCCAAAGACACAGGCGCGTATCCAACTCGTC
* * ** * * *
33853076 TAACTCACTGTTTTGGAATTAG-GGACACATGGGCCAGAGACATGGGTGTGTGTCCAGACT-GTC
1 TAACTCACTGTTTTGGAATTAGAGG-CACACGGGCCAAAGACACAGGCGCGTATCCA-ACTCGTC
*
33853139 TAACTCACTATTTTG
1 TAACTCACTGTTTTG
33853154 AGGCACACGG
Statistics
Matches: 183, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
62 2 0.01
63 172 0.94
64 4 0.02
65 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (63 bp):
TAACTCACTGTTTTGGAATTAGAGGCACACGGGCCAAAGACACAGGCGCGTATCCAACTCGTC
Found at i:33855429 original size:21 final size:22
Alignment explanation
Indices: 33855390--33855431 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33855380 ATAAAATAGT
* *
33855390 TTTTCTTTGTAAAACTCCAAGG
1 TTTTCTTTATAAAAATCCAAGG
33855412 TTTTC-TTATAAAAATCCAAG
1 TTTTCTTTATAAAAATCCAAG
33855432 TAATTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTTCTTTATAAAAATCCAAGG
Found at i:33858257 original size:23 final size:22
Alignment explanation
Indices: 33858223--33858267 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
33858213 GCAAATTAAT
33858223 AGAAAAAGAAGAAAGAAAAGAA
1 AGAAAAAGAAGAAAGAAAAGAA
33858245 AGAAAAAGAAAGAAAGAAAAGAA
1 AGAAAAAG-AAGAAAGAAAAGAA
33858268 GGAGAACGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AGAAAAAGAAGAAAGAAAAGAA
Found at i:33858267 original size:9 final size:9
Alignment explanation
Indices: 33858231--33858263 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
33858221 ATAGAAAAAG
33858231 AAGAAAGAA
1 AAGAAAGAA
33858240 AAGAAAGAAA
1 AAGAAAG-AA
33858250 AAGAAAG-A
1 AAGAAAGAA
33858258 AAGAAA
1 AAGAAA
33858264 AGAAGGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:33858548 original size:104 final size:102
Alignment explanation
Indices: 33858407--33858608 Score: 345
Period size: 104 Copynumber: 2.0 Consensus size: 102
33858397 TTAGTATTGC
33858407 TTAAGATTTTAGATGTTGTTATTGTTGAATAGTTTTAGTATTA-GGATTAAATTTGATAGATTTT
1 TTAAGATTTTAGATGTTGTTATTGTTGAATAGTTTTAGTATTAGGGATTAAA-TTGATAGA--TT
*
33858471 TTTAAGTTAGAAATGGAAAAA-GATTAAATTGTAGAACAAA
63 TTTAAGTTAGAAAT-GAAAAAGGACTAAATTGTAGAACAAA
33858511 TTAAGATTTTAGATGTTGTTATTGTTGAATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTT
1 TTAAGATTTTAGATGTTGTTATTGTTGAATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTT
33858576 AAGTTAGAAATGAAAAAGGACTAAATTGTAGAA
66 AAGTTAGAAATGAAAAAGGACTAAATTGTAGAA
33858609 TTAATTGTTA
Statistics
Matches: 95, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
101 6 0.06
102 30 0.32
104 51 0.54
105 8 0.08
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (102 bp):
TTAAGATTTTAGATGTTGTTATTGTTGAATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTT
AAGTTAGAAATGAAAAAGGACTAAATTGTAGAACAAA
Found at i:33865193 original size:24 final size:24
Alignment explanation
Indices: 33865160--33865212 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
33865150 GGAGCTACCC
33865160 ATTATTGGCTCGTATGACCTTCCTG
1 ATTA-TGGCTCGTATGACCTTCCTG
*
33865185 ATTATGGCTCTTATGACCTTCCTG
1 ATTATGGCTCGTATGACCTTCCTG
33865209 -TTAT
1 ATTAT
33865213 ACAGCCCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (24 bp):
ATTATGGCTCGTATGACCTTCCTG
Found at i:33867643 original size:18 final size:17
Alignment explanation
Indices: 33867616--33867670 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
33867606 AGTAAATGAA
33867616 AAAGTGAATTTGATATTG
1 AAAGTGAATTTGA-ATTG
* *
33867634 AAAGTAAATTTTGAAATG
1 AAAGTGAA-TTTGAATTG
*
33867652 AAAGTGAGTTTGAATTG
1 AAAGTGAATTTGAATTG
33867669 AA
1 AA
33867671 TTGGAAACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 10 0.32
18 16 0.52
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.35
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:33867862 original size:38 final size:38
Alignment explanation
Indices: 33867760--33867896 Score: 125
Period size: 38 Copynumber: 3.6 Consensus size: 38
33867750 GACCTCGAGT
* * * *
33867760 CGATAAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGCTAG-TC
* * *
33867801 CGATGAGATACTGGGTATC-ACTTTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
* *
33867838 CGATGAGACACTGGGTGTCAACTTTTCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTCG-GCTAGTC
* *
33867876 TGATGAGGCACTGGGTGTCAA
1 CGATGAGACACTGGGTGTCAA
33867897 TCTAGTGTGT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 17 0.21
38 44 0.55
39 3 0.04
41 16 0.20
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
Found at i:33869415 original size:38 final size:38
Alignment explanation
Indices: 33869373--33869462 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
33869363 CTCCGTCCAA
33869373 CCCTACACACCATGTGAGGATTAAATCAACCCACCCAT
1 CCCTACACACCATGTGAGGATTAAATCAACCCACCCAT
*
33869411 CCCTACACACCATGTGGGGATTAAATCAACCCACCCAT
1 CCCTACACACCATGTGAGGATTAAATCAACCCACCCAT
*
33869449 CCCTACTCACCATG
1 CCCTACACACCATG
33869463 CTGTACCGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.19
Consensus pattern (38 bp):
CCCTACACACCATGTGAGGATTAAATCAACCCACCCAT
Found at i:33872637 original size:2 final size:2
Alignment explanation
Indices: 33872630--33872661 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
33872620 ATCATGTTTG
33872630 AT AT AT 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 AT AT AT
33872662 TCTCATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33875238 original size:18 final size:19
Alignment explanation
Indices: 33875207--33875245 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
33875197 AATATTATTA
33875207 AAAAATATATAAAAATTGT
1 AAAAATATATAAAAATTGT
*
33875226 AAAATTATA-AAAAATTGT
1 AAAAATATATAAAAATTGT
33875244 AA
1 AA
33875246 TTTAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAATATATAAAAATTGT
Found at i:33875247 original size:16 final size:17
Alignment explanation
Indices: 33875212--33875254 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
33875202 TATTAAAAAA
33875212 TATATAAAAATTGTAAAAT
1 TATA-AAAAATTGT-AAAT
33875231 TATAAAAAATTGT-AAT
1 TATAAAAAATTGTAAAT
33875247 T-TAAAAAA
1 TATAAAAAA
33875255 GTTTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
18 9 0.38
19 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TATAAAAAATTGTAAAT
Found at i:33875254 original size:17 final size:18
Alignment explanation
Indices: 33875217--33875254 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
33875207 AAAAATATAT
*
33875217 AAAAATTGTAAAATTATA
1 AAAAATTGTAAAATTAAA
*
33875235 AAAAATTGT-AATTTAAA
1 AAAAATTGTAAAATTAAA
33875252 AAA
1 AAA
33875255 GTTTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAATTGTAAAATTAAA
Done.