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 294 of 318
Found at i:93675995 original size:40 final size:40
Alignment explanation
Indices: 93675777--93675995 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
93675767 AAAACACGTA
* * **
93675777 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATATAG-TAACTCGCACAAATG
* * * *
93675816 CCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
93675856 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
93675896 CCTTCGAGACTTAACCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* * *
93675936 CCTTCGGGACTTAACCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGACTTAACCCGGATATAGTAAC-TCGCACAAATG
*
93675976 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
93675996 CATCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 10 0.06
40 139 0.89
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:93694180 original size:25 final size:25
Alignment explanation
Indices: 93694146--93694195 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
93694136 ACAAAGGAAG
93694146 AGATATCATTCCTCAATTTGGCTAT
1 AGATATCATTCCTCAATTTGGCTAT
93694171 AGATATCATTCCTCAATTTGGCTAT
1 AGATATCATTCCTCAATTTGGCTAT
93694196 CTTAACGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (25 bp):
AGATATCATTCCTCAATTTGGCTAT
Found at i:93701958 original size:9 final size:9
Alignment explanation
Indices: 93701944--93701968 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
93701934 ATTTTTACTC
93701944 GATTATCTT
1 GATTATCTT
93701953 GATTATCTT
1 GATTATCTT
93701962 GATTATC
1 GATTATC
93701969 ATTATGCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (9 bp):
GATTATCTT
Found at i:93706548 original size:57 final size:57
Alignment explanation
Indices: 93706457--93706627 Score: 315
Period size: 57 Copynumber: 3.0 Consensus size: 57
93706447 GCTGTTAAAA
93706457 TAATCAAGAATTAGAGTATTCTAAAAAAAATGAAAAATGAATCCTAAGACTAAGGAT
1 TAATCAAGAATTAGAGTATTCTAAAAAAAATGAAAAATGAATCCTAAGACTAAGGAT
* * *
93706514 TAATCAAGAATTAGAGTAATCTAAAAAAATTGAAAAATGAATCCTAACACTAAGGAT
1 TAATCAAGAATTAGAGTATTCTAAAAAAAATGAAAAATGAATCCTAAGACTAAGGAT
93706571 TAATCAAGAATTAGAGTATTCTAAAAAAAATGAAAAATGAATCCTAAGACTAAGGAT
1 TAATCAAGAATTAGAGTATTCTAAAAAAAATGAAAAATGAATCCTAAGACTAAGGAT
93706628 CAAAAACGCA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 108 1.00
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (57 bp):
TAATCAAGAATTAGAGTATTCTAAAAAAAATGAAAAATGAATCCTAAGACTAAGGAT
Found at i:93712237 original size:25 final size:24
Alignment explanation
Indices: 93712203--93712249 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
93712193 TTGCTTCTTG
* *
93712203 TATTTGATTTCATATAATCATTTGA
1 TATTTAATTTCAGA-AATCATTTGA
93712228 TATTTAATTTCAGAAATCATTT
1 TATTTAATTTCAGAAATCATTT
93712250 ACATTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (24 bp):
TATTTAATTTCAGAAATCATTTGA
Found at i:93717306 original size:21 final size:21
Alignment explanation
Indices: 93717282--93717335 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
93717272 TTTTTATAAC
*
93717282 TTTTTTTTAATTTATCTTT--
1 TTTTTTTTAATTTAACTTTAA
*
93717301 TTTTTTTTAAAATTTAAGTTTAA
1 TTTTTTTT--AATTTAACTTTAA
93717324 TTTTTTTTAATT
1 TTTTTTTTAATT
93717336 CCTTTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 8 0.28
21 13 0.45
23 8 0.28
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTTTTAATTTAACTTTAA
Found at i:93721183 original size:24 final size:26
Alignment explanation
Indices: 93721149--93721205 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
93721139 TGTTTATAAC
*
93721149 TGCATTTCATT-CATC-T-CATACATT
1 TGCATTGCATTGCATCATGCAT-CATT
93721173 TGCATTGCATTGCATCATTGCATCATT
1 TGCATTGCATTGCATCA-TGCATCATT
93721200 TGCATT
1 TGCATT
93721206 AGATTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 10 0.36
25 4 0.14
27 11 0.39
28 3 0.11
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (26 bp):
TGCATTGCATTGCATCATGCATCATT
Found at i:93730298 original size:5 final size:5
Alignment explanation
Indices: 93730273--93730366 Score: 68
Period size: 5 Copynumber: 17.8 Consensus size: 5
93730263 ACCTTCTTAT
*
93730273 TTTTT TTTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTA GTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
* *
93730320 TTTTTCT TTTTA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 -TTTT-A TTTTA -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
93730367 GAAAAACATA
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 32 0.44
6 32 0.44
7 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:93730340 original size:49 final size:47
Alignment explanation
Indices: 93730269--93730366 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 47
93730259 TTGAACCTTC
* *
93730269 TTATTTTTTTTTTATTCTTATTTTTATTT-TATTTTATTTATTTTAGTT
1 TTATTTTTTTTTTATTCTTATTTTCATTTCAATTTTA-TTATTTTA-TT
*
93730317 TTATTTTTCTTTTTATTTTTATTTTCATTTCAATTTTATTATTTTATT
1 TTATTTTT-TTTTTATTCTTATTTTCATTTCAATTTTATTATTTTATT
93730365 TT
1 TT
93730367 GAAAAACATA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
48 12 0.27
49 27 0.60
50 6 0.13
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (47 bp):
TTATTTTTTTTTTATTCTTATTTTCATTTCAATTTTATTATTTTATT
Found at i:93730342 original size:17 final size:16
Alignment explanation
Indices: 93730273--93730341 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 16
93730263 ACCTTCTTAT
*
93730273 TTTTTTTTTATTCTTA
1 TTTTTTTTTATTTTTA
93730289 TTTTTATTTTA-TTTTA
1 TTTTT-TTTTATTTTTA
* *
93730305 -TTTATTTTAGTTTTA
1 TTTTTTTTTATTTTTA
93730320 TTTTTCTTTTTATTTTTA
1 -TTTT-TTTTTATTTTTA
93730338 TTTT
1 TTTT
93730342 CATTTCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.11
15 8 0.18
16 9 0.20
17 12 0.27
18 10 0.23
ACGTcount: A:0.14, C:0.03, G:0.01, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTATTTTTA
Found at i:93740372 original size:21 final size:21
Alignment explanation
Indices: 93740346--93740387 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93740336 AACATATATA
*
93740346 GAATAATAA-AATAAATTAAAG
1 GAATAA-AATAATAAAATAAAG
93740367 GAATAAAATAATAAAATAAAG
1 GAATAAAATAATAAAATAAAG
93740388 AAAGAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
GAATAAAATAATAAAATAAAG
Found at i:93740417 original size:9 final size:8
Alignment explanation
Indices: 93740333--93740419 Score: 54
Period size: 8 Copynumber: 10.6 Consensus size: 8
93740323 AAAGAAAGGA
*
93740333 AATAACAT
1 AATAAAAT
*
93740341 ATATAGAAT
1 A-ATAAAAT
93740350 AATAAAAT
1 AATAAAAT
**
93740358 AAATTAAAGG
1 -AA-TAAAAT
93740368 AATAAAAT
1 AATAAAAT
93740376 AATAAAAT
1 AATAAAAT
*
93740384 AA-AGAAAG
1 AATA-AAAT
*
93740392 AA-AGAAT
1 AATAAAAT
93740399 -ATAAAAT
1 AATAAAAT
93740406 AATAATAAT
1 AATAA-AAT
93740415 AATAA
1 AATAA
93740420 GGTAAAAGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
6 1 0.02
7 7 0.11
8 31 0.51
9 18 0.30
10 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:93741370 original size:30 final size:30
Alignment explanation
Indices: 93741336--93741396 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
93741326 CTAGGCCGTA
* *
93741336 TGGGTTACACGGCCGTGTCGCCAGGCTGTG
1 TGGGTTACACGGCCATATCGCCAGGCTGTG
* *
93741366 TGGGTTATACGGTCATATCGCCAGGCTGTG
1 TGGGTTACACGGCCATATCGCCAGGCTGTG
93741396 T
1 T
93741397 AACTCACTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.13, C:0.23, G:0.36, T:0.28
Consensus pattern (30 bp):
TGGGTTACACGGCCATATCGCCAGGCTGTG
Found at i:93747341 original size:46 final size:46
Alignment explanation
Indices: 93747281--93747505 Score: 353
Period size: 46 Copynumber: 4.9 Consensus size: 46
93747271 TTTGACATGA
* * * * * * *
93747281 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
93747327 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
93747373 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
93747419 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
93747465 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
93747506 AAGAGAGCAC
Statistics
Matches: 169, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:93747913 original size:26 final size:26
Alignment explanation
Indices: 93747882--93747965 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
93747872 TGATACAAAT
93747882 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93747908 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93747934 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93747960 TGATAA
1 TGATAA
93747966 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:93753037 original size:29 final size:30
Alignment explanation
Indices: 93752987--93753054 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
93752977 CACCCTTAAA
* * *
93752987 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
93753017 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
93753046 AGTATTTAC
1 A-TATTTAC
93753055 TCTTAGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:93754042 original size:19 final size:19
Alignment explanation
Indices: 93754018--93754089 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
93754008 ATAATCTTCA
*
93754018 ATGATATGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
93754037 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
93754054 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
93754072 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
93754090 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 17 0.35
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:93754064 original size:35 final size:37
Alignment explanation
Indices: 93754018--93754096 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
93754008 ATAATCTTCA
*
93754018 ATGATATGCAATCTTATATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
93754054 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
93754090 A-GATATG
1 ATGATATG
93754097 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 18 0.46
36 8 0.21
37 13 0.33
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:93754411 original size:12 final size:11
Alignment explanation
Indices: 93754396--93754429 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
93754386 TATTTTTAAT
93754396 TTATTATATATA
1 TTATT-TATATA
93754408 TTATTTATTATA
1 TTATTTA-TATA
93754420 TTATTTATAT
1 TTATTTATAT
93754430 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:93754427 original size:16 final size:16
Alignment explanation
Indices: 93754394--93754424 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93754384 CTTATTTTTA
93754394 ATTTATTATATATATT
1 ATTTATTATATATATT
93754410 ATTTATTATAT-TATT
1 ATTTATTATATATATT
93754425 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:93754483 original size:21 final size:19
Alignment explanation
Indices: 93754452--93754506 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
93754442 TAAATTATTA
93754452 TTATATA-TTATATTTTAAC
1 TTATATATTTATATTTT-AC
*
93754471 TTATATATCTTATATATTTAT
1 TTATATAT-TTATAT-TTTAC
*
93754492 TTATTTATTTATATT
1 TTATATATTTATATT
93754507 ATACATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 8 0.26
20 6 0.19
21 14 0.45
22 3 0.10
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATTTATATTTTAC
Found at i:93757916 original size:2 final size:2
Alignment explanation
Indices: 93757909--93757937 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93757899 AGAAAGAAAA
93757909 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
93757938 AAAGAGGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93760463 original size:18 final size:18
Alignment explanation
Indices: 93760440--93760498 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
93760430 CTTCTATTTT
93760440 AAAAAAAAGAAAAAAAGA
1 AAAAAAAAGAAAAAAAGA
93760458 AAAAAAAAGAGAAAAAA-A
1 AAAAAAAAGA-AAAAAAGA
* *
93760476 AATAAATAG-AAAAAAGA
1 AAAAAAAAGAAAAAAAGA
93760493 AAAAAA
1 AAAAAA
93760499 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.17
17 6 0.17
18 18 0.50
19 6 0.17
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAGA
Found at i:93760488 original size:23 final size:22
Alignment explanation
Indices: 93760440--93760498 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
93760430 CTTCTATTTT
93760440 AAAAAAAAG--AAAAAAAGAAA
1 AAAAAAAAGAAAAAAAAAGAAA
* *
93760460 AAAAAAGAGAAAAAAAAATAAA
1 AAAAAAAAGAAAAAAAAAGAAA
*
93760482 TAGAAAAAAGAAAAAAA
1 -AAAAAAAAGAAAAAAA
93760499 TGGAGAGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 8 0.25
22 10 0.31
23 14 0.44
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAGAAA
Found at i:93761517 original size:44 final size:44
Alignment explanation
Indices: 93761376--93761555 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
93761366 CAAAGAAACA
* *
93761376 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
93761420 AGATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
93761465 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGAGAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
93761508 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
93761552 AGAT
1 AGAT
93761556 CTAACCTCCA
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 12 0.11
44 80 0.73
45 14 0.13
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:93761755 original size:119 final size:119
Alignment explanation
Indices: 93761547--93762140 Score: 1044
Period size: 119 Copynumber: 5.0 Consensus size: 119
93761537 CAGATCGAAG
*
93761547 ATAGCAGATCTAACCTCCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
93761612 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
93761666 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
93761731 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
93761785 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
93761850 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
93761904 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
93761969 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
93762023 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * * *
93762088 TTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
93762141 CAGACTCAAG
Statistics
Matches: 458, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 458 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:93762295 original size:84 final size:83
Alignment explanation
Indices: 93762064--93762333 Score: 450
Period size: 83 Copynumber: 3.2 Consensus size: 83
93762054 GAAGCAGATC
* *
93762064 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
93762129 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
93762147 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
93762212 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
93762230 CAAGATGGTTTAGGCATCCTTGTTCTTACAAGGAACAAGTCGAGGACCTTACAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
93762295 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
93762314 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
93762334 ACAAATCGAA
Statistics
Matches: 176, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 99 0.56
84 77 0.44
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:93763104 original size:26 final size:26
Alignment explanation
Indices: 93763067--93763123 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
93763057 TGATACAAAT
93763067 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93763093 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93763119 TGATA
1 TGATA
93763124 GGAATTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:93764673 original size:27 final size:27
Alignment explanation
Indices: 93764632--93764771 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
93764622 GAGGAAGTGT
*
93764632 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
93764659 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
93764686 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
93764713 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
93764741 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
93764767 TCTGG
1 TCTGG
93764772 CAGCCACGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:93764717 original size:54 final size:55
Alignment explanation
Indices: 93764632--93764771 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
93764622 GAGGAAGTGT
* * *
93764632 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
93764686 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
93764741 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
93764772 CAGCCACGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:93765717 original size:18 final size:18
Alignment explanation
Indices: 93765679--93765740 Score: 99
Period size: 18 Copynumber: 3.4 Consensus size: 18
93765669 GGGGTGCTAC
93765679 ATCTTAGATATGA-TACA
1 ATCTTAGATATGATTACA
*
93765696 ATCTTAGATATGATTGCA
1 ATCTTAGATATGATTACA
93765714 ATCTTAGATATGATATACA
1 ATCTTAGATATGAT-TACA
93765733 ATCTTAGA
1 ATCTTAGA
93765741 AGATATGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.32
18 17 0.41
19 11 0.27
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
ATCTTAGATATGATTACA
Found at i:93766063 original size:12 final size:11
Alignment explanation
Indices: 93766048--93766081 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
93766038 TATTTTTAAT
93766048 TTATTATATATA
1 TTATT-TATATA
93766060 TTATTTATTATA
1 TTATTTA-TATA
93766072 TTATTTATAT
1 TTATTTATAT
93766082 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:93766073 original size:21 final size:21
Alignment explanation
Indices: 93766049--93766160 Score: 67
Period size: 21 Copynumber: 5.5 Consensus size: 21
93766039 ATTTTTAATT
93766049 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
93766070 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
93766088 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
93766107 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
93766130 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
93766151 TATTATATAT
1 TATTATATAT
93766161 TATTTTAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.07
19 2 0.03
20 8 0.12
21 28 0.41
22 7 0.10
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:93766079 original size:16 final size:16
Alignment explanation
Indices: 93766046--93766076 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93766036 CTTATTTTTA
93766046 ATTTATTATATATATT
1 ATTTATTATATATATT
93766062 ATTTATTATAT-TATT
1 ATTTATTATATATATT
93766077 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:93766114 original size:7 final size:7
Alignment explanation
Indices: 93766097--93766203 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
93766087 AAATTTGTAA
93766097 ATTAT-T
1 ATTATAT
93766103 ATTATAT
1 ATTATAT
93766110 ATTATAT
1 ATTATAT
93766117 -TT-TA-
1 ATTATAT
93766121 ACTTATAT
1 A-TTATAT
93766129 ATCTTATAT
1 A--TTATAT
*
93766138 ATTTATTT
1 A-TTATAT
93766146 ATT-TAT
1 ATTATAT
93766152 ATTATAT
1 ATTATAT
93766159 ATTAT-T
1 ATTATAT
* *
93766165 -TTAAAA
1 ATTATAT
*
93766171 ACTTACAT
1 A-TTATAT
*
93766179 -TTTTAT
1 ATTATAT
93766185 ATTATAT
1 ATTATAT
*
93766192 ATTATAA
1 ATTATAT
93766199 ATTAT
1 ATTAT
93766204 TTCATTTATT
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.06
6 19 0.24
7 36 0.46
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:93766161 original size:21 final size:21
Alignment explanation
Indices: 93766101--93766165 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
93766091 TTGTAAATTA
*
93766101 TTATTATATATTATAT-TTTAAC
1 TTATT-TATATTATATATTT-AT
* *
93766123 TTATATATCTTATATATTTAT
1 TTATTTATATTATATATTTAT
93766144 TTATTTATATTATATA-TTAT
1 TTATTTATATTATATATTTAT
93766164 TT
1 TT
93766166 TAAAAACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.16
21 24 0.65
22 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTATATTATATATTTAT
Found at i:93766546 original size:3 final size:3
Alignment explanation
Indices: 93766538--93766570 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
93766528 TATGTTACTA
93766538 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93766571 AAATTATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:93776362 original size:27 final size:26
Alignment explanation
Indices: 93776332--93776508 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 26
93776322 AAATTGTACA
* *
93776332 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
93776359 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
93776386 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
93776413 GCACTAAGTGTGCGAGTTGGACTATGTG
1 GCACTAAGTGTGCGA-TT-GACTATGTG
* *
93776441 GCACTAAGTGTGCGATTTGATTATGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
93776468 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
93776495 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
93776509 GGCCCAATAA
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.78
28 27 0.21
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:93776446 original size:82 final size:81
Alignment explanation
Indices: 93776332--93776487 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
93776322 AAATTGTACA
*
93776332 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
93776396 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
93776413 GCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
93776478 TGCGAGTTGA
65 TGCGAATTGA
93776488 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:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:93776499 original size:82 final size:81
Alignment explanation
Indices: 93776328--93776508 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
93776318 GATTAAATTG
* *
93776328 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
93776393 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
93776409 TGCGGCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
93776473 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
93776491 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
93776509 GGCCCAATAA
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:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:93778653 original size:46 final size:46
Alignment explanation
Indices: 93778591--93778818 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
93778581 TTTGACATGA
* * * * * * *
93778591 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* *
93778637 TGGCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
93778683 TGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* * *
93778729 TGCCATGGTATCTTTCAACCATGGTCTTCCGCATTTCATATCAAGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
93778775 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93778819 AGAGCACACT
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:93781273 original size:29 final size:30
Alignment explanation
Indices: 93781223--93781290 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
93781213 CACCCTTAAA
* * *
93781223 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
93781253 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
93781282 AGTATTTAC
1 A-TATTTAC
93781291 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:93790191 original size:5 final size:5
Alignment explanation
Indices: 93790181--93790212 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
93790171 TTGTGTGTTC
93790181 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
93790213 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:93790195 original size:9 final size:9
Alignment explanation
Indices: 93790181--93790211 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
93790171 TTGTGTGTTC
93790181 TTTATTTTA
1 TTTATTTTA
93790190 TTTATTTTA
1 TTTATTTTA
93790199 TTTTATTTTA
1 -TTTATTTTA
93790209 TTT
1 TTT
93790212 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:93794859 original size:27 final size:27
Alignment explanation
Indices: 93794829--93795006 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
93794819 ATATTGAGTC
* * * *
93794829 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
93794856 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
93794883 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
93794911 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
93794938 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
93794965 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
93794992 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93795007 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:93794968 original size:82 final size:81
Alignment explanation
Indices: 93794850--93795005 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
93794840 TGCTATATAA
* *
93794850 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
93794915 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
93794932 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
93794996 CACTTAGTGC
65 CACTTAGTGC
93795006 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:93807280 original size:30 final size:31
Alignment explanation
Indices: 93807232--93807289 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
93807222 TATGATTTGC
93807232 CTTATTATTTTAATATGATTTGGATGGACGG
1 CTTATTATTTTAATATGATTTGGATGGACGG
*
93807263 CTTATTATTTT-ATATGATTTGGTTGGA
1 CTTATTATTTTAATATGATTTGGATGGA
93807290 AATTGATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (31 bp):
CTTATTATTTTAATATGATTTGGATGGACGG
Found at i:93808874 original size:6 final size:6
Alignment explanation
Indices: 93808859--93808921 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
93808849 TGGAAAATGA
93808859 ATTG-G ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG
1 ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG
*
93808906 ATTGTG AATGTG ATTG
1 ATTGTG ATTGTG ATTG
93808922 AGAGTTGTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
5 4 0.07
6 51 0.93
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (6 bp):
ATTGTG
Found at i:93809721 original size:51 final size:51
Alignment explanation
Indices: 93809661--93809761 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
93809651 AATGACTTGA
*
93809661 ATTGATTTTACCATTGATATTATATACCTTGTGCCAATTTAATAATGCATT
1 ATTGATTTTACCATTGATATTATATACCTTGTACCAATTTAATAATGCATT
93809712 ATTGATTTTACCATTGATATTATATACCTTGTACCAATTTAATAATGCAT
1 ATTGATTTTACCATTGATATTATATACCTTGTACCAATTTAATAATGCAT
93809762 CTCATTTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (51 bp):
ATTGATTTTACCATTGATATTATATACCTTGTACCAATTTAATAATGCATT
Found at i:93818148 original size:12 final size:12
Alignment explanation
Indices: 93818131--93818155 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93818121 AATGTATCTA
93818131 TTTTTTATAATT
1 TTTTTTATAATT
93818143 TTTTTTATAATT
1 TTTTTTATAATT
93818155 T
1 T
93818156 ATCTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:93820497 original size:36 final size:37
Alignment explanation
Indices: 93820425--93820502 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
93820415 TTATTACGAA
* *
93820425 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
93820462 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
93820498 GTCTT
1 GTCTT
93820503 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:93820959 original size:192 final size:190
Alignment explanation
Indices: 93820624--93820967 Score: 589
Period size: 192 Copynumber: 1.8 Consensus size: 190
93820614 TTCGGGACTA
* * * * *
93820624 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATGTATACACTTT
1 ATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTT
93820689 CACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
93820754 CATTAGGCCTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTT
131 CATTAGGCCTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTT
* * *
93820814 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACT
*
93820879 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
64 TTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
93820944 GCCATTAGGCCTTATCACATATAT
129 GCCATTAGGCCTTATCACATATAT
93820968 GCATGTTCAT
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
190 7 0.05
191 1 0.01
192 135 0.94
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
ATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTT
CACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTT
Found at i:93820988 original size:47 final size:47
Alignment explanation
Indices: 93820624--93820967 Score: 553
Period size: 47 Copynumber: 7.2 Consensus size: 47
93820614 TTCGGGACTA
* * * * * * *
93820624 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* * *
93820671 GTCACATGTATACACTTTCACATTCATCACATCGACCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93820718 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
93820765 ATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93820814 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93820863 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93820910 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93820957 ATCACATATAT
1 ATCACATATAT
93820968 GCATGTTCAT
Statistics
Matches: 281, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 187 0.67
49 94 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:93824885 original size:40 final size:40
Alignment explanation
Indices: 93824841--93825072 Score: 358
Period size: 40 Copynumber: 5.8 Consensus size: 40
93824831 CCAGCATGAT
* *
93824841 TGCTCTTCGGGACTTAACCCGGATAT-TACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAT-CACTAGCACGAA
** * *
93824881 TGCTCTTCGGGGTTTAGCACGGATATATCTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
93824921 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
93824961 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
93825001 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
93825041 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
93825073 CTCAATTCTC
Statistics
Matches: 173, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 172 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:93826327 original size:37 final size:37
Alignment explanation
Indices: 93826277--93826355 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
93826267 TTATTACGAA
* * *
93826277 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
93826314 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
93826351 GTCTT
1 GTCTT
93826356 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:93826536 original size:47 final size:47
Alignment explanation
Indices: 93826477--93826839 Score: 593
Period size: 47 Copynumber: 7.7 Consensus size: 47
93826467 TTCGGGACTA
* * * * * * *
93826477 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
93826524 GTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93826571 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93826618 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93826665 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93826714 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
93826761 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
93826808 ATCACATATATGCA-TGTTCACATCCATCACAT
1 ATCACATATATACACT-TTCACATTCATCACAT
93826840 AGAATCCTAA
Statistics
Matches: 300, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 252 0.84
49 47 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:93826733 original size:143 final size:143
Alignment explanation
Indices: 93826477--93826818 Score: 589
Period size: 143 Copynumber: 2.4 Consensus size: 143
93826467 TTCGGGACTA
* * * * * * * * *
93826477 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATACATT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
93826540 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
93826605 GCCATTAGGCCTT
131 GCCATTAGGCCTT
93826618 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
93826683 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
93826748 GCCATTAGGCCTT
131 GCCATTAGGCCTT
93826761 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
93826819 GCATGTTCAC
Statistics
Matches: 190, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 44 0.23
143 146 0.77
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTT
Found at i:93833471 original size:25 final size:24
Alignment explanation
Indices: 93833442--93833489 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
93833432 TTATTCCATA
93833442 CTTTTTGTTTAAAAATTTTCTTTAG
1 CTTTTTGTTTAAAAA-TTTCTTTAG
93833467 CTTTTTGTTTAAAAATTTCTTTA
1 CTTTTTGTTTAAAAATTTCTTTA
93833490 TATTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.60
Consensus pattern (24 bp):
CTTTTTGTTTAAAAATTTCTTTAG
Found at i:93833480 original size:24 final size:25
Alignment explanation
Indices: 93833442--93833489 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
93833432 TTATTCCATA
*
93833442 CTTTTTGTTTAAAAATTTTCTTTAG
1 CTTTTTGTTTAAAAAATTTCTTTAG
93833467 CTTTTTGTTT-AAAAATTTCTTTA
1 CTTTTTGTTTAAAAAATTTCTTTA
93833490 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.60
Consensus pattern (25 bp):
CTTTTTGTTTAAAAAATTTCTTTAG
Found at i:93833495 original size:24 final size:25
Alignment explanation
Indices: 93833443--93833496 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
93833433 TATTCCATAC
*
93833443 TTTTTGTTTAAAAATTTTCTTTAGC
1 TTTTTGTTTAAAAATTTTCTTTAGA
*
93833468 TTTTTGTTTAAAAA-TTTCTTTATA
1 TTTTTGTTTAAAAATTTTCTTTAGA
93833492 TTTTT
1 TTTTT
93833497 AATGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (25 bp):
TTTTTGTTTAAAAATTTTCTTTAGA
Found at i:93833527 original size:36 final size:36
Alignment explanation
Indices: 93833486--93833581 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 36
93833476 TAAAAATTTC
93833486 TTTATATTTTTAATGTTATAATATTGTT-TTAAATAA
1 TTTATATTTTTAATGTTATAATATT-TTATTAAATAA
* * *
93833522 TTTATATCTTTT--TGTTTTAAGATTTTACTTAATTAA
1 TTTATAT-TTTTAATGTTATAATATTTTA-TTAAATAA
* *
93833558 ATTA-ACTTTTAATGTTATAATATT
1 TTTATATTTTTAATGTTATAATATT
93833582 AAAATTAATG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
34 6 0.12
35 11 0.23
36 27 0.56
37 4 0.08
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (36 bp):
TTTATATTTTTAATGTTATAATATTTTATTAAATAA
Found at i:93848496 original size:5 final size:5
Alignment explanation
Indices: 93848486--93848513 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
93848476 TCAAGAAACC
93848486 CTCAT CTCAT CTCAT CTCAT CTCAT CTC
1 CTCAT CTCAT CTCAT CTCAT CTCAT CTC
93848514 CCCTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.00, T:0.39
Consensus pattern (5 bp):
CTCAT
Found at i:93860850 original size:24 final size:24
Alignment explanation
Indices: 93860822--93860869 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
93860812 AATATGAAAG
93860822 AAAGAAAATTTGAAAACATCACTA
1 AAAGAAAATTTGAAAACATCACTA
*
93860846 AAAGAAAATTTGAAAACATGACTA
1 AAAGAAAATTTGAAAACATCACTA
93860870 TACAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.21
Consensus pattern (24 bp):
AAAGAAAATTTGAAAACATCACTA
Found at i:93860938 original size:26 final size:25
Alignment explanation
Indices: 93860880--93860938 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
93860870 TACAAACAAT
* *
93860880 ATAAAAATTTTAAAACAAGTAATAG
1 ATAAAAAGTTTAAAACAAGTAAAAG
* *
93860905 ATATAAAAGTTTAAAATAGGTAAAAAG
1 ATA-AAAAGTTTAAAACAAGT-AAAAG
93860932 ATAAAAA
1 ATAAAAA
93860939 TAAATAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.11
26 18 0.64
27 7 0.25
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (25 bp):
ATAAAAAGTTTAAAACAAGTAAAAG
Found at i:93861266 original size:30 final size:30
Alignment explanation
Indices: 93861230--93861335 Score: 113
Period size: 30 Copynumber: 3.3 Consensus size: 30
93861220 CTAGCCTTTG
*
93861230 CCACCACCAACTCCACTAGCCACACTTGTTCCA
1 CCACCACCAACTCCACTAGCCACACTTG---CT
*
93861263 CCACCAACTCCCAACTCCACTAGCAACACTTGCT
1 CCACC-A---CCAACTCCACTAGCCACACTTGCT
* *
93861297 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
93861327 CCACCACCA
1 CCACCACCA
93861336 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
30 29 0.46
33 6 0.10
34 7 0.11
37 21 0.33
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:93861278 original size:37 final size:37
Alignment explanation
Indices: 93861236--93861310 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
93861226 TTTGCCACCA
* *
93861236 CCAACTCCACTAGCCACACTTGTTCCACCACCAACTC
1 CCAACTCCACTAGCAACACTTGCTCCACCACCAACTC
*
93861273 CCAACTCCACTAGCAACACTTGCTCCACCACCTACTC
1 CCAACTCCACTAGCAACACTTGCTCCACCACCAACTC
93861310 C
1 C
93861311 ATTAGCCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.49, G:0.05, T:0.19
Consensus pattern (37 bp):
CCAACTCCACTAGCAACACTTGCTCCACCACCAACTC
Found at i:93861894 original size:25 final size:26
Alignment explanation
Indices: 93861866--93861925 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
93861856 CTATATTACG
*
93861866 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
93861891 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
93861916 TATATATATT
1 TATATATATT
93861926 TTTTCTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:93861916 original size:29 final size:28
Alignment explanation
Indices: 93861883--93861992 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
93861873 ATTATACTAT
93861883 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
93861912 TTTATATATATATTTTTTCTAC-ATGTTA
1 TTTATGTATATA-TTTTAATACTATATTA
93861940 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
93861967 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
93861992 T
1 T
93861993 GTACATATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 6 0.09
28 11 0.17
29 27 0.41
30 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:93861971 original size:80 final size:81
Alignment explanation
Indices: 93861865--93862015 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 81
93861855 TCTATATTAC
* * * *
93861865 GTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATATATTTTTT
1 GTATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATAT-TATTTTTT
93861930 C-TACATGTTATCTTAT
65 CATACATGTTATCTTAT
* * * * * *
93861946 GTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTTTTC
1 GTATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTATTTTTTC
93862010 ATACAT
66 ATACAT
93862016 ATGTATATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 8 0.14
80 40 0.68
81 11 0.19
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (81 bp):
GTATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTATTTTTTC
ATACATGTTATCTTAT
Found at i:93861993 original size:25 final size:24
Alignment explanation
Indices: 93861943--93862005 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
93861933 CATGTTATCT
*
93861943 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
93861969 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
93861994 TACATATTTTTT
1 TATGTATTTTTT
93862006 TTTCATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:93862136 original size:18 final size:19
Alignment explanation
Indices: 93862087--93862137 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
93862077 TTCAAACACT
*
93862087 ATATATAGTATATTTCTAAC
1 ATATATA-TATATTTATAAC
93862107 A-ATAT-TACTATTTATAA-
1 ATATATATA-TATTTATAAC
93862124 ATATATATATATTT
1 ATATATATATATTT
93862138 TACGTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 3 0.11
18 17 0.63
19 6 0.22
20 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATATATATTTATAAC
Found at i:93873243 original size:12 final size:12
Alignment explanation
Indices: 93873226--93873257 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
93873216 GCATCTTAAA
93873226 AAAAGAGAAAAG
1 AAAAGAGAAAAG
*
93873238 AAAAGAAAAAAG
1 AAAAGAGAAAAG
93873250 AAAAGAGA
1 AAAAGAGA
93873258 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAAG
Found at i:93874314 original size:13 final size:13
Alignment explanation
Indices: 93874270--93874314 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
93874260 CGCCGAGGTA
93874270 TTTTTAATTTCTG
1 TTTTTAATTTCTG
93874283 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
93874297 CTTTTAATTTCTG
1 TTTTTAATTTCTG
93874310 TTTTT
1 TTTTT
93874315 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:93874379 original size:100 final size:101
Alignment explanation
Indices: 93874182--93874576 Score: 432
Period size: 100 Copynumber: 4.1 Consensus size: 101
93874172 CGCTGAGGTA
* ** * * *
93874182 TTTTCAATTTCCGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGATGTGAGCT
1 TTTTCAATTTCTGCCTTTT-AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
93874247 GAGCCTCAGGGCACGCCGAGGTATTTTTAATTTCTGT
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
*
93874284 TTTTCAATTTCTG-CTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
93874348 AGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
66 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
* ** * *
93874384 TTTTCAATTTTTGCCTTACAAATTCT-TCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTCTGCCTTTTAATTTATGT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
93874446 GAGCCTCAGGACACG-TGAGGTATTTTCAA-------
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
** *
93874475 TTTTC---TT-T---TTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTT
1 TTTTCAATTTCTGCCTTTTAATTTATGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
93874533 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
*
93874570 TTGTCAA
1 TTTTCAA
93874577 AACTAACTCA
Statistics
Matches: 255, Mismatches: 22, Indels: 37
0.81 0.07 0.12
Matches are distributed among these distances:
84 9 0.04
85 2 0.01
87 44 0.17
88 15 0.06
91 5 0.02
95 4 0.02
98 14 0.05
99 43 0.17
100 89 0.35
101 18 0.07
102 12 0.05
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (101 bp):
TTTTCAATTTCTGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
Found at i:93874901 original size:74 final size:74
Alignment explanation
Indices: 93874483--93875160 Score: 837
Period size: 73 Copynumber: 9.3 Consensus size: 74
93874473 AATTTTCTTT
* * * *
93874483 TTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
93874547 GCTGAGGTAA
66 GTTGAGGT-A
* * * * *
93874557 TTTCAATTTTTGTTTGTC--AAAACT-AACTCATATTGCAAGA-GTGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
93874618 GTTGAGGTA
66 GTTGAGGTA
* *
93874627 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
93874692 CGCTGAGGTAA
65 CGTTGAGGT-A
* * *
93874703 TTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
93874766 GTTGAGGTA
66 GTTGAGGTA
* * * *
93874775 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
93874840 CGTTGAGGTA
65 CGTTGAGGTA
* * *
93874850 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAACCTCAAG--AC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
93874913 GCTGAGGTAA
66 GTTGAGGT-A
* * *
93874923 TTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
93874986 GTTGAGGTA
66 GTTGAGGTA
* * * *
93874995 TTTCAATTTCTATCTTTCAAAAAAATCAGCT-ATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
93875059 GTTGAGGTA
66 GTTGAGGTA
* * * *
93875068 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATT-CGAGAGGTGAGTTGAACCTCAAG--A
1 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
93875130 CGCTGAGGTG
65 CGTTGAGGTA
* *
93875140 TTTTCCATTTCTGTTCTTCAA
1 TTTT-AATTTCTGTTTTTCAA
93875161 TTTCTGTGTT
Statistics
Matches: 531, Mismatches: 56, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
70 4 0.01
71 77 0.15
72 69 0.13
73 140 0.26
74 137 0.26
75 100 0.19
76 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GTTGAGGTA
Found at i:93875032 original size:293 final size:293
Alignment explanation
Indices: 93874500--93875160 Score: 939
Period size: 293 Copynumber: 2.3 Consensus size: 293
93874490 TTATGTTTCT
* * * * *
93874500 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGT-ATTTTAATT
* * * * * * *
93874565 TTTGTTTGTC--AAAACTAACTCATATTGCAAGAGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
65 TCTGTTTTTCAAAAAAATAACTCATATTACAAGAGTGAGTTGAACCTCAAGA-ACGCTGAGGTAA
* * *
93874628 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACAC
129 TTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* *
93874693 GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
193 GCTGAGGTAATTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
93874758 CAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTA
258 CAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTA
*
93874794 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTAATTT
1 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTATTTTAATTT
93874859 CTGTTTTTCAAAAAAATCAACTCATATTACGATAG-GTGAGTTGAACCTCAAG-ACGCTGAGGTA
66 CTGTTTTTCAAAAAAAT-AACTCATATTAC-A-AGAGTGAGTTGAACCTCAAGAACGCTGAGGTA
*
93874922 ATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
128 ATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* *
93874986 GTTGAGGT-ATTTCAATTTCTATCTT-TCAAAAAAATCAGCT-ATATTGCGAGAGGTGAGTTGAG
193 GCTGAGGTAATTTCAATTTCTAT-TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
93875048 CCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTA
255 CCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTA
* *
93875087 AAAAAAATCAGCTCATATT-CGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTGTTTTCCATT
1 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTATTTT-AATT
*
93875149 TCTGTTCTTCAA
65 TCTGTTTTTCAA
93875161 TTTCTGTGTT
Statistics
Matches: 333, Mismatches: 25, Indels: 21
0.88 0.07 0.06
Matches are distributed among these distances:
290 13 0.04
291 14 0.04
292 37 0.11
293 148 0.44
294 60 0.18
295 31 0.09
296 11 0.03
297 17 0.05
298 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (293 bp):
AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTATTTTAATTT
CTGTTTTTCAAAAAAATAACTCATATTACAAGAGTGAGTTGAACCTCAAGAACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
GAGGTAATTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTATTTTCAATTTCTGTCTTTA
Found at i:93875266 original size:15 final size:14
Alignment explanation
Indices: 93875230--93875262 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
93875220 CGCTGAGGTA
93875230 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
93875244 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
93875258 TTTTC
1 TTTTC
93875263 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:93875376 original size:89 final size:87
Alignment explanation
Indices: 93875068--93875641 Score: 467
Period size: 91 Copynumber: 6.5 Consensus size: 87
93875058 CGTTGAGGTA
* * * * *
93875068 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATT-CGAGAGGTGAGTTGAACCTCA-AGAC
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
* *
93875131 GCTGAGGTGTTTTCCATTTCTGT
65 GCTGAGGTATTTTCAATTTCTGT
* * * * **
93875154 TCTTCAATTTCTGTGTTT-AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGA
*
93875218 CACGCTGAGGTATTTTCAAATTCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* *
93875244 TTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGACA
1 TTTTC-AATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* *
93875308 CGCTGAGATATTTTCAATTTCTTTT
64 CGCTGAGGTATTTTCAATTTC-TGT
*
93875333 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
* * * *
93875398 CACCCGAGGTATTTTCAATTGATTTTTT
64 C-GCTGAGGTATTTTCAA-T--TTCTGT
* * * *
93875426 TTTTCAATTTATGCTTTGC--AAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG--A
** **
93875489 CATACTGAGGTATTTTCAAAATCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* * ** *
93875515 TTTACAAATTT-TGTTTT---AAAAAT-AACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA
1 TTTTC-AATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACA
*
93875575 CGTGCTGAGCTATTTTCAATTTCTGT
64 C--GCTGAGGTATTTTCAATTTCTGT
* * *
93875601 TTTT-AATGTT-TAGTTTT--AAAGAGTCAATTCATATTGCGAGA
1 TTTTCAAT-TTAT-GTTTTCAAAAAAATCAACTCATATTGCGAGA
93875642 AATGAGTTAA
Statistics
Matches: 407, Mismatches: 54, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
84 6 0.01
85 24 0.06
86 86 0.21
87 11 0.03
88 49 0.12
89 61 0.15
90 41 0.10
91 88 0.22
92 16 0.04
93 19 0.05
94 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (87 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:93876313 original size:27 final size:28
Alignment explanation
Indices: 93876283--93876399 Score: 163
Period size: 27 Copynumber: 4.2 Consensus size: 28
93876273 GCCTTTGCCA
93876283 CCACCA-ACTCCACTAGCCACACTTGCT
1 CCACCACACTCCACTAGCCACACTTGCT
93876310 CCACCA-ACTCCACTAGCCACACTTGCT
1 CCACCACACTCCACTAGCCACACTTGCT
93876337 CCACCACTACTCCACTAG-CACACTTG-T
1 CCACCAC-ACTCCACTAGCCACACTTGCT
*
93876364 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCA-C-ACTCCACTAGCCACACTTGCT
93876394 -CACCAC
1 CCACCAC
93876400 CACTTGTACC
Statistics
Matches: 84, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
27 40 0.48
28 20 0.24
29 23 0.27
30 1 0.01
ACGTcount: A:0.26, C:0.48, G:0.07, T:0.20
Consensus pattern (28 bp):
CCACCACACTCCACTAGCCACACTTGCT
Found at i:93876377 original size:57 final size:56
Alignment explanation
Indices: 93876280--93876399 Score: 165
Period size: 57 Copynumber: 2.1 Consensus size: 56
93876270 CTAGCCTTTG
93876280 CCACCACCAACTCCACTAGCCACACTTGCTCCACCAACTCCACTAGCCACACTTGCT
1 CCACCA-CAACTCCACTAGCCACACTTGCTCCACCAACTCCACTAGCCACACTTGCT
* *
93876337 CCACCACTACTCCACTAG-CACACTTG-TCCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACAACTCCACTAGCCACACTTGCTCCACCA---ACTCCACTAGCCACACTTGCT
93876394 -CACCAC
1 CCACCAC
93876400 CACTTGTACC
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
54 7 0.12
55 8 0.14
56 17 0.29
57 26 0.45
ACGTcount: A:0.26, C:0.48, G:0.07, T:0.19
Consensus pattern (56 bp):
CCACCACAACTCCACTAGCCACACTTGCTCCACCAACTCCACTAGCCACACTTGCT
Found at i:93876896 original size:23 final size:23
Alignment explanation
Indices: 93876862--93876994 Score: 69
Period size: 22 Copynumber: 5.7 Consensus size: 23
93876852 CTTTTTTTGT
93876862 TATTAT-TATATTTTTAATATTA
1 TATTATATATATTTTTAATATTA
*
93876884 TATTATATATATTCTTT--TAATA
1 TATTATATATATT-TTTAATATTA
** * *
93876906 TATTAGGTATATTCTAAAT-TCTA
1 TATTATATATATTTTTAATAT-TA
* * *
93876929 TATTACGTATATATATTATACTATTT
1 TATTA--TATATAT-TTTTAATATTA
* * *
93876955 TA-TGTATATATCTTTAATACTA
1 TATTATATATATTTTTAATATTA
93876977 TATTATTTATATATTTTT
1 TATTA--TATATATTTTT
93876995 TTTCTACATG
Statistics
Matches: 78, Mismatches: 21, Indels: 21
0.65 0.17 0.17
Matches are distributed among these distances:
21 1 0.01
22 29 0.37
23 22 0.28
24 3 0.04
25 16 0.21
26 6 0.08
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTTTTAATATTA
Found at i:93876964 original size:25 final size:25
Alignment explanation
Indices: 93876868--93877068 Score: 80
Period size: 25 Copynumber: 8.2 Consensus size: 25
93876858 TTGTTATTAT
* * *
93876868 TATATTTTTAATATTATATTATATA
1 TATATATTTAATACTATATTATGTA
* * *
93876893 TAT-TCTTT--TAATATATTAGGTA
1 TATATATTTAATACTATATTATGTA
* * * *
93876915 TAT-T-CTAAATTCTATATTACGTA
1 TATATATTTAATACTATATTATGTA
*
93876938 TATATA-TT-ATACTATTTTATGTA
1 TATATATTTAATACTATATTATGTA
* *
93876961 TATATCTTTAATACTATATTATTTA
1 TATATATTTAATACTATATTATGTA
* ** *
93876986 TATATTTTTTTTCTACATGTTATCTTATGTA
1 TATA----TATT-TA-ATACTATATTATGTA
93877017 TATAT-TTTAAT--TATATTATGTA
1 TATATATTTAATACTATATTATGTA
* * * *
93877039 TGTATTTTTTACACTATATTATGTA
1 TATATATTTAATACTATATTATGTA
*
93877064 CATAT
1 TATAT
93877069 TTTTTTTATT
Statistics
Matches: 134, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
21 1 0.01
22 29 0.22
23 35 0.26
24 10 0.07
25 36 0.27
26 2 0.01
27 1 0.01
29 3 0.02
30 2 0.01
31 15 0.11
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATTTAATACTATATTATGTA
Found at i:93877024 original size:27 final size:28
Alignment explanation
Indices: 93876953--93877060 Score: 86
Period size: 27 Copynumber: 4.0 Consensus size: 28
93876943 ATTATACTAT
93876953 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
93876982 TTTATATAT-TTTTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
93877008 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
93877035 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
93877060 T
1 T
93877061 GTACATATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.15
26 13 0.21
27 19 0.31
28 8 0.13
29 8 0.13
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:93877204 original size:16 final size:17
Alignment explanation
Indices: 93877160--93877205 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
93877150 CAAACACTAT
*
93877160 ATATAGTATATTTCTAAC
1 ATATA-TATATTTATAAC
93877178 ATAT-TACTATTTATAA-
1 ATATATA-TATTTATAAC
93877194 ATATATATATTT
1 ATATATATATTT
93877206 TACGTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 11 0.44
17 10 0.40
18 4 0.16
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATATATATTTATAAC
Found at i:93880831 original size:16 final size:16
Alignment explanation
Indices: 93880806--93880838 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93880796 TTATTTATAT
*
93880806 TTATTCATATAATAAA
1 TTATTAATATAATAAA
93880822 TTATTAATATAATAAA
1 TTATTAATATAATAAA
93880838 T
1 T
93880839 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:93880842 original size:22 final size:22
Alignment explanation
Indices: 93880817--93880860 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93880807 TATTCATATA
93880817 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
93880839 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
93880861 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:93880908 original size:16 final size:16
Alignment explanation
Indices: 93880887--93880920 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
93880877 TTTATTTTAG
93880887 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
93880903 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
93880919 TA
1 TA
93880921 TTATTCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:93883784 original size:2 final size:2
Alignment explanation
Indices: 93883779--93883809 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
93883769 AGCTTGCTTT
*
93883779 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
93883810 TTTCTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93888693 original size:40 final size:41
Alignment explanation
Indices: 93888622--93888698 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
93888612 CTATTTTATT
*
93888622 ATTTAAAAAAATTATTGAATAAATATATATTTATAAGTAAA
1 ATTTAAAAAAATGATTGAATAAATATATATTTATAAGTAAA
93888663 ATTTAATAAAAATGATT-AA-AAAT-TCATATTTATAAG
1 ATTTAA-AAAAATGATTGAATAAATAT-ATATTTATAAG
93888699 AAGACAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 1 0.03
40 15 0.45
41 8 0.24
42 9 0.27
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (41 bp):
ATTTAAAAAAATGATTGAATAAATATATATTTATAAGTAAA
Found at i:93893019 original size:21 final size:21
Alignment explanation
Indices: 93892995--93893037 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
93892985 CGAGCAAAAG
93892995 TAAGCCTCTCTGCCTAATGAA
1 TAAGCCTCTCTGCCTAATGAA
93893016 TAAGCCTCTCTGCCTAATGAA
1 TAAGCCTCTCTGCCTAATGAA
93893037 T
1 T
93893038 TTCAACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (21 bp):
TAAGCCTCTCTGCCTAATGAA
Found at i:93907032 original size:145 final size:145
Alignment explanation
Indices: 93906769--93907035 Score: 347
Period size: 145 Copynumber: 1.8 Consensus size: 145
93906759 TCCTACTTAA
* *
93906769 ATATTCTACTATGAATTTCGAACATTATAAACTTATAAATTGATTATTTGAATTTAATAAATCAT
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTAATTGAATTTAATAAATCAT
* * * * * * *
93906834 GATAAATTGATTTATTTATTTTGATAACTCATAAAAATTAATTGAGCCTGTTAGATTTATGATCA
66 GATAAATTAAATAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATTTATGATCA
93906899 ATCACGTGTAAGAAT
131 ATCACGTGTAAGAAT
* * * *
93906914 ATATTTTACTATGAATTTGGGACATCATAAACTTATAAATTGATTAATTGAGTTTAATAACA-CA
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTAATTGAATTTAATAA-ATCA
* * *** *
93906978 TTATTAATTAAATAATTTAATTTGATAACCCATATTGATTAATTAAACTTGTTAGATT
65 TGATAAATTAAATAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATT
93907036 AATAATCCTC
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
145 101 0.99
146 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (145 bp):
ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTAATTGAATTTAATAAATCAT
GATAAATTAAATAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATTTATGATCA
ATCACGTGTAAGAAT
Found at i:93907294 original size:17 final size:16
Alignment explanation
Indices: 93907274--93907307 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
93907264 ACCTCTCTAT
93907274 AACAATTAATGCTATTA
1 AACAATTAATGC-ATTA
93907291 AACAATTAATGCATTA
1 AACAATTAATGCATTA
93907307 A
1 A
93907308 GCTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
AACAATTAATGCATTA
Found at i:93909824 original size:29 final size:31
Alignment explanation
Indices: 93909784--93909847 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
93909774 ATAGTTTATG
*
93909784 TTTTTATAATTTTTAAAAAGTTAA-ATCAAA
1 TTTTTATAATTTTTAAAAAGTTAATATAAAA
*
93909814 TTTTTAT-ATTTTTAAAGAGTTAATATAAAA
1 TTTTTATAATTTTTAAAAAGTTAATATAAAA
93909844 TTTT
1 TTTT
93909848 ATTATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAAAGTTAATATAAAA
Found at i:93909848 original size:29 final size:29
Alignment explanation
Indices: 93909785--93909858 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
93909775 TAGTTTATGT
*
93909785 TTTTATAATTTTTAAAAAGTTAAATCAAAT
1 TTTTAT-ATTTTTAAAAAGTTAAATCAAAA
*
93909815 TTTTATATTTTTAAAGAGTTAATAT-AAAA
1 TTTTATATTTTTAAAAAGTTAA-ATCAAAA
*
93909844 TTTTATTATTATTAA
1 TTTTA-TATTTTTAA
93909859 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTTATATTTTTAAAAAGTTAAATCAAAA
Found at i:93916093 original size:30 final size:31
Alignment explanation
Indices: 93916057--93916114 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
93916047 TTGGTAACCG
93916057 AACTATTCAAAAT-TTTTATTTAAGTCACCA
1 AACTATTCAAAATGTTTTATTTAAGTCACCA
93916087 AACTATTCAAAATGTTTTATTTAAGTCA
1 AACTATTCAAAATGTTTTATTTAAGTCA
93916115 TTAAGCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAATGTTTTATTTAAGTCACCA
Found at i:93917516 original size:21 final size:21
Alignment explanation
Indices: 93917486--93917575 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
93917476 CAAGATAAAT
93917486 ATTAGATTAAATTTAATATTAA
1 ATTA-ATTAAATTTAATATTAA
93917508 ATTAATTAAATTTAATATTAA
1 ATTAATTAAATTTAATATTAA
* *
93917529 GA-TAA-TCACTTTAATATT--
1 -ATTAATTAAATTTAATATTAA
93917547 A--AATTAAATTTAATATTAA
1 ATTAATTAAATTTAATATTAA
93917566 ATCT-ATTAAA
1 AT-TAATTAAA
93917576 ATAATAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
16 2 0.04
17 12 0.21
19 1 0.02
20 11 0.19
21 26 0.46
22 5 0.09
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAATTAAATTTAATATTAA
Found at i:93917565 original size:17 final size:17
Alignment explanation
Indices: 93917483--93917567 Score: 82
Period size: 17 Copynumber: 4.6 Consensus size: 17
93917473 TATCAAGATA
*
93917483 AATATTAGATTAAATTT
1 AATATTAAATTAAATTT
93917500 AATATTAAATTAATTAAATTT
1 AATATT--A--AATTAAATTT
93917521 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
93917541 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
93917558 AATATTAAAT
1 AATATTAAAT
93917568 CTATTAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 18
0.75 0.01 0.23
Matches are distributed among these distances:
17 23 0.40
18 2 0.03
19 4 0.07
20 14 0.24
21 15 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:93920186 original size:8 final size:8
Alignment explanation
Indices: 93920173--93920199 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
93920163 CCACTGAACT
93920173 AATAATAA
1 AATAATAA
93920181 AATAATAA
1 AATAATAA
93920189 AATAATAA
1 AATAATAA
93920197 AAT
1 AAT
93920200 TGCCAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:93920979 original size:19 final size:19
Alignment explanation
Indices: 93920936--93920993 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
93920926 TTTTATTCCA
93920936 TTTTCTTCTT-TGTCACTT-T
1 TTTTCTTCTTCT-TCA-TTAT
*
93920955 TGTTCTTCTTCTTCATTAT
1 TTTTCTTCTTCTTCATTAT
93920974 TTTTCTT-TTCTT--TTAT
1 TTTTCTTCTTCTTCATTAT
93920990 TTTT
1 TTTT
93920994 GCTAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 8 0.23
18 7 0.20
19 19 0.54
20 1 0.03
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTCTTCTTCTTCATTAT
Found at i:93935010 original size:21 final size:21
Alignment explanation
Indices: 93934971--93935010 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
93934961 ATTTTTTTTA
**
93934971 TATATTCTTTAAATTTATTAT
1 TATATTCTTTAAAAATATTAT
*
93934992 TATATTTTTTAAAAATATT
1 TATATTCTTTAAAAATATT
93935011 TATGTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATTCTTTAAAAATATTAT
Found at i:93938121 original size:12 final size:12
Alignment explanation
Indices: 93938106--93938150 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
93938096 TTCCAAAGGC
93938106 AGATACAAATGT
1 AGATACAAATGT
* *
93938118 AGATACAGATTT
1 AGATACAAATGT
* *
93938130 AGTTACAGATGT
1 AGATACAAATGT
93938142 AGATACAAA
1 AGATACAAA
93938151 CTCAGATACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (12 bp):
AGATACAAATGT
Found at i:93938146 original size:36 final size:36
Alignment explanation
Indices: 93938069--93938163 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 36
93938059 ACAAACAAAA
* *
93938069 TAGATACAAATGCA-AGTATAGATTTAGTTCCAAAGG
1 TAGATACAAATGCAGA-TACAGATTTAGTTACAAAGG
* * * *
93938105 CAGATACAAATGTAGATACAGATTTAGTTACAGATG
1 TAGATACAAATGCAGATACAGATTTAGTTACAAAGG
93938141 TAGATACAAACT-CAGATACAGAT
1 TAGATACAAA-TGCAGATACAGAT
93938164 GCTGACACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 47 0.96
37 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (36 bp):
TAGATACAAATGCAGATACAGATTTAGTTACAAAGG
Found at i:93938160 original size:24 final size:24
Alignment explanation
Indices: 93938105--93938164 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
93938095 GTTCCAAAGG
* * *
93938105 CAGATACAAATGTAGATACAGATT
1 CAGATACAGATGTAGATACAAACT
* *
93938129 TAGTTACAGATGTAGATACAAACT
1 CAGATACAGATGTAGATACAAACT
93938153 CAGATACAGATG
1 CAGATACAGATG
93938165 CTGACACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (24 bp):
CAGATACAGATGTAGATACAAACT
Found at i:93938173 original size:24 final size:25
Alignment explanation
Indices: 93938133--93938189 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
93938123 CAGATTTAGT
*
93938133 TACAGATG-TAGATACAAACT-CAGA
1 TACAGATGCTAGACACAAA-TGCAGA
*
93938157 TACAGATGCT-GACACAAATGCGGA
1 TACAGATGCTAGACACAAATGCAGA
93938181 TACAGATGC
1 TACAGATGC
93938190 AAACACTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (25 bp):
TACAGATGCTAGACACAAATGCAGA
Found at i:93938206 original size:24 final size:24
Alignment explanation
Indices: 93938146--93938223 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
93938136 AGATGTAGAT
* **
93938146 ACAAACTCAGATACAGATGCTGAC
1 ACAAATTCAGATACAGATGCAAAC
* *
93938170 ACAAATGCGGATACAGATGCAAAC
1 ACAAATTCAGATACAGATGCAAAC
** *
93938194 ACTGATTCAGATACA-ATTACAAAC
1 ACAAATTCAGATACAGA-TGCAAAC
93938218 ACAAAT
1 ACAAAT
93938224 CCTACCCTCA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (24 bp):
ACAAATTCAGATACAGATGCAAAC
Found at i:93939199 original size:13 final size:13
Alignment explanation
Indices: 93939181--93939206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93939171 CAACCCAAAT
93939181 ACCACCCCACTAA
1 ACCACCCCACTAA
93939194 ACCACCCCACTAA
1 ACCACCCCACTAA
93939207 CTCCATCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.54, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:93939601 original size:3 final size:3
Alignment explanation
Indices: 93939593--93939621 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
93939583 GGGGAGAGTG
93939593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
93939622 CTATATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:93939733 original size:26 final size:24
Alignment explanation
Indices: 93939688--93939745 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
93939678 ATTAATTTAT
*
93939688 TATTATT-TTCACCTTTTTATTAC
1 TATTATTATTAACCTTTTTATTAC
* *
93939711 TATTATTATTAACC-TATTATTAT
1 TATTATTATTAACCTTTTTATTAC
*
93939734 TATTTTTATTAA
1 TATTATTATTAA
93939746 TATAGTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATTATTAACCTTTTTATTAC
Found at i:93939754 original size:23 final size:23
Alignment explanation
Indices: 93939705--93939756 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
93939695 TTCACCTTTT
* * *
93939705 TATTACTATTATTATTAACCTAT
1 TATTATTATTATTATTAACATAG
* *
93939728 TATTATTATTTTTATTAATATAG
1 TATTATTATTATTATTAACATAG
93939751 TATTAT
1 TATTAT
93939757 CTTCTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATTATTATTAACATAG
Found at i:93939908 original size:3 final size:3
Alignment explanation
Indices: 93939900--93939925 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93939890 AATCAATTTA
93939900 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
93939926 CATTTTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:93943547 original size:45 final size:46
Alignment explanation
Indices: 93943475--93943598 Score: 144
Period size: 45 Copynumber: 2.7 Consensus size: 46
93943465 CTGCAAACTT
* * * * *
93943475 TTTATCT-AAAAATAATGATGATTTACCCACAATTTTTACTAGTAG
1 TTTATCTGCAAAATAATGGTGGTTTACCCACAATTTTTACTAGGAA
* *
93943520 TTTGTCTG-AAAATAATGGTGGTTTACCCACAATTTTTACTGGGAA
1 TTTATCTGCAAAATAATGGTGGTTTACCCACAATTTTTACTAGGAA
* * *
93943565 TTTATCTGCAAATTATTGGTGGTTTATCCACAAT
1 TTTATCTGCAAAATAATGGTGGTTTACCCACAAT
93943599 GCGGTGTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 45 0.67
46 22 0.33
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTATCTGCAAAATAATGGTGGTTTACCCACAATTTTTACTAGGAA
Found at i:93947627 original size:26 final size:25
Alignment explanation
Indices: 93947598--93947686 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 25
93947588 CCACATTATA
93947598 AAAATATAATTTTTTATAAATTCATT
1 AAAATAT-ATTTTTTATAAATTCATT
* * **
93947624 AAAATATATATTTTA-AATTTTTTT
1 AAAATATATTTTTTATAAATTCATT
*
93947648 ATAAGT-TATATTTTTATAAATTCATT
1 A-AAATATAT-TTTTTATAAATTCATT
93947674 AAAAATATATTTT
1 -AAAATATATTTT
93947687 CAAAAATATA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
24 10 0.21
25 15 0.31
26 19 0.40
27 4 0.08
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (25 bp):
AAAATATATTTTTTATAAATTCATT
Found at i:93956637 original size:15 final size:15
Alignment explanation
Indices: 93956617--93956647 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93956607 CTTTTATCAC
93956617 ATATTATGAGCCCAT
1 ATATTATGAGCCCAT
93956632 ATATTATGAGCCCAT
1 ATATTATGAGCCCAT
93956647 A
1 A
93956648 CACAGTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
ATATTATGAGCCCAT
Found at i:93971403 original size:25 final size:26
Alignment explanation
Indices: 93971361--93971409 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
93971351 ATTATTATTA
*
93971361 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
93971386 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
93971410 CAAAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:93972945 original size:23 final size:23
Alignment explanation
Indices: 93972927--93973045 Score: 169
Period size: 21 Copynumber: 5.4 Consensus size: 23
93972917 AGGCACTTTA
93972927 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
93972950 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
93972973 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
93972994 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
93973015 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
93973036 TGTGTCGTAT
1 TGTGTCGTAT
93973046 ACTGATCAGG
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
21 56 0.62
22 2 0.02
23 32 0.36
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.36
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:93979292 original size:25 final size:26
Alignment explanation
Indices: 93979250--93979298 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
93979240 ATTATTATTA
*
93979250 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
93979275 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
93979299 CAAAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:93990916 original size:20 final size:21
Alignment explanation
Indices: 93990886--93990931 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
93990876 TATTATTATT
* *
93990886 AAAAGTAAAGTAAATAGAAAG
1 AAAAGTAAAGTAAAAACAAAG
93990907 AAAA-TAAAGTAAAAACAAAG
1 AAAAGTAAAGTAAAAACAAAG
93990927 AAAAG
1 AAAAG
93990932 AAACAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (21 bp):
AAAAGTAAAGTAAAAACAAAG
Found at i:93992447 original size:23 final size:23
Alignment explanation
Indices: 93992429--93992523 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
93992419 AGGCACTTTA
93992429 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
93992452 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
93992475 TGTGTCGTA--TCAGGCA-CTCG
1 TGTGTCGTATTTCAGGCACCTCG
93992495 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
93992516 TGTGTCGT
1 TGTGTCGT
93992524 TTAGGCACTT
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
20 20 0.28
21 19 0.27
23 32 0.45
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:93992470 original size:46 final size:41
Alignment explanation
Indices: 93992416--93992532 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 41
93992406 GGCTTTACTG
* *
93992416 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCA-CTCGTGTGTCGT
*
93992460 ATTTCAGGCACCTCGTGTGTCGTATCAGGCACTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGTATCAGGCACTCGTGTGTCGT
* *
93992503 ATCAGGCACCTCGTGTGTCGT-TTAGGCACT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACT
93992533 TTATGTGTCG
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.12
41 20 0.30
43 13 0.19
44 8 0.12
46 18 0.27
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACTCGTGTGTCGT
Found at i:93992496 original size:20 final size:21
Alignment explanation
Indices: 93992429--93992545 Score: 148
Period size: 20 Copynumber: 5.5 Consensus size: 21
93992419 AGGCACTTTA
93992429 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
93992452 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
93992475 TGTGTCGTATCAGGCA-CTCG
1 TGTGTCGTATCAGGCACCTCG
93992495 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * **
93992516 TGTGTCGT-TTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
93992536 TGTGTCGTAT
1 TGTGTCGTAT
93992546 ACTGATCAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
20 36 0.41
21 20 0.23
23 32 0.36
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Done.