Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 192 of 318
Found at i:60352430 original size:54 final size:53
Alignment explanation
Indices: 60352280--60352438 Score: 223
Period size: 54 Copynumber: 3.0 Consensus size: 53
60352270 AGGGAGCGTC
*
60352280 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGTCACATATATCTGTT
* *
60352334 CTGGTAGCTATGCCACGATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGTCACATATATCTGTT
* *
60352388 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACT-TCGTCACA-ATATCTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTGGCTCT-GTCACATATATCTG
60352439 GCAGCCTCGC
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 15 0.16
54 79 0.83
55 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGTCACATATATCTGTT
Found at i:60352431 original size:27 final size:27
Alignment explanation
Indices: 60352280--60352438 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
60352270 AGGGAGCGTC
* *
60352280 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCACAA-TATCTGTAT
*
60352307 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
* * * *
60352334 CTGGTAGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGTCAC-AATATCTGTAT
60352361 CTGGTGGCTCTGTCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
*
60352388 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGTCACAATATCTGTAT
*
60352415 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GTCACAATATCTG
60352439 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACAATATCTGTAT
Found at i:60368948 original size:20 final size:20
Alignment explanation
Indices: 60368923--60368962 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
60368913 TATTCAAAAG
60368923 AATAAGTATACCATTTAGGC
1 AATAAGTATACCATTTAGGC
60368943 AATAAGTATACCATTTAGGC
1 AATAAGTATACCATTTAGGC
60368963 CCTTACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
AATAAGTATACCATTTAGGC
Found at i:60371453 original size:11 final size:11
Alignment explanation
Indices: 60371421--60371452 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
60371411 ATAAAAACAG
60371421 AAAATAATTTT
1 AAAATAATTTT
60371432 AAAATAATTTT
1 AAAATAATTTT
60371443 AAAAT-ATTTT
1 AAAATAATTTT
60371453 TCTGACTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:60375289 original size:21 final size:20
Alignment explanation
Indices: 60375261--60375300 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
60375251 CAAAACTTGT
60375261 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
60375281 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
60375301 AAAATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:60375819 original size:11 final size:11
Alignment explanation
Indices: 60375803--60375827 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60375793 TCATGCTGTA
60375803 AATATTAAAAT
1 AATATTAAAAT
60375814 AATATTAAAAT
1 AATATTAAAAT
60375825 AAT
1 AAT
60375828 TAATTCGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:60387344 original size:47 final size:47
Alignment explanation
Indices: 60387290--60387655 Score: 554
Period size: 47 Copynumber: 7.7 Consensus size: 47
60387280 TTAGGATTTT
* * *
60387290 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
60387337 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
60387386 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60387433 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
60387480 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60387527 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
60387574 ATGTGATGAATGTGAAATTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
60387621 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60387656 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 249 0.85
49 44 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:60387824 original size:37 final size:37
Alignment explanation
Indices: 60387774--60387918 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
60387764 CCGAGCTCTA
*
60387774 AAGACTCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
60387811 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
60387848 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
60387885 AAGACCCGATAACTTCGTGTGGAGATTACGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCG
60387919 AGCTAAAGGT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:60399145 original size:34 final size:34
Alignment explanation
Indices: 60399073--60399138 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
60399063 TGCATTCTAT
* *
60399073 ACTGTTACGGATACTGTAATGGGCTAAGGCCCAC
1 ACTGATACGGATACTGTAATGGGCTAAAGCCCAC
* *
60399107 ACTGATACTGATATTGTAATTGGG-TAAAGCCC
1 ACTGATACGGATACTGTAA-TGGGCTAAAGCCC
60399139 TAACTGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (34 bp):
ACTGATACGGATACTGTAATGGGCTAAAGCCCAC
Found at i:60409060 original size:41 final size:40
Alignment explanation
Indices: 60408993--60409114 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 40
60408983 ATGTGCAATT
* * * *
60408993 CGAGACAGCTTTGGCTATATATGGCACTTAGTGTGTGAGA
1 CGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
*
60409033 CCGAGATAGCTTTGACTATGTAAGGCACTTAGTGTGCGAGA
1 -CGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
** * *
60409074 TTATAATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGA
1 CGA-GATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
60409115 TTATAATAGC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (40 bp):
CGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
Found at i:60409115 original size:41 final size:41
Alignment explanation
Indices: 60409038--60409157 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
60409028 TGAGACCGAG
* *
60409038 ATAGCTTTGACTATGTAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
60409079 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
* * * *
60409120 ATAGCTTCAGTTATGTATTGGCACTTAGTGTGTGAGAT
1 ATAGCTTCGGCTATGTA-AGGCACTTAGTGTGCGAGAT
60409158 ATCGAGTATT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 54 0.75
42 18 0.25
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
Found at i:60419232 original size:18 final size:18
Alignment explanation
Indices: 60419204--60419267 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
60419194 GAACAATTAT
* *
60419204 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
*
60419222 TTATTCGGTAA-AATTCAG
1 TTATTCAGTAATAA-TCAG
*
60419240 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
*
60419258 TTATTTAGTA
1 TTATTCAGTA
60419268 TCAATCAACT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 34 0.92
19 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:60419310 original size:18 final size:18
Alignment explanation
Indices: 60419284--60419349 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
60419274 AACTGATCGG
*
60419284 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
*
60419302 TTATTCAGTAAAAATCAA
1 TTATTCAGTAACAATCAA
* * *
60419320 ATATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
60419339 TTATTCAGTAA
1 TTATTCAGTAA
60419350 TAGTCGATCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 27 0.69
19 12 0.31
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:60419531 original size:6 final size:6
Alignment explanation
Indices: 60419520--60419547 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
60419510 ACAAATCCAG
60419520 AACAGT AACAGT AACAGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACA
60419548 ATATCCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (6 bp):
AACAGT
Found at i:60420598 original size:20 final size:18
Alignment explanation
Indices: 60420562--60420606 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
60420552 AAACCTTCAA
60420562 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
60420580 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
60420600 -TTTCCCT
1 TTTTCCCT
60420607 GCTTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:60424857 original size:39 final size:39
Alignment explanation
Indices: 60424772--60424875 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 39
60424762 AAATCCTTGC
* * *
60424772 TATAATTATTATAATTATAA-TTTATGATCGAATATTAT
1 TATAATTATTGTAATTATAATTTTATGATCAAAAATTAT
* * *
60424810 TATAATTATTGTAATTGTAATTTTTTGGTCAAAAATTAT
1 TATAATTATTGTAATTATAATTTTATGATCAAAAATTAT
*
60424849 TATAATTATGGTAATTATAATTATTAT
1 TATAATTATTGTAATTATAATT-TTAT
60424876 ATTCAGTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 18 0.33
39 34 0.62
40 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (39 bp):
TATAATTATTGTAATTATAATTTTATGATCAAAAATTAT
Found at i:60431701 original size:28 final size:28
Alignment explanation
Indices: 60431655--60431741 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
60431645 ATGCCGTTGA
* *
60431655 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
**
60431683 ATACTCGATATCTTTCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
*
60431711 ACACTCGATATCTCGCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
60431739 ATA
1 ATA
60431742 TATAGCCGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGCC
Found at i:60431778 original size:40 final size:40
Alignment explanation
Indices: 60431723--60431819 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
60431713 ACTCGATATC
*
60431723 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
* * *
60431763 TCGCACACTAAGTGCCATATATAGCTAAAGTTATGTCGTA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
* *
60431803 TCACACACTAAATGCCA
1 TCGCACACTAAGTGCCA
60431820 CAAATAACTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
Found at i:60433411 original size:20 final size:21
Alignment explanation
Indices: 60433378--60433417 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
60433368 AGCTTAATAG
*
60433378 AGCTCAATTCAGCTTGATTCT
1 AGCTCAATTCAGCTCGATTCT
*
60433399 AGCTC-ATTGAGCTCGATTC
1 AGCTCAATTCAGCTCGATTC
60433418 CATCCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (21 bp):
AGCTCAATTCAGCTCGATTCT
Found at i:60436139 original size:40 final size:40
Alignment explanation
Indices: 60436102--60436327 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
60436092 GCTACTCGTT
* *
60436102 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
60436142 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
60436182 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
60436222 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
60436262 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
60436303 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
60436328 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:60439391 original size:27 final size:28
Alignment explanation
Indices: 60439320--60439379 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
60439310 CATACCTCTA
* *
60439320 GGGTATAATGGTCATTTCTATCCATTAG
1 GGGTAAAATGGTCATTTCTACCCATTAG
* *
60439348 GGGTAAAATAGTAATTT-TACCCATTAG
1 GGGTAAAATGGTCATTTCTACCCATTAG
60439375 GGGTA
1 GGGTA
60439380 TTTTGGTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (28 bp):
GGGTAAAATGGTCATTTCTACCCATTAG
Found at i:60440549 original size:23 final size:23
Alignment explanation
Indices: 60440506--60440549 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
60440496 TCAAGGCTCC
* *
60440506 AAGAGGGAAAAGTAGTTAAGAGT
1 AAGAGGGAAAAGAAGTAAAGAGT
60440529 AAGAGGGAGAAAGAAG-AAAGA
1 AAGAGGGA-AAAGAAGTAAAGA
60440550 AGAAAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (23 bp):
AAGAGGGAAAAGAAGTAAAGAGT
Found at i:60447205 original size:27 final size:27
Alignment explanation
Indices: 60447175--60447226 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
60447165 ATATCATAAT
60447175 ACGTGGAAAAGCCACCAGAACAGTAAA
1 ACGTGGAAAAGCCACCAGAACAGTAAA
* *
60447202 ACGTGGCAAAGCCACCAGTACAGTA
1 ACGTGGAAAAGCCACCAGAACAGTA
60447227 CTTCTTCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.23, T:0.10
Consensus pattern (27 bp):
ACGTGGAAAAGCCACCAGAACAGTAAA
Found at i:60449638 original size:15 final size:17
Alignment explanation
Indices: 60449608--60449640 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
60449598 GAGGATTTGA
60449608 AAATGAGTTAGAAAAAG
1 AAATGAGTTAGAAAAAG
60449625 AAATGAG-T-GAAAAAG
1 AAATGAGTTAGAAAAAG
60449640 A
1 A
60449641 TGCAAGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (17 bp):
AAATGAGTTAGAAAAAG
Found at i:60452126 original size:19 final size:19
Alignment explanation
Indices: 60452081--60452145 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
60452071 TAAATATTAA
* ** *
60452081 AATAAAAATAAAAATTTAG
1 AATAAAAATTAAAATAAAT
*
60452100 AATCAAAATTAAAATAAAT
1 AATAAAAATTAAAATAAAT
* * *
60452119 AATAAAAACTAGATTAAAT
1 AATAAAAATTAAAATAAAT
60452138 -ATAAAAAT
1 AATAAAAAT
60452146 ATCAATAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 7 0.19
19 29 0.81
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAAAAATTAAAATAAAT
Found at i:60452145 original size:31 final size:32
Alignment explanation
Indices: 60452070--60452155 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 32
60452060 TCAAATTATC
*
60452070 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATATTAAAATAAAAATAAAAATCTAGAA
*
60452102 TCAAA-ATTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATATTAAAATAAA-AATAAAAATCTAGAA
* **
60452132 TTAAATATAAAAATATCAATAAAA
1 TTAAATATTAAAATAAAAATAAAA
60452156 TAAGATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
30 12 0.26
31 22 0.48
32 12 0.26
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.28
Consensus pattern (32 bp):
TTAAATATTAAAATAAAAATAAAAATCTAGAA
Found at i:60462280 original size:58 final size:58
Alignment explanation
Indices: 60462216--60462332 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
60462206 AAAAAGAAAA
* *
60462216 TATTTCAGAAAGAAAAACGATGCTTTTAAATTAAACAATTATGTTTTTTTGCGACGTT
1 TATTTCAGAAAGAAAAACGACGCTTTTAAATTAAACAATTATATTTTTTTGCGACGTT
* * *
60462274 TATTTCAGAAAGGAAAACGACGCTTTTAAGTTAAACAATTATATTTTTTTGCGGCGTT
1 TATTTCAGAAAGAAAAACGACGCTTTTAAATTAAACAATTATATTTTTTTGCGACGTT
60462332 T
1 T
60462333 TTAAAAACGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (58 bp):
TATTTCAGAAAGAAAAACGACGCTTTTAAATTAAACAATTATATTTTTTTGCGACGTT
Found at i:60463336 original size:7 final size:7
Alignment explanation
Indices: 60463324--60463451 Score: 64
Period size: 7 Copynumber: 18.0 Consensus size: 7
60463314 CTAATTAATT
60463324 TAAACCC
1 TAAACCC
60463331 TAAACCTC
1 TAAACC-C
* *
60463339 TTAACCT
1 TAAACCC
* *
60463346 TTATCCC
1 TAAACCC
*
60463353 ATAAACAC
1 -TAAACCC
60463361 TAAACCC
1 TAAACCC
*
60463368 TAAACCT
1 TAAACCC
*
60463375 TTAACCC
1 TAAACCC
*
60463382 TTAACCC
1 TAAACCC
*
60463389 CAAACCC
1 TAAACCC
* *
60463396 TTACACCT
1 -TAAACCC
60463404 TAAACTCC
1 TAAAC-CC
60463412 --AACCC
1 TAAACCC
60463417 T-AACCC
1 TAAACCC
60463423 TTAAACCC
1 -TAAACCC
* *
60463431 TAAATCA
1 TAAACCC
*
60463438 TAATCCC
1 TAAACCC
60463445 TAAACCC
1 TAAACCC
60463452 ATAATTCATC
Statistics
Matches: 90, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.02
6 8 0.09
7 60 0.67
8 20 0.22
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:60463403 original size:29 final size:29
Alignment explanation
Indices: 60463324--60463404 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
60463314 CTAATTAATT
*
60463324 TAAACCCTAAACCTCTTAACCTTTATCCCA
1 TAAACCCTAAACC-CTTAACCTTTAACCCA
* *
60463354 TAAACACTAAACCCTAAACCTTTAACCC-
1 TAAACCCTAAACCCTTAACCTTTAACCCA
* *
60463382 TTAACCCCAAACCCTTACACCTT
1 TAAACCCTAAACCCTTA-ACCTT
60463405 AAACTCCAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 13 0.30
29 18 0.42
30 12 0.28
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (29 bp):
TAAACCCTAAACCCTTAACCTTTAACCCA
Found at i:60463531 original size:46 final size:46
Alignment explanation
Indices: 60463478--60463571 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
60463468 CTTCAAATAC
* *
60463478 TAGTTAACTCCTAAACCTTAAACCCTAGACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
60463524 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
60463570 TA
1 TA
60463572 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:60463573 original size:21 final size:21
Alignment explanation
Indices: 60463494--60463575 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
60463484 ACTCCTAAAC
* *
60463494 CTTAAACCCTAGACCATATAT
1 CTTAAACCATAAACCATATAT
* *
60463515 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
60463540 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
60463561 CTTAAACCATAAACC
1 CTTAAACCATAAACC
60463576 TTAAACTATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 2 0.04
25 15 0.31
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:60463586 original size:14 final size:14
Alignment explanation
Indices: 60463489--60463586 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
60463479 AGTTAACTCC
* *
60463489 TAAACCTTAAACCC
1 TAAACCATAAACCT
* * *
60463503 TAGACCATATATCT
1 TAAACCATAAACCT
*
60463517 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CT
* *
60463535 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
60463549 TAAACCATATATCT
1 TAAACCATAAACCT
60463563 TAAACCATAAACCT
1 TAAACCATAAACCT
*
60463577 TAAACTATAA
1 TAAACCATAA
60463587 TGATAATTAA
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 49 0.79
15 3 0.05
17 1 0.02
18 9 0.15
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:60463800 original size:41 final size:41
Alignment explanation
Indices: 60463743--60463992 Score: 276
Period size: 41 Copynumber: 6.1 Consensus size: 41
60463733 GTTATATGAC
*
60463743 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * * * *
60463784 TTTTAGTGGTGTTTTACCGAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* *
60463825 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
60463865 TTTTAGTGGCATTTTA-CAGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTAGT
* *
60463906 TGTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTA-T
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
** * *
60463946 TTTTAATGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTAGT
60463987 GTTTTA
1 -TTTTA
60463993 CAATTTTTGA
Statistics
Matches: 177, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 43 0.24
41 118 0.67
42 15 0.08
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
Found at i:60463906 original size:81 final size:81
Alignment explanation
Indices: 60463743--60463991 Score: 331
Period size: 81 Copynumber: 3.0 Consensus size: 81
60463733 GTTATATGAC
* * ** *
60463743 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTAGTTTTTAGTGGTGTTTTACCGAAAGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAGTGGCATTTTACAGAAAGC
*
60463808 GCCGCTAATGCCCTGGT
65 GCCGCTAATGCTCTGGT
*
60463825 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTAGTGGCATTTTACAGAAAGCG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGTGGCATTTTACAGAAAGCG
60463890 CCGCTAATGCTCTGGT
66 CCGCTAATGCTCTGGT
* * * *
60463906 TGTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAATGGCGTTTTTTACTA-AAA
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGTGGC--ATTTTAC-AGAAA
*
60463970 -CGCCGCTATTGCTCTGTGT
63 GCGCCGCTAATGCTCTG-GT
60463989 TTT
1 TTT
60463992 ACAATTTTTG
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
81 84 0.56
82 51 0.34
83 13 0.09
84 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGTGGCATTTTACAGAAAGCG
CCGCTAATGCTCTGGT
Found at i:60463974 original size:122 final size:123
Alignment explanation
Indices: 60463743--60463992 Score: 319
Period size: 122 Copynumber: 2.0 Consensus size: 123
60463733 GTTATATGAC
* * * * *
60463743 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTAGTTTTTAGTGGTGTTTTACCGAAAGC
1 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTAGTTGTTAGCGGCGTTTTACCGAAAGC
* * *
60463808 GCCGCTAATGCCCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG-G
66 GCCGCTAATGCCCTGATTTTTAACGGCGTTTTACCGAAAACGCCGCTAATGCTCTGTG
* *
60463865 TTTTAGTGGCATTTTA-CAGAAAGCGCCGCTAATGCTCTGGTTGTTAGCGGCGTTTTACCGAAAG
1 TTTTAGCGGCATTTTACCA-AAAGCGCCGCTAATGCTCTAGTTGTTAGCGGCGTTTTACCGAAAG
* * * *
60463929 CGCCGCTAATGCTCT-ATTTTTAATGGCGTTTTTTA-CTAAAACGCCGCTATTGCTCTGTG
65 CGCCGCTAATGCCCTGATTTTTAACGGCG--TTTTACCGAAAACGCCGCTAATGCTCTGTG
60463988 TTTTA
1 TTTTA
60463993 CAATTTTTGA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
121 12 0.11
122 87 0.79
123 11 0.10
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (123 bp):
TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTAGTTGTTAGCGGCGTTTTACCGAAAGC
GCCGCTAATGCCCTGATTTTTAACGGCGTTTTACCGAAAACGCCGCTAATGCTCTGTG
Found at i:60467209 original size:39 final size:40
Alignment explanation
Indices: 60467114--60467336 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
60467104 TTGAATGATG
*
60467114 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
60467152 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
60467193 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
60467232 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
60467271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
60467310 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60467337 AACGAAGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60467308 original size:79 final size:81
Alignment explanation
Indices: 60467114--60467336 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
60467104 TTGAATGATG
* * * * *
60467114 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCTGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
60467176 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
60467193 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
60467254 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
60467271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
60467335 TG
66 TG
60467337 AACGAAGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.37
79 54 0.43
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:60467350 original size:40 final size:40
Alignment explanation
Indices: 60467194--60467355 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
60467184 GATACTAATT
** *
60467194 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGA-ATGACTATA-A
** * *
60467233 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAATGACTATAA
* ** *
60467271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAATGACTATAA
* *
60467312 CCGGGCTATGTCCCGAAGGCATTTGAACGAA-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAATGA-CTATAA
60467352 CCGG
1 CCGG
60467356 TTAAATTCCG
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 44 0.41
40 61 0.56
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAATGACTATAA
Found at i:60467367 original size:79 final size:78
Alignment explanation
Indices: 60467166--60467369 Score: 202
Period size: 79 Copynumber: 2.6 Consensus size: 78
60467156 GGACTAAGAT
** * * *
60467166 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
60467230 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** *
60467244 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAG-TACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
60467308 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAG-C
* *
60467324 CCGAAGGCATTTGAACGAAG-AGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACG-AGTA-CTAAATCCGGGTTAAATCCCGAAGG
60467370 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
78 35 0.32
79 48 0.44
80 23 0.21
81 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:60475197 original size:38 final size:39
Alignment explanation
Indices: 60475088--60475303 Score: 207
Period size: 38 Copynumber: 5.6 Consensus size: 39
60475078 TTGAATGATG
* *
60475088 TCCGGGCTAAGTCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
60475125 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
**
60475166 TAAGGGCTAAGCCCGAAGGCA-TTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
60475204 TCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAA-
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
60475241 TCCGGGTTAAGTCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
60475279 AGCCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAG-CCCGAAGGCATT
60475304 GAACGAGGAG
Statistics
Matches: 152, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
37 20 0.13
38 73 0.48
39 26 0.17
40 21 0.14
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60475267 original size:76 final size:78
Alignment explanation
Indices: 60475088--60475304 Score: 241
Period size: 76 Copynumber: 2.8 Consensus size: 78
60475078 TTGAATGATG
* * *
60475088 TCCGGGCTAAGTCCGAAGGC-TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCA-TT
60475151 GTGCGAGATACTAAT
64 GTGCGAGATACTAAT
** *
60475166 TAAGGGCTAAGCCCGAAGGCATTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATTG
1 TCCGGGCTAAGTCCGAAGGCATTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCATTG
*
60475228 TGCGAGTTACTAA-
65 TGCGAGATACTAAT
* * * * *
60475241 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAATTACT-ATAGCCGGGCTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCGAAGGCA-TTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATTG
60475305 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
75 19 0.16
76 35 0.30
77 23 0.19
78 31 0.26
79 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (78 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATTGT
GCGAGATACTAAT
Found at i:60486887 original size:28 final size:28
Alignment explanation
Indices: 60486824--60486977 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
60486814 ATATTAAGTC
* *
60486824 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60486851 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
60486879 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
60486907 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
60486935 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
60486963 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60486978 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:60493172 original size:24 final size:24
Alignment explanation
Indices: 60493145--60493191 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
60493135 AAATATTTCT
**
60493145 CCCAACTGCCTTTGAATTCTAATA
1 CCCAACTGCCTTCAAATTCTAATA
60493169 CCCAACTGCCTTCAAATTCTAAT
1 CCCAACTGCCTTCAAATTCTAAT
60493192 CATTGTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (24 bp):
CCCAACTGCCTTCAAATTCTAATA
Found at i:60494188 original size:13 final size:13
Alignment explanation
Indices: 60494170--60494199 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60494160 CTGGCAATCA
60494170 TGTCACACGGCCG
1 TGTCACACGGCCG
*
60494183 TGTCACACGGTCG
1 TGTCACACGGCCG
60494196 TGTC
1 TGTC
60494200 CCTGCTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.30, T:0.23
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:60495581 original size:125 final size:125
Alignment explanation
Indices: 60495359--60495592 Score: 407
Period size: 125 Copynumber: 1.9 Consensus size: 125
60495349 ATATCACATC
* *
60495359 TTTCTCAGTGGTTTCCAGTCAACAACTGTTGAAATTTTACTTGGATCAACTTTGATAACATCAGC
1 TTTCTCAGTGGTTTCCAGTCAACAACTGTTGAAATTTTACTTGGATCAACTCTAATAACATCAGC
60495424 CGATACTATATGTCCCAGAAAACCAACTTCTCAGAGCCAAAACTTCTAACTTCAGATACA
66 CGATACTATATGTCCCAGAAAACCAACTTCTCAGAGCCAAAACTTCTAACTTCAGATACA
**
60495484 TTTCTCAGTGGTTTCCAGTC-ACAAACTGTTGAAATTTTACTTGGATCAACTCTAATGCCATCAG
1 TTTCTCAGTGGTTTCCAGTCAAC-AACTGTTGAAATTTTACTTGGATCAACTCTAATAACATCAG
*
60495548 CCGATACTATATGTCCTAGAAAACCAACTTCTCAGAGCCAAAACT
65 CCGATACTATATGTCCCAGAAAACCAACTTCTCAGAGCCAAAACT
60495593 CACATTTGCT
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
124 2 0.02
125 101 0.98
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (125 bp):
TTTCTCAGTGGTTTCCAGTCAACAACTGTTGAAATTTTACTTGGATCAACTCTAATAACATCAGC
CGATACTATATGTCCCAGAAAACCAACTTCTCAGAGCCAAAACTTCTAACTTCAGATACA
Found at i:60498786 original size:28 final size:28
Alignment explanation
Indices: 60498754--60498844 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
60498744 ACAGTGCATG
* *
60498754 CAGTAGCAGTCTGGGCCTGAGCCCTATT
1 CAGTAGCAGTCTGGGCCTAAGCCCTATA
*
60498782 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-AG--CAGTCTGGGCCTAAGCCCTATA
* * * *
60498815 CAGTAACAGTGTGAGCCTAAGCCCAATA
1 CAGTAGCAGTCTGGGCCTAAGCCCTATA
60498843 CA
1 CA
60498845 ATATCAGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 23 0.45
30 2 0.04
31 3 0.06
33 23 0.45
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGTAGCAGTCTGGGCCTAAGCCCTATA
Found at i:60498797 original size:33 final size:34
Alignment explanation
Indices: 60498754--60498824 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
60498744 ACAGTGCATG
* *
60498754 CAGTAGCAGTCTGGGCCTGAGCCCTATTCAGTAT
1 CAGTAGCAGTCTGGGCCTGAGCCCTATACAGTAA
*
60498788 CAGTA-CAGTCTGGGCCTTAGCCCTATACAGTAA
1 CAGTAGCAGTCTGGGCCTGAGCCCTATACAGTAA
60498821 CAGT
1 CAGT
60498825 GTGAGCCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 29 0.85
34 5 0.15
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (34 bp):
CAGTAGCAGTCTGGGCCTGAGCCCTATACAGTAA
Found at i:60499033 original size:27 final size:27
Alignment explanation
Indices: 60499003--60499074 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
60498993 AGCATAGCTG
*
60499003 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* * *
60499030 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
*
60499057 CCAGTAACAGTGAATGTG
1 CCAGTAACAGTAAATGTG
60499075 ACATAGTCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCAAAGCCA
Found at i:60499079 original size:27 final size:26
Alignment explanation
Indices: 60498987--60499080 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
60498977 CCAGCAATAA
* ** *
60498987 TAATGTAGCATAGCTGCCAGAAACAG
1 TAATGTGGCATAGCCACCAGTAACAG
* *
60499013 TAAATGTGGCAAAGCCACCAGTATCAG
1 T-AATGTGGCATAGCCACCAGTAACAG
60499040 TAATTGTGGCATAGCCACCAGTAACAG
1 TAA-TGTGGCATAGCCACCAGTAACAG
*
60499067 TGAATGTGACATAG
1 T-AATGTGGCATAG
60499081 TCATTAGTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.05
27 51 0.91
28 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
TAATGTGGCATAGCCACCAGTAACAG
Found at i:60499287 original size:27 final size:27
Alignment explanation
Indices: 60499257--60499323 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
60499247 GAGGTATCAC
60499257 GGTCATTTTACCCTATAGGGGCATTAT
1 GGTCATTTTACCCTATAGGGGCATTAT
*
60499284 GGTCATTTTACCCTATAGGGGTATTAT
1 GGTCATTTTACCCTATAGGGGCATTAT
*
60499311 GGTTATTTTACCC
1 GGTCATTTTACCC
60499324 ATTTTGGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTCATTTTACCCTATAGGGGCATTAT
Found at i:60521213 original size:27 final size:27
Alignment explanation
Indices: 60521083--60521213 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
60521073 ATTACCAAAG
* *
60521083 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
60521110 TACCCTCGATTTACAGAATT-GTCGTTT
1 TACCCTCGATTTATAGAATTACT-GTTT
60521137 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
60521164 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
60521191 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
60521214 AAAATACCCT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
27 91 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:60521221 original size:27 final size:27
Alignment explanation
Indices: 60521191--60521521 Score: 215
Period size: 27 Copynumber: 12.2 Consensus size: 27
60521181 ATTACTGTTT
* *
60521191 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
60521218 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
**
60521245 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * * *
60521272 AACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
60521298 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
60521325 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
60521352 TACCGCTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
60521379 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
60521406 TACCC-CTGATTTATAAAATTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
* * **
60521433 TACCCTTGACTTTCTAAAAATTATAAAAA
1 TACCCTCGA-TTTAT-AAAATTACCAAAA
* * * * **
60521462 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * * *
60521489 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
60521516 CACCCT
1 TACCCT
60521522 TGTAGGGTGA
Statistics
Matches: 243, Mismatches: 49, Indels: 24
0.77 0.16 0.08
Matches are distributed among these distances:
26 25 0.10
27 192 0.79
28 8 0.03
29 17 0.07
30 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:60521222 original size:54 final size:55
Alignment explanation
Indices: 60521110--60521239 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 55
60521100 ATTACCGTTT
* * * * ****
60521110 TACCCTCGATTTACAGAATT-GTCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTCGTTTTACCCTCGATTTACAAAATTACTAAAA
*
60521164 TACCCTTGATTTATAGAATTACT-GTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
60521218 TACCCTTGGTTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
60521240 CAAAATACCC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
54 62 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (55 bp):
TACCCTTGATTTACAGAATTACTCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:60521238 original size:81 final size:81
Alignment explanation
Indices: 60521090--60521239 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
60521080 AAGTACCATC
* * ** * *
60521090 GATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTGTCGTTTTACCCTCGATTTATAGAA
1 GATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTGACGTAATACCCTCGATTTACAAAA
60521155 TTACTGTTTTACCCTT
66 TTACTGTTTTACCCTT
* * *
60521171 GATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATT-AC-TAAAATACCCTTGGTTTACAA
1 GATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTGACGT--AATACCCTCGATTTACAA
60521234 AATTAC
64 AATTAC
60521240 CAAAATACCC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
79 1 0.02
80 1 0.02
81 56 0.97
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (81 bp):
GATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTGACGTAATACCCTCGATTTACAAAA
TTACTGTTTTACCCTT
Found at i:60521249 original size:54 final size:54
Alignment explanation
Indices: 60521191--60521521 Score: 249
Period size: 54 Copynumber: 6.1 Consensus size: 54
60521181 ATTACTGTTT
* * * *
60521191 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
** * * * *
60521245 TACCCTCGATCAATAAAATTACCAAAAAACCC-TAGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * *
60521298 TACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * * * *
60521352 TACCGCTAG-TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * **
60521406 TACCC-CTGATTTATAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTATAAAAA
1 TACCCTC-GATTTATAAAATTACCA-AAATACCCTT-AGTTTAT-AAAATTACCAAAA
* * * * ** * * * *
60521462 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
*
60521516 CACCCT
1 TACCCT
60521522 TGTAGGGTGA
Statistics
Matches: 217, Mismatches: 49, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
52 1 0.00
53 44 0.20
54 124 0.57
55 11 0.05
56 37 0.17
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
Found at i:60521249 original size:81 final size:81
Alignment explanation
Indices: 60521070--60521254 Score: 185
Period size: 81 Copynumber: 2.3 Consensus size: 81
60521060 CTCAACTTGT
* * * *
60521070 AAAATTACCAAAGTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTGTCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTGACGT
** *
60521135 TTTACCCTCGATTTAT
66 AATACCCTCGATTTAC
* ***** * *
60521151 AGAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATT-AC-T
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTGACGT
* *
60521214 AAAATACCCTTGGTTTAC
66 --AATACCCTCGATTTAC
60521232 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAATACCCTCGAT
60521255 CAATAAAATT
Statistics
Matches: 79, Mismatches: 23, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 77 0.97
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTGACGT
AATACCCTCGATTTAC
Found at i:60522464 original size:25 final size:25
Alignment explanation
Indices: 60522426--60522519 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
60522416 AGGAAGTGCT
* *
60522426 AAAAGGGGTATGCCCCAGTTTACCC
1 AAAAGGGCTTTGCCCCAGTTTACCC
*
60522451 AAAAGGGCTTTGCCCCAGTTTACCT
1 AAAAGGGCTTTGCCCCAGTTTACCC
*
60522476 AAAAGGGCTTTGCCCCAGTTTA-TC
1 AAAAGGGCTTTGCCCCAGTTTACCC
60522500 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
60522520 AATAAAAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 20 0.31
25 44 0.69
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCC
Found at i:60522532 original size:24 final size:23
Alignment explanation
Indices: 60522451--60522532 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 23
60522441 CAGTTTACCC
*
60522451 AAAAGGGCTTTGCCCCAGTTTACCT
1 AAAAGGGCTTTGCCCCAG-TTA-AT
*
60522476 AAAAGGGCTTTGCCCCAGTTTAT
1 AAAAGGGCTTTGCCCCAGTTAAT
60522499 CAAAAGGGCTTTGCCCCAGTTAAT
1 -AAAAGGGCTTTGCCCCAGTTAAT
60522523 AAAAGAGGCT
1 AAAAG-GGCT
60522533 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 6 0.12
24 28 0.54
25 18 0.35
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTAAT
Found at i:60522773 original size:31 final size:31
Alignment explanation
Indices: 60522738--60522878 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
60522728 CGTTTATAGT
* *
60522738 AAAGGCTTCGGCCCAATGATATGATTTGTGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
60522769 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
60522800 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
60522831 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
60522862 AAAGGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
60522879 AATCGTTAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:60524144 original size:30 final size:30
Alignment explanation
Indices: 60523986--60524180 Score: 180
Period size: 30 Copynumber: 6.5 Consensus size: 30
60523976 ATGGTTGACA
* * * *
60523986 CATCCCTTTTCTTA-ATTCGATAACCAAAGT
1 CATCCCTTTTCATAGATT-GATAGCCGAAGC
* * *
60524016 TATCCCTTTTCATAG-TTCGACAGCCAAAGC
1 CATCCCTTTTCATAGATT-GATAGCCGAAGC
* **
60524046 TATCCCTTTTCATA-ATCTGATAGCCGAAAA
1 CATCCCTTTTCATAGAT-TGATAGCCGAAGC
* * * * *
60524076 TATCTCTTTTCATAAATTGATAGCCTAAGT
1 CATCCCTTTTCATAGATTGATAGCCGAAGC
*
60524106 CATTCCTTTTCATAGATTGATAGCCGAAGC
1 CATCCCTTTTCATAGATTGATAGCCGAAGC
* *
60524136 CATCCCTTTTCATAGTTTGATAGTCGAAGC
1 CATCCCTTTTCATAGATTGATAGCCGAAGC
60524166 CATCCCTTTTCATAG
1 CATCCCTTTTCATAG
60524181 TTCGGTGGTT
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
30 136 0.98
31 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (30 bp):
CATCCCTTTTCATAGATTGATAGCCGAAGC
Found at i:60524175 original size:90 final size:91
Alignment explanation
Indices: 60523985--60524179 Score: 225
Period size: 90 Copynumber: 2.2 Consensus size: 91
60523975 GATGGTTGAC
* * *
60523985 ACATCCCTTTTC-TTAATTCGATAACCAAAGTTATCCCTTTTCATAGTTCGACAGCCAAAGCTAT
1 ACATCCCTTTTCATAAATTCGATAACCAAAGTCATCCCTTTTCATAGTTCGACAGCCAAAGCCAT
60524049 CCCTTTTCATAATCTGATAGCCGAAA
66 CCCTTTTCATAATCTGATAGCCGAAA
* * * * * * *
60524075 ATATCTCTTTTCATAAATT-GATAGCCTAAGTCATTCCTTTTCATAGATT-GATAGCCGAAGCCA
1 ACATCCCTTTTCATAAATTCGATAACCAAAGTCATCCCTTTTCATAG-TTCGACAGCCAAAGCCA
* * * *
60524138 TCCCTTTTCATAGTTTGATAGTCGAAG
65 TCCCTTTTCATAATCTGATAGCCGAAA
*
60524165 CCATCCCTTTTCATA
1 ACATCCCTTTTCATA
60524180 GTTCGGTGGT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
90 79 0.92
91 7 0.08
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (91 bp):
ACATCCCTTTTCATAAATTCGATAACCAAAGTCATCCCTTTTCATAGTTCGACAGCCAAAGCCAT
CCCTTTTCATAATCTGATAGCCGAAA
Found at i:60524199 original size:30 final size:30
Alignment explanation
Indices: 60524135--60524239 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
60524125 ATAGCCGAAG
* * *
60524135 CCATCCCTTTTCATAGTTTGATAGTCG-AA
1 CCATCCCTTTTCATAGTTCGATGGTCGTCA
* *
60524164 GCCATCCCTTTTCATAGTTCGGTGGTTGTCA
1 -CCATCCCTTTTCATAGTTCGATGGTCGTCA
* *
60524195 CCATCCTTTTTCATAGTTTGATGGTCGTCA
1 CCATCCCTTTTCATAGTTCGATGGTCGTCA
*
60524225 CCATCCCTTTACATA
1 CCATCCCTTTTCATA
60524240 ATCAATATCC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCGATGGTCGTCA
Found at i:60525913 original size:25 final size:25
Alignment explanation
Indices: 60525885--60525967 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
60525875 TCATTAGGGA
60525885 TTACCAATTCTCAGCTCATATAAGC
1 TTACCAATTCTCAGCTCATATAAGC
** * *
60525910 TTACTGATT-GCAGCTCATGA-GAGC
1 TTACCAATTCTCAGCTCAT-ATAAGC
* *
60525934 TTACCGATTCTCAGCTCGTATAAGC
1 TTACCAATTCTCAGCTCATATAAGC
60525959 TTACCAATT
1 TTACCAATT
60525968 TACAGGTCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 20 0.43
25 26 0.57
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (25 bp):
TTACCAATTCTCAGCTCATATAAGC
Found at i:60528080 original size:22 final size:23
Alignment explanation
Indices: 60528055--60528102 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
60528045 TTTAAACATT
*
60528055 CATAATTC-GTACAATCACATAA
1 CATAATTCAATACAATCACATAA
*
60528077 CAT-ATTCAATACAATCATATAA
1 CATAATTCAATACAATCACATAA
60528099 -ATAA
1 CATAA
60528103 ACACAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (23 bp):
CATAATTCAATACAATCACATAA
Found at i:60529616 original size:25 final size:24
Alignment explanation
Indices: 60529562--60529620 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
60529552 TTGGCTAATG
*
60529562 TTGGCCTATATGTTTTGTTGTAGTT
1 TTGGCC-ATATGATTTGTTGTAGTT
*
60529587 GTGGCCATATGATTTGACTTGT-GTT
1 TTGGCCATATGATTTG--TTGTAGTT
60529612 TTGG-CATAT
1 TTGGCCATAT
60529621 TTTGGTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 14 0.48
25 11 0.38
26 4 0.14
ACGTcount: A:0.15, C:0.10, G:0.25, T:0.49
Consensus pattern (24 bp):
TTGGCCATATGATTTGTTGTAGTT
Found at i:60563651 original size:17 final size:19
Alignment explanation
Indices: 60563614--60563652 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
60563604 AGTTAAGTCC
*
60563614 GAGATTCATCAGGTCGTAT
1 GAGATTCATCAAGTCGTAT
60563633 GAGATT-ATCAAGT-GTAT
1 GAGATTCATCAAGTCGTAT
60563650 GAG
1 GAG
60563653 TCGGTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (19 bp):
GAGATTCATCAAGTCGTAT
Found at i:60567284 original size:12 final size:12
Alignment explanation
Indices: 60567267--60567308 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
60567257 TATATTATTA
60567267 TTACTTACTTAT
1 TTACTTACTTAT
** *
60567279 TTACTTTTTTCT
1 TTACTTACTTAT
60567291 TTACTTACTTAT
1 TTACTTACTTAT
60567303 TTACTT
1 TTACTT
60567309 TTTTCTTCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (12 bp):
TTACTTACTTAT
Found at i:60567321 original size:24 final size:24
Alignment explanation
Indices: 60567267--60567315 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
60567257 TATATTATTA
60567267 TTACTTACTTATTTACTTTTTTCT
1 TTACTTACTTATTTACTTTTTTCT
60567291 TTACTTACTTATTTACTTTTTTCT
1 TTACTTACTTATTTACTTTTTTCT
60567315 T
1 T
60567316 CTCTTAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (24 bp):
TTACTTACTTATTTACTTTTTTCT
Found at i:60577404 original size:19 final size:19
Alignment explanation
Indices: 60577377--60577415 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60577367 TTGTTTTCCT
60577377 CACCACCATAGTAGAACCA
1 CACCACCATAGTAGAACCA
* *
60577396 CACCCCCATAGTTGAACCA
1 CACCACCATAGTAGAACCA
60577415 C
1 C
60577416 GCCCGAGCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.41, G:0.10, T:0.13
Consensus pattern (19 bp):
CACCACCATAGTAGAACCA
Found at i:60581327 original size:27 final size:27
Alignment explanation
Indices: 60581296--60581473 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
60581286 TAAATTGTAC
*
60581296 AGCACTAAGTGTGGGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60581323 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60581349 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60581377 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60581405 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60581432 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60581459 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60581474 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60581410 original size:82 final size:81
Alignment explanation
Indices: 60581297--60581452 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
60581287 AAATTGTACA
* * *
60581297 GCACTAAGTGTGGGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60581361 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60581378 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60581443 TGCGAGTTGA
65 TGCGAATTGA
60581453 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60581464 original size:82 final size:81
Alignment explanation
Indices: 60581293--60581473 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
60581283 GATTAAATTG
* * *
60581293 TACAGCACTAAGTGTGGGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60581358 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60581374 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60581438 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60581456 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60581474 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60589507 original size:27 final size:27
Alignment explanation
Indices: 60589476--60589652 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
60589466 TAAATTGTAC
60589476 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60589503 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60589529 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60589557 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60589585 AGCACTAAG-GTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60589611 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60589638 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60589653 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 18 0.14
27 93 0.73
28 16 0.13
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60589598 original size:81 final size:81
Alignment explanation
Indices: 60589477--60589631 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
60589467 AAATTGTACA
* *
60589477 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60589541 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60589558 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG-GTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60589622 TGCGAGTTGA
65 TGCGAATTGA
60589632 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 46 0.70
82 20 0.30
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60589643 original size:81 final size:81
Alignment explanation
Indices: 60589473--60589652 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
60589463 GATTAAATTG
* *
60589473 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60589538 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60589554 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG-GTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60589617 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60589635 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60589653 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 63 0.76
82 19 0.23
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60591259 original size:19 final size:20
Alignment explanation
Indices: 60591123--60591419 Score: 224
Period size: 20 Copynumber: 15.1 Consensus size: 20
60591113 TATGTGAATT
** **
60591123 TACTTTGGTATGCCTGTACG
1 TACTTTGGTACCCCTGTTTG
* *
60591143 TACTTCGGTACCCCTATTTG
1 TACTTTGGTACCCCTGTTTG
* * ** *
60591163 TACTTCGATACCTTTATTTG
1 TACTTTGGTACCCCTGTTTG
** * *
60591183 TACTTCAGTAGCCTTGTTTG
1 TACTTTGGTACCCCTGTTTG
* * *
60591203 TACTTCGGT---CATGTATG
1 TACTTTGGTACCCCTGTTTG
60591220 TACTTTGGTACCCCTGTTTG
1 TACTTTGGTACCCCTGTTTG
* *
60591240 TTCTTTGGTACGCC-GTTTG
1 TACTTTGGTACCCCTGTTTG
* * * *
60591259 TACTTCGGTACTCTTGTATG
1 TACTTTGGTACCCCTGTTTG
*
60591279 TACTTTGGTACCCCTGCTTG
1 TACTTTGGTACCCCTGTTTG
* * * * *
60591299 TACTTCGATACTCTTGTATG
1 TACTTTGGTACCCCTGTTTG
* *
60591319 CACTTTGGTACCCCTGTTTA
1 TACTTTGGTACCCCTGTTTG
* * *
60591339 TATTTTGGTACTCCTGTATG
1 TACTTTGGTACCCCTGTTTG
60591359 TACTTTGGTACCCCTGTTTG
1 TACTTTGGTACCCCTGTTTG
*
60591379 TACTTTGGTACTCCTGTTTG
1 TACTTTGGTACCCCTGTTTG
**
60591399 TACTTCAGTACCCCTGTTTG
1 TACTTTGGTACCCCTGTTTG
60591419 T
1 T
60591420 CCATTCGTGC
Statistics
Matches: 216, Mismatches: 57, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
17 14 0.06
19 15 0.07
20 187 0.87
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (20 bp):
TACTTTGGTACCCCTGTTTG
Found at i:60591436 original size:80 final size:79
Alignment explanation
Indices: 60591218--60591454 Score: 228
Period size: 80 Copynumber: 3.0 Consensus size: 79
60591208 CGGTCATGTA
* * *
60591218 TGTACTTTGGTACCCCTGTTTGTTCTTTGGTACGCC-GTTTGTACTTCG-GTACTCTTGTATGTA
1 TGTACTTTGGTACTCCTGTTTGTACTTTGGTACCCCTGTTTGTACTTCGTG-ACTC-TGTATGTA
60591281 CTTTGGTACCCCTGCT
64 CTTTGGTACCCCTGCT
* * * * * * * *
60591297 TGTACTTCGATACTCTTGTATGCACTTTGGTACCCCTGTTTATATTTTG-GTACTCCTGTATGTA
1 TGTACTTTGGTACTCCTGTTTGTACTTTGGTACCCCTGTTTGTACTTCGTG-ACT-CTGTATGTA
*
60591361 CTTTGGTACCCCTGTT
64 CTTTGGTACCCCTGCT
** * * * *
60591377 TGTACTTTGGTACTCCTGTTTGTACTTCAGTACCCCTGTTTGTCCATTCGTGCCTCTGTAAGCAC
1 TGTACTTTGGTACTCCTGTTTGTACTTTGGTACCCCTGTTTGTAC-TTCGTGACTCTGTATGTAC
* *
60591442 TATGGTGCCCCTG
65 TTTGGTACCCCTG
60591455 AATGTACACC
Statistics
Matches: 126, Mismatches: 28, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
79 28 0.22
80 91 0.72
81 6 0.05
82 1 0.01
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.43
Consensus pattern (79 bp):
TGTACTTTGGTACTCCTGTTTGTACTTTGGTACCCCTGTTTGTACTTCGTGACTCTGTATGTACT
TTGGTACCCCTGCT
Found at i:60598445 original size:98 final size:98
Alignment explanation
Indices: 60598276--60598473 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
60598266 TTATCGTTGG
60598276 TGGAATACTATTAAGAAAGGTACTACTACTGATCATTTGACTTGGGGATATTTTCTTGAGGTTTT
1 TGGAATACTATTAAGAAAGGTACTACTACTGATCATTTGACTTGGGGATATTTTCTTGAGGTTTT
60598341 TAAGAGAAAGTTTATGGGCGAGCACCATATGGA
66 TAAGAGAAAGTTTATGGGCGAGCACCATATGGA
*
60598374 TGGAATACTATTAAGAGAGGTACTACTACTGATCATTTGACTTGGGGATATTTTCTTGAGGTTTT
1 TGGAATACTATTAAGAAAGGTACTACTACTGATCATTTGACTTGGGGATATTTTCTTGAGGTTTT
*
60598439 TAAGAGAAAGTTTATGGGCGAGCACTATATGGA
66 TAAGAGAAAGTTTATGGGCGAGCACCATATGGA
60598472 TG
1 TG
60598474 TAACAGCCCT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (98 bp):
TGGAATACTATTAAGAAAGGTACTACTACTGATCATTTGACTTGGGGATATTTTCTTGAGGTTTT
TAAGAGAAAGTTTATGGGCGAGCACCATATGGA
Found at i:60601853 original size:18 final size:18
Alignment explanation
Indices: 60601830--60601872 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
60601820 TGTGTGCATT
60601830 GTGAGTGTAAAAATTCTA
1 GTGAGTGTAAAAATTCTA
**
60601848 GTGAGTGTAGGAATTCTA
1 GTGAGTGTAAAAATTCTA
60601866 GTGAGTG
1 GTGAGTG
60601873 CCATTAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.33
Consensus pattern (18 bp):
GTGAGTGTAAAAATTCTA
Found at i:60604702 original size:27 final size:27
Alignment explanation
Indices: 60604667--60604809 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
60604657 CCAATATAGA
* * *
60604667 TAAAATGACCCTAATACCCCTATAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
*
60604694 TAAAATGACCGTAATGTCCCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
*
60604721 TAAAATGACCGTAATGCCCTTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* *
60604748 TAAAATAACCGTAATGCCCCTGTATGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* * * *
60604775 TAAAATGACCTTAATACCCCTATATGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
60604802 TAAAATGA
1 TAAAATGA
60604810 TGATTATGGC
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
TAAAATGACCGTAATGCCCCTGTAGGG
Found at i:60605029 original size:27 final size:26
Alignment explanation
Indices: 60604945--60605028 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
60604935 ATAAAGGAAG
* *
60604945 TACTATACTGGTGACTATGTCACATT
1 TACTATACTGGTGGCTATGCCACATT
* * *
60604971 CACTATTATTGGTGGCTATGCCACAAT
1 TACTA-TACTGGTGGCTATGCCACATT
*
60604998 TACTGATACTGGTGGCTTTGCCACATT
1 TACT-ATACTGGTGGCTATGCCACATT
60605025 TACT
1 TACT
60605029 GTTTCTGGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.09
27 42 0.89
28 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (26 bp):
TACTATACTGGTGGCTATGCCACATT
Found at i:60609080 original size:18 final size:18
Alignment explanation
Indices: 60609057--60609095 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
60609047 AGCCTAAGGA
60609057 CAATGGCAAGGCCAAGCC
1 CAATGGCAAGGCCAAGCC
*
60609075 CAATGGTAAGGCCAAGCC
1 CAATGGCAAGGCCAAGCC
60609093 CAA
1 CAA
60609096 CAAAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.26, T:0.08
Consensus pattern (18 bp):
CAATGGCAAGGCCAAGCC
Found at i:60613520 original size:138 final size:138
Alignment explanation
Indices: 60613370--60613927 Score: 877
Period size: 138 Copynumber: 4.1 Consensus size: 138
60613360 GAGAACATGG
60613370 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
*
60613435 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
60613500 TGAAAAGA
131 TGAAAAGA
** * *
60613508 ATATAATTAATATATGAATTTGATTTTTATAAAATATTAATTATATATATTTTACTGAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
** *
60613573 AATATGGACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
60613638 TGAAAATA
131 TGAAAAGA
* * * **
60613646 TTATAATTAAT-TTTGAATTTGATTCATACAAAATATTAATT-TTTATATTTTACCAAATTAATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
* * * * *
60613709 AATGTAAACAGTTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
60613774 TGGAAAGA
131 TGAAAAGA
* * *
60613782 ATATAATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTATTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
*
60613847 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAGTTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
60613912 TGGAAAGA
131 TGAAAAGA
60613920 ATATAATT
1 ATATAATT
60613928 CATTTTTCTA
Statistics
Matches: 379, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
136 94 0.25
137 54 0.14
138 231 0.61
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGAAAAGA
Found at i:60613906 original size:274 final size:275
Alignment explanation
Indices: 60613370--60613933 Score: 916
Period size: 274 Copynumber: 2.1 Consensus size: 275
60613360 GAGAACATGG
* **
60613370 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTAATT
1 ATATAATTAAT-TTTGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTAATT
*
60613435 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
65 AATATAAACAATTATAATAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
* *
60613500 TGAAAAGAATATAATTAATATATGAATTTGATTTTTATAAAATATTAATTATATATATTTTACTG
130 TGAAAAGAATATAATTAATATATGAATTTGATTTATACAAAATATTAATTATATATATTTTACTG
**
60613565 AATTAATTAATATGGACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAA
195 AATTAATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAA
*
60613630 TATTCTTTTGAAAATA
260 TATTCTTTTGAAAAGA
* *
60613646 TTATAATTAATTTTGAATTTGATTCATACAAAATATTAATT-TTTATATTTTACCAAATTAATTA
1 ATATAATTAATTTTGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTAATTA
* * *
60613710 ATGTAAACAGTTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
66 ATATAAACAATTATAATAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTT
* * *
60613775 GGAAAGAATATAATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTATTGA
131 GAAAAGAATATAATTAATATATGAATTTGATTTATACAAAATATTAATTATATATATTTTACTGA
*
60613840 ATTTATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACAT-GAAAGTTAA
196 ATTAATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAA-TTAA
*
60613904 TATTCTTTTGGAAAGA
260 TATTCTTTTGAAAAGA
*
60613920 ATATAATTCATTTT
1 ATATAATTAATTTT
60613934 TCTAACTTTC
Statistics
Matches: 266, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
273 4 0.02
274 223 0.84
275 29 0.11
276 10 0.04
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (275 bp):
ATATAATTAATTTTGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTAATTA
ATATAAACAATTATAATAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTT
GAAAAGAATATAATTAATATATGAATTTGATTTATACAAAATATTAATTATATATATTTTACTGA
ATTAATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAAT
ATTCTTTTGAAAAGA
Found at i:60615337 original size:24 final size:24
Alignment explanation
Indices: 60615310--60615358 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
60615300 AATTCATGAA
60615310 GATAAAGTTTATATTAGCATATAT
1 GATAAAGTTTATATTAGCATATAT
60615334 GATAAAGTTTATATTAGCATATAT
1 GATAAAGTTTATATTAGCATATAT
60615358 G
1 G
60615359 TTGCATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (24 bp):
GATAAAGTTTATATTAGCATATAT
Found at i:60615494 original size:77 final size:78
Alignment explanation
Indices: 60615334--60615510 Score: 234
Period size: 77 Copynumber: 2.3 Consensus size: 78
60615324 TAGCATATAT
* * * * *
60615334 GATAAAGTTTATATTAGCATATATGTTGCATATTTTAAATTTTTCAAAATTTATATATTTCCGAG
1 GATAAAATTTATATTAACATTTATATTGCATATTTTAAATTTTTCAAAATTTATATATTTCCGAA
60615399 TTTAACTTGTGAA
66 TTTAACTTGTGAA
**
60615412 GATAAAATTTATATTAACATTTATATTGCATATTTT-AATTTTT-ATTTATTTATATATTTTCC-
1 GATAAAATTTATATTAACATTTATATTGCATATTTTAAATTTTTCA-AAATTTATATA-TTTCCG
*
60615474 AATTTATCTTGTGAA
64 AATTTAACTTGTGAA
*
60615489 GATAAAATTTATATTGACATTT
1 GATAAAATTTATATTAACATTT
60615511 TCACATTGGT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
76 1 0.01
77 50 0.57
78 37 0.42
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (78 bp):
GATAAAATTTATATTAACATTTATATTGCATATTTTAAATTTTTCAAAATTTATATATTTCCGAA
TTTAACTTGTGAA
Found at i:60615529 original size:77 final size:77
Alignment explanation
Indices: 60615334--60615531 Score: 206
Period size: 77 Copynumber: 2.6 Consensus size: 77
60615324 TAGCATATAT
* * * ** **
60615334 GATAAAGTTTATATTAGCATATATGTTGCATATTTTAAATTTTTCA-AAATTTATATATTTCCGA
1 GATAAAATTTATATTAACATTTACATTGCATA-TTTAAATTTTT-ATTTATTTATATATTTCCGA
*
60615398 GTTTAACTTGTGAA
64 ATTTAACTTGTGAA
* *
60615412 GATAAAATTTATATTAACATTTATATTGCATATTTTAATTTTTATTTATTTATATATTTTCC-AA
1 GATAAAATTTATATTAACATTTACATTGCATATTTAAATTTTTATTTATTTATATA-TTTCCGAA
*
60615476 TTTATCTTGTGAA
65 TTTAACTTGTGAA
* *
60615489 GATAAAATTTATATTGACATTTTCACATTG-GT-TTTAAATTTTT
1 GATAAAATTTATATTAACA-TTT-ACATTGCATATTTAAATTTTT
60615532 TCTTTATCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
76 1 0.01
77 60 0.58
78 37 0.36
79 5 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.51
Consensus pattern (77 bp):
GATAAAATTTATATTAACATTTACATTGCATATTTAAATTTTTATTTATTTATATATTTCCGAAT
TTAACTTGTGAA
Found at i:60615624 original size:59 final size:58
Alignment explanation
Indices: 60615528--60615664 Score: 152
Period size: 59 Copynumber: 2.3 Consensus size: 58
60615518 GGTTTTAAAT
* * * * * *
60615528 TTTTTCTTTATCCAAGATAATCTTTAAACTTGATAATTGTTCTTATTTTAGGGCTTCAA
1 TTTTT-TTTATTCAAGTTAGTCTTTAAACTTGATAATTGTTCTCATATTAGGACTTCAA
* * *
60615587 GTTTTTTTTATTCAAGTTAGTCTTTGAACTT-AGTAATTGTTCTCATATTAGGATTTGAA
1 -TTTTTTTTATTCAAGTTAGTCTTTAAACTTGA-TAATTGTTCTCATATTAGGACTTCAA
60615646 -TTTTTTTATTCAAGTTAGT
1 TTTTTTTTATTCAAGTTAGT
60615665 TCATGATATT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
57 19 0.28
58 1 0.01
59 42 0.63
60 5 0.07
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (58 bp):
TTTTTTTTATTCAAGTTAGTCTTTAAACTTGATAATTGTTCTCATATTAGGACTTCAA
Found at i:60618532 original size:22 final size:24
Alignment explanation
Indices: 60618489--60618532 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
60618479 TGATAATATG
60618489 TTTTGATATAATAAATTAAAATGT
1 TTTTGATATAATAAATTAAAATGT
*
60618513 TTTTGA-ATAA-AAGTTAAAAT
1 TTTTGATATAATAAATTAAAAT
60618533 TAAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAATGT
Found at i:60618670 original size:20 final size:20
Alignment explanation
Indices: 60618624--60618672 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
60618614 TTTTGAATCA
60618624 ACTTTATAATCAAGTCAAAAT
1 ACTTT-TAATCAAGTCAAAAT
*
60618645 AATTTTAATCAAGT-AAGAAT
1 ACTTTTAATCAAGTCAA-AAT
*
60618665 TCTTTTAA
1 ACTTTTAA
60618673 GTTGAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (20 bp):
ACTTTTAATCAAGTCAAAAT
Found at i:60624424 original size:158 final size:158
Alignment explanation
Indices: 60624136--60624454 Score: 593
Period size: 158 Copynumber: 2.0 Consensus size: 158
60624126 CCAAACTTAA
* *
60624136 TATTCATGATCGTGTTCCCCATTTGATTATCACTTGGAATTGGCGTTCTATCAAGAAACATGTCT
1 TATTCATGATCGTGTTCCCCATTTGATTATCACTTGGAATTGACGTCCTATCAAGAAACATGTCT
*
60624201 AGCTTTACAACACTGATTATTGGTGGCTTGATTCTATCCATTCTGATAGGTTTCTGACCTAGCCC
66 AGCTTTACAACACTGATTATTGGTGGCTTGATTCTATCCATTCTGATAGGTGTCTGACCTAGCCC
60624266 TTATTATGTTCAATAACATTAATAAGAC
131 TTATTATGTTCAATAACATTAATAAGAC
*
60624294 TATTCATGATCGTGTTCTCCATTTGATTATCACTTGGAATTGACGTCCTATCAAGAAACATGTCT
1 TATTCATGATCGTGTTCCCCATTTGATTATCACTTGGAATTGACGTCCTATCAAGAAACATGTCT
*
60624359 AGCTTTACAATACTGATTATTGGTGGCTTGATTCTATCCATTCTGATAGGTGTCTGACCTAGCCC
66 AGCTTTACAACACTGATTATTGGTGGCTTGATTCTATCCATTCTGATAGGTGTCTGACCTAGCCC
60624424 TTATTATGTTCAATAACATTAATAAGAC
131 TTATTATGTTCAATAACATTAATAAGAC
60624452 TAT
1 TAT
60624455 CAGGAGGGCA
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 156 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (158 bp):
TATTCATGATCGTGTTCCCCATTTGATTATCACTTGGAATTGACGTCCTATCAAGAAACATGTCT
AGCTTTACAACACTGATTATTGGTGGCTTGATTCTATCCATTCTGATAGGTGTCTGACCTAGCCC
TTATTATGTTCAATAACATTAATAAGAC
Found at i:60625279 original size:18 final size:18
Alignment explanation
Indices: 60625258--60625294 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60625248 GTAAAAATGA
60625258 ATGTCAAATTTTGAATTT
1 ATGTCAAATTTTGAATTT
* *
60625276 ATGTCAATTTTTTAATTT
1 ATGTCAAATTTTGAATTT
60625294 A
1 A
60625295 GGCCTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (18 bp):
ATGTCAAATTTTGAATTT
Found at i:60625454 original size:22 final size:24
Alignment explanation
Indices: 60625413--60625457 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
60625403 TTGATAATAT
60625413 TTTTTGATATAAAAAATTAAAATG
1 TTTTTGATATAAAAAATTAAAATG
*
60625437 TTTTTGA-AT-AAAAGTTAAAAT
1 TTTTTGATATAAAAAATTAAAAT
60625458 TGAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 2 0.10
24 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (24 bp):
TTTTTGATATAAAAAATTAAAATG
Found at i:60627087 original size:24 final size:25
Alignment explanation
Indices: 60627033--60627087 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
60627023 GTAACTTTAT
* *
60627033 GTATTTATTTTTAAAATTTACTAAA
1 GTATATATTTTTAAAATTTACAAAA
*
60627058 -TAATATATTTTTATAATTT-CAAAA
1 GT-ATATATTTTTAAAATTTACAAAA
60627082 GTATAT
1 GTATAT
60627088 GCTAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (25 bp):
GTATATATTTTTAAAATTTACAAAA
Found at i:60627691 original size:18 final size:18
Alignment explanation
Indices: 60627657--60627692 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60627647 TTATTAAAAC
*
60627657 AATTATAATAATGATTAT
1 AATTATAATAATAATTAT
*
60627675 AATTATAATCATAATTAT
1 AATTATAATAATAATTAT
60627693 TATATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATTATAATAATAATTAT
Found at i:60629970 original size:20 final size:21
Alignment explanation
Indices: 60629927--60629970 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
60629917 AACCATGCTG
*
60629927 AAAAATCCAAAGTCCAGAACC
1 AAAAATCCAAAGTCCAAAACC
*
60629948 AAAAA-CCAAAGTCCAAAATC
1 AAAAATCCAAAGTCCAAAACC
60629968 AAA
1 AAA
60629971 GTCTACAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.59, C:0.25, G:0.07, T:0.09
Consensus pattern (21 bp):
AAAAATCCAAAGTCCAAAACC
Found at i:60641984 original size:22 final size:20
Alignment explanation
Indices: 60641939--60641984 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
60641929 ATACATACAG
60641939 TAATATTTTTCTAATAATAA
1 TAATATTTTTCTAATAATAA
* *
60641959 TAATAATTTTATCTCATAATAC
1 TAAT-ATTTT-TCTAATAATAA
60641981 TAAT
1 TAAT
60641985 TAAAATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 13 0.59
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATATTTTTCTAATAATAA
Found at i:60648332 original size:43 final size:43
Alignment explanation
Indices: 60648271--60648358 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
60648261 TGAGTTTGAG
* *
60648271 GTCATAGGTTCGAATCTGATTTTGGGAAACTTCAATTATTTTT
1 GTCATAGGTTCGAATCTGATTTTGGGAAAATTCAAATATTTTT
*
60648314 GTCATGGGTTCGAATCTGATTTTGGGAAAATTCAAATATTTTT
1 GTCATAGGTTCGAATCTGATTTTGGGAAAATTCAAATATTTTT
60648357 GT
1 GT
60648359 TCCTAGCCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.43
Consensus pattern (43 bp):
GTCATAGGTTCGAATCTGATTTTGGGAAAATTCAAATATTTTT
Found at i:60657661 original size:47 final size:50
Alignment explanation
Indices: 60657554--60657666 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 50
60657544 TGAAATGCCA
* * *
60657554 TTTATGTACAAGCCACCACTGATTTATAGATAAACTACCACTAATAACAC
1 TTTATGGACAAGCCACCACTGATGTATAGATAAACTACCACTAAGAACAC
* * * *
60657604 TTTGTCGACAAGCCACCACAT-ATGTA-A-ATATACTGCCACT-AGAACAC
1 TTTATGGACAAGCCACCAC-TGATGTATAGATAAACTACCACTAAGAACAC
60657651 TTTATGGACAAGCCAC
1 TTTATGGACAAGCCAC
60657667 TATTGATTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
47 20 0.38
48 11 0.21
49 1 0.02
50 20 0.38
51 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (50 bp):
TTTATGGACAAGCCACCACTGATGTATAGATAAACTACCACTAAGAACAC
Found at i:60658378 original size:36 final size:36
Alignment explanation
Indices: 60658331--60658410 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
60658321 AAACAAAGTA
*
60658331 TGAATTGAGTTAAGAATAAGTAAGTTTATTTAGAAT
1 TGAATTGAGTTAAGAATAAGTAAGTTTAGTTAGAAT
60658367 TGAATTGAGTTAAGAATAAGTAAGTTTAGTTAGAAT
1 TGAATTGAGTTAAGAATAAGTAAGTTTAGTTAGAAT
*
60658403 TAAATTGA
1 TGAATTGA
60658411 AAATAGGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (36 bp):
TGAATTGAGTTAAGAATAAGTAAGTTTAGTTAGAAT
Found at i:60658881 original size:13 final size:14
Alignment explanation
Indices: 60658865--60658894 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
60658855 TTTGAGAAGG
60658865 GATTTGGAGAT-TT
1 GATTTGGAGATGTT
60658878 GATTTGGAGATGTT
1 GATTTGGAGATGTT
60658892 GAT
1 GAT
60658895 GTTTATGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
GATTTGGAGATGTT
Found at i:60658972 original size:28 final size:27
Alignment explanation
Indices: 60658935--60659017 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 27
60658925 CACTCTGTGC
60658935 TATTCTAGTGTGTTTGGATGGATTATAT
1 TATTCTAGTGTGTTTGGA-GGATTATAT
60658963 TATTCTAGTGTGTTTCGGAGGATTATAT
1 TATTCTAGTGTGTTT-GGAGGATTATAT
* *
60658991 GATACTAGTGTGTTTTGGAGGATTATA
1 TATTCTAGTGTG-TTTGGAGGATTATA
60659018 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 45 0.88
29 6 0.12
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.46
Consensus pattern (27 bp):
TATTCTAGTGTGTTTGGAGGATTATAT
Found at i:60658987 original size:23 final size:23
Alignment explanation
Indices: 60658961--60659028 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
60658951 GATGGATTAT
60658961 ATTATTCTAGTGTGTTTCGGAGG
1 ATTATTCTAGTGTGTTTCGGAGG
*
60658984 ATTATATGATACTAGTGTGTTTTGGAGG
1 A-T-TAT--T-CTAGTGTGTTTCGGAGG
* *
60659012 ATTATACTGGTGTGTTT
1 ATTATTCTAGTGTGTTT
60659029 TGGTTGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 11 0.30
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.46
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.46
Consensus pattern (23 bp):
ATTATTCTAGTGTGTTTCGGAGG
Found at i:60675386 original size:46 final size:46
Alignment explanation
Indices: 60675319--60675488 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
60675309 TGTAACCCGC
*
60675319 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * *
60675365 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* * * * **
60675411 ACATTTCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
**
60675458 CCATAAATGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
60675489 TTGGGATGCT
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 64 0.64
47 32 0.32
48 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:60675438 original size:93 final size:93
Alignment explanation
Indices: 60675326--60675497 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
60675316 CGCCCATAAG
* *** *
60675326 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
60675391 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
60675419 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
* *
60675484 ACGAGTTGGGATGC
66 ACGAGCTCGGATGC
60675498 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:60680013 original size:47 final size:48
Alignment explanation
Indices: 60679950--60680174 Score: 373
Period size: 49 Copynumber: 4.7 Consensus size: 48
60679940 ATGATAGTAT
60679950 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
60679997 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
* * *
60680044 TGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
60680093 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
60680142 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
60680175 CCCGAAGGGC
Statistics
Matches: 170, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
47 78 0.46
49 88 0.52
50 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
Found at i:60680117 original size:96 final size:95
Alignment explanation
Indices: 60679950--60680174 Score: 371
Period size: 96 Copynumber: 2.3 Consensus size: 95
60679940 ATGATAGTAT
60679950 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
60680015 ATGAATGTGAAAGTG-TATATATGTGATAA
66 ATGAATGTGAAAGTGATATATATGTGATAA
* * *
60680044 TGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
*
60680109 TGATGAATGTGAAAGTGTATATATATGTGATAG
64 TGATGAATGTGAAAGTG-ATATATATGTGATAA
60680142 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
60680175 CCCGAAGGGC
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
94 31 0.26
96 46 0.38
98 39 0.32
99 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (95 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGATATATATGTGATAA
Found at i:60680348 original size:37 final size:37
Alignment explanation
Indices: 60680292--60680370 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60680282 CCGAGCTCTA
* * *
60680292 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60680329 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60680366 AAGAC
1 AAGAC
60680371 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60687653 original size:250 final size:250
Alignment explanation
Indices: 60687036--60688260 Score: 2425
Period size: 250 Copynumber: 4.9 Consensus size: 250
60687026 CTATTAAAAT
60687036 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
1 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
60687101 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
66 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
60687166 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGA-TTATACATTC
131 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
60687230 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
196 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
60687285 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
1 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
60687350 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
66 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
*
60687415 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGGTTTATACATTC
131 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
60687480 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
196 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
60687535 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
1 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
*
60687600 ACAATTGCTCACAAATTCAAACTAACATCAAACATATATTTGTATCACATATCAAATAATCAACT
66 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
60687665 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
131 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
60687730 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
196 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
60687785 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
1 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
60687850 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
66 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
60687915 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
131 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
60687980 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
196 ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
60688035 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
1 CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
60688100 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
66 ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
60688165 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
131 TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
60688230 ATACAAAACTTATCTTTGCCCGTTGAACCAT
196 ATACAAAACTTATCTTTGCCCGTTGAACCAT
60688261 TCGGAATTGG
Statistics
Matches: 971, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
249 183 0.19
250 788 0.81
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (250 bp):
CATATACTCATGTACCAAACCTTAATACCATATAATTACACTTAAATTATGGCTGAATATACTTC
ACAATTGCTCACAAATTCAAACTAACATCAAACATATGTTTGTATCACATATCAAATAATCAACT
TACCTTATTTTCAAATAGGTAATCAACTATCACATACCTGGTCACTTAGCTTGATTTATACATTC
ATACAAAACTTATCTTTGCCCGTTGAACCATACCGAATCTTTAAACACTTGTTTA
Found at i:60688402 original size:13 final size:13
Alignment explanation
Indices: 60688384--60688415 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60688374 TCACAAACAT
*
60688384 ATATCGGAGTCAC
1 ATATCGGAGTAAC
60688397 ATATCGGAGTAAC
1 ATATCGGAGTAAC
60688410 ATATCG
1 ATATCG
60688416 ATGCCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (13 bp):
ATATCGGAGTAAC
Found at i:60690780 original size:39 final size:38
Alignment explanation
Indices: 60690715--60690839 Score: 187
Period size: 38 Copynumber: 3.3 Consensus size: 38
60690705 GGTCTTTAAC
* ** *
60690715 CCGGATATTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTCTAGCATATAGCCTGCGGACCTCATGT
60690753 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATAT-TTTCTAGCATATAGCCTGCGGACCTCATGT
*
60690792 CTGGATATTTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTCTAGCATATAGCCTGCGGACCTCATGT
*
60690830 CTGGATATTT
1 CCGGATATTT
60690840 CAATCTCATA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 48 0.59
39 33 0.41
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (38 bp):
CCGGATATTTTCTAGCATATAGCCTGCGGACCTCATGT
Found at i:60710128 original size:39 final size:39
Alignment explanation
Indices: 60710101--60710298 Score: 324
Period size: 39 Copynumber: 5.1 Consensus size: 39
60710091 TGTCCAGCAC
* *
60710101 ATAGCCTGCGGACCTAAAGTCCGGATATTATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
*
60710140 ATAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
*
60710179 ATAGCCTGTGGACCTGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
* * *
60710218 ATAGCTTGCAGACCTGAAGTCCGGATATAATTCTCGCTT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
*
60710257 ATAGCCTACGGACCTGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
60710296 ATA
1 ATA
60710299 TATATTTACA
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (39 bp):
ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
Found at i:60718366 original size:39 final size:38
Alignment explanation
Indices: 60718339--60718497 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 38
60718329 TGTCCAGCAC
*
60718339 ATAGCCTACGGACCTAAAGTCCGGATATTATTCTCGCAT
1 ATAGCCTACGGACCTGAAGTCCGGATA-TATTCTCGCAT
* * *
60718378 ATAGCCTGCGGACATGAAGTCCGGATATAATTCTTGCAT
1 ATAGCCTACGGACCTGAAGTCCGGATAT-ATTCTCGCAT
*
60718417 ATAGCCTACGGACCTGAAGTCCGGATATAATTCTCGCTT
1 ATAGCCTACGGACCTGAAGTCCGGATAT-ATTCTCGCAT
60718456 ATAGCCTACGGACCTGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTACGGACCTGAAGTCCGGATAT-ATTCTCGCAT
60718495 ATA
1 ATA
60718498 TATATTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 109 0.99
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (38 bp):
ATAGCCTACGGACCTGAAGTCCGGATATATTCTCGCAT
Found at i:60718423 original size:78 final size:78
Alignment explanation
Indices: 60718339--60718497 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 78
60718329 TGTCCAGCAC
* *
60718339 ATAGCCTACGGACCTAAAGTCCGGATATTATTCTCGCATATAGCCTGCGGACATGAAGTCCGGAT
1 ATAGCCTACGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTACGGACATGAAGTCCGGAT
*
60718404 ATAATTCTTGCAT
66 ATAATTCTCGCAT
* * *
60718417 ATAGCCTACGGACCTGAAGTCCGGATATAATTCTCGCTTATAGCCTACGGACCTGAAGTCCGGAT
1 ATAGCCTACGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTACGGACATGAAGTCCGGAT
60718482 ATAATTCTCGCAT
66 ATAATTCTCGCAT
60718495 ATA
1 ATA
60718498 TATATTTACA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (78 bp):
ATAGCCTACGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTACGGACATGAAGTCCGGAT
ATAATTCTCGCAT
Found at i:60732197 original size:29 final size:29
Alignment explanation
Indices: 60732157--60732236 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
60732147 GCTTAATAAT
*
60732157 AAACCACGCACACTTAGTGCCATGTACTTT-
1 AAACC-CGCACACTTAGTGCCATGCA-TTTC
*
60732187 AAACTCGCACACTTAGTGCCATGCATTTC
1 AAACCCGCACACTTAGTGCCATGCATTTC
*
60732216 AAGCCCGCACACTTAGTGCCA
1 AAACCCGCACACTTAGTGCCA
60732237 ATCTCACAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.84
30 4 0.09
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AAACCCGCACACTTAGTGCCATGCATTTC
Found at i:60734106 original size:29 final size:28
Alignment explanation
Indices: 60734070--60734147 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
60734060 TCATGAGATT
60734070 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
60734100 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
60734127 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
60734148 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:60734365 original size:174 final size:174
Alignment explanation
Indices: 60734100--60734601 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
60734090 AAATTGTACA
*
60734100 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
60734165 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
60734230 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCAAG
*
60734274 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
60734339 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
60734404 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCAAG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCAAG
60734448 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
60734513 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
60734578 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
60734602 ACCTTGAGTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCAAG
Found at i:60734458 original size:29 final size:29
Alignment explanation
Indices: 60734423--60734490 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
60734413 GCGGAAAAGG
*
60734423 TAAGTGTGCGAACTTGAAA-TGCAAGGCAC
1 TAAGTGTGCG-ACTTGAAAGTACAAGGCAC
* * * *
60734452 TAAGTGTGTGAGTTTAAAGTACATGGCAC
1 TAAGTGTGCGACTTGAAAGTACAAGGCAC
60734481 TAAGTGTGCG
1 TAAGTGTGCG
60734491 CGGTTGATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (29 bp):
TAAGTGTGCGACTTGAAAGTACAAGGCAC
Found at i:60742529 original size:22 final size:22
Alignment explanation
Indices: 60742496--60742537 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
60742486 TCCTTCTGTG
60742496 TTTTTTTATATTTTCAAATTCA
1 TTTTTTTATATTTTCAAATTCA
*
60742518 TTTTATTT-TATTTTTAAATT
1 TTTT-TTTATATTTTCAAATT
60742538 AGCCCTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTTTATATTTTCAAATTCA
Found at i:60742894 original size:58 final size:61
Alignment explanation
Indices: 60742823--60743092 Score: 175
Period size: 58 Copynumber: 4.4 Consensus size: 61
60742813 AAAATTTATC
* *
60742823 ATATATTTTTATTATATATATTATTTATTCT-GT-TATATTTGTATTTTTATTA-TATGTT
1 ATATATTTTTATTATATATATTATTTATTCTACTATATATTTATATTTTTATTATTATGTT
* * *
60742881 ATATATTTTTATTATAT-T-TTATTTATTTTACTATATTTTTATATTTTTATTATTATTTT
1 ATATATTTTTATTATATATATTATTTATTCTACTATATATTTATATTTTTATTATTATGTT
* * *
60742940 ATATATTCCTTATTATATTATATTTCATTATATTTTATCTACATATTT-TATTACATATTA-TAT
1 ATATATT-TTTATTATA-TATA-TT-ATT-TATTCTA-CTATATATTTATATT---T-TTATTAT
*
60743003 TTTGTT
56 TATGTT
* * * * * * * *
60743009 ATATATTATTCATTATAATATCTTACTTTCTTTTA-TATATA-TTATA-TTATATACATTTTATT
1 ATATATT-TTTATTAT-ATATATTA-TTTATTCTACTATATATTTATATTTTTAT-TATTATGTT
60743071 ATATATATTTTATTATAT-TATT
1 ATATAT-TTTTATTATATATATT
60743093 TATTATATGA
Statistics
Matches: 170, Mismatches: 21, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
56 10 0.06
57 2 0.01
58 34 0.20
59 12 0.07
60 13 0.08
61 4 0.02
62 21 0.12
63 1 0.01
64 5 0.03
65 10 0.06
66 11 0.06
67 15 0.09
68 4 0.02
69 24 0.14
70 4 0.02
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (61 bp):
ATATATTTTTATTATATATATTATTTATTCTACTATATATTTATATTTTTATTATTATGTT
Done.