Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 89 of 106
Found at i:33985191 original size:14 final size:15
Alignment explanation
Indices: 33985061--33985199 Score: 58
Period size: 14 Copynumber: 9.5 Consensus size: 15
33985051 TTATTTTATT
33985061 TTTTAATATTATTTTTA
1 TTTTAATA-TA-TTTTA
*
33985078 TATT-ATATATTTTA
1 TTTTAATATATTTTA
* * *
33985092 TTTTTATTTCTTTTA
1 TTTTAATATATTTTA
* * **
33985107 CTTATATTATA-TAAA
1 -TTTTAATATATTTTA
* * *
33985122 TTTTAATTTCTTATA
1 TTTTAATATATTTTA
*
33985137 TTTT-ATTTATTTTA
1 TTTTAATATATTTTA
* *
33985151 ATTT-CTA-ATTCTTA
1 TTTTAATATATT-TTA
*
33985165 TATT-ATATATTTTA
1 TTTTAATATATTTTA
33985179 TTTTAATAT-TTTTA
1 TTTTAATATATTTTA
33985193 TTTTAAT
1 TTTTAAT
33985200 TATAACATTA
Statistics
Matches: 91, Mismatches: 25, Indels: 15
0.69 0.19 0.11
Matches are distributed among these distances:
13 3 0.03
14 51 0.56
15 26 0.29
16 8 0.09
17 3 0.03
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATATATTTTA
Found at i:33985981 original size:2 final size:2
Alignment explanation
Indices: 33985934--33985966 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33985924 CATCCATAAT
33985934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33985967 GAAACTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33986874 original size:23 final size:23
Alignment explanation
Indices: 33986859--33986912 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
33986849 ATAAATAAAG
*
33986859 TTTAT-TATAAATTATAGTAATA
1 TTTATGTATAAATTATAATAATA
33986881 TTTATGTATAAATTA-AAT-ATA
1 TTTATGTATAAATTATAATAATA
* *
33986902 TGTATATATAA
1 TTTATGTATAA
33986913 TATATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.43
22 7 0.25
23 9 0.32
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
TTTATGTATAAATTATAATAATA
Found at i:33986905 original size:17 final size:17
Alignment explanation
Indices: 33986883--33986928 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
33986873 TAGTAATATT
33986883 TATGTATAAATTAAATA
1 TATGTATAAATTAAATA
*
33986900 TATGTATATA-T-AATA
1 TATGTATAAATTAAATA
*
33986915 TATTTATACAATTA
1 TATGTATA-AATTA
33986929 TATAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (17 bp):
TATGTATAAATTAAATA
Found at i:33987056 original size:21 final size:20
Alignment explanation
Indices: 33987019--33987057 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33987009 CTATCATATA
*
33987019 TTATAATATTAACATATAAG
1 TTATAATATTAAAATATAAG
*
33987039 TTATATTATTTAAAATATA
1 TTATAATA-TTAAAATATA
33987058 TAACTTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATAATATTAAAATATAAG
Found at i:33987083 original size:2 final size:2
Alignment explanation
Indices: 33987072--33987111 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
33987062 TTGTAATTTC
33987072 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33987112 GCCAGTTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33992590 original size:17 final size:18
Alignment explanation
Indices: 33992556--33992593 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
33992546 AGTGGTGATG
33992556 GCAGTAGAGACAGAGGCA
1 GCAGTAGAGACAGAGGCA
*
33992574 GCAGTAGA-ACAGTGGCA
1 GCAGTAGAGACAGAGGCA
33992591 GCA
1 GCA
33992594 ACATTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.18, G:0.37, T:0.08
Consensus pattern (18 bp):
GCAGTAGAGACAGAGGCA
Found at i:33993976 original size:46 final size:48
Alignment explanation
Indices: 33993921--33994023 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
33993911 TCCAAAACCA
33993921 AGGGAAGAGACTTTCACCAATTATA-TGTTTTCTAAACTACACAAGCG
1 AGGGAAGAGACTTTCACCAATTATAGTGTTTTCTAAACTACACAAGCG
* * * *
33993968 AGGG-AGAGACTTTCTCCAATTATAGGTTTTTTCTTAACTACACAAGCA
1 AGGGAAGAGACTTTCACCAATTATA-GTGTTTTCTAAACTACACAAGCG
*
33994016 AGAGAAGA
1 AGGGAAGA
33994024 AATGGTTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 19 0.40
47 4 0.08
48 22 0.46
49 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (48 bp):
AGGGAAGAGACTTTCACCAATTATAGTGTTTTCTAAACTACACAAGCG
Found at i:33997294 original size:2 final size:2
Alignment explanation
Indices: 33997281--33997342 Score: 69
Period size: 2 Copynumber: 32.5 Consensus size: 2
33997271 AGTTAAATTT
*
33997281 TA TA TG TA TA TA TA T- TGA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
*
33997323 TA AA TA -A TA TA -A TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
33997343 CTTGGATTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
1 4 0.08
2 46 0.90
3 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34000176 original size:72 final size:73
Alignment explanation
Indices: 34000007--34000202 Score: 209
Period size: 72 Copynumber: 2.7 Consensus size: 73
33999997 AAATTACAGA
* * * *
34000007 CAGAGAGCTCTTAGTCAACTAACT-TTCTTCTTGGTCGACTAAGTTGGTTCTATCTTCTAATCGT
1 CAGAGAGCTTTTAGTCAACTAACTCAT-TTCTTGGTCGACTAAGTTGGTTCTATCTTCGAATCGC
34000071 AGATTCTAG
65 AGATTCTAG
* * * * * *
34000080 CAAAGAGCATTTAGTCGACTAACTCATTTCTTGGTTGACTAAGTTGGTTTTGTCTT-GAAGTC-C
1 CAGAGAGCTTTTAGTCAACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTATCTTCGAA-TCGC
* *
34000143 AGATTTTGG
65 AGATTCTAG
* ** *
34000152 CAGAGAGCTTTTAGTCTACTAACTCACATCTTGGTCGACTAAGTCGGTTCT
1 CAGAGAGCTTTTAGTCAACTAACTCATTTCTTGGTCGACTAAGTTGGTTCT
34000203 GTTTCTCAAT
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
72 52 0.51
73 48 0.48
74 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (73 bp):
CAGAGAGCTTTTAGTCAACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTATCTTCGAATCGCA
GATTCTAG
Found at i:34007043 original size:26 final size:23
Alignment explanation
Indices: 34006988--34007041 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
34006978 CTTTCAACAA
34006988 CTTCTTCTCCCATTTTATAGCAG
1 CTTCTTCTCCCATTTTATAGCAG
*
34007011 CTTCTTCTCCCATTTTCTAGCAG
1 CTTCTTCTCCCATTTTATAGCAG
34007034 CTTCTTCT
1 CTTCTTCT
34007042 TCTTCTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.13, C:0.33, G:0.07, T:0.46
Consensus pattern (23 bp):
CTTCTTCTCCCATTTTATAGCAG
Found at i:34007900 original size:42 final size:42
Alignment explanation
Indices: 34007853--34007993 Score: 149
Period size: 42 Copynumber: 3.4 Consensus size: 42
34007843 GTAATGATAT
*
34007853 TGACCCAACTATGTGTGAGTAGGAGTGTGCATAAGTCGATGC
1 TGACCCAACTATGTGTGAGTAGGAGTGTGCATAAGCCGATGC
* * *
34007895 TGACCCAGCTATGTGCGAGT-GAGAGAGTGCATAAGCCGATGC
1 TGACCCAACTATGTGTGAGTAG-GAGTGTGCATAAGCCGATGC
* *** ** *
34007937 TGACTCGGTTATGTGTGAGTAGGAGTACGCATAAGCCGATTC
1 TGACCCAACTATGTGTGAGTAGGAGTGTGCATAAGCCGATGC
* *
34007979 TAACCCAACCATGTG
1 TGACCCAACTATGTG
34007994 CTAGTGGGAG
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 77 0.97
43 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (42 bp):
TGACCCAACTATGTGTGAGTAGGAGTGTGCATAAGCCGATGC
Found at i:34009353 original size:22 final size:22
Alignment explanation
Indices: 34009325--34009368 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34009315 CTTGGTGGCA
34009325 ACATGTAAA-TGAGAATAGTGTT
1 ACATGTAAACTGAGAA-AGTGTT
*
34009347 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
34009369 TGATGGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:34011492 original size:20 final size:23
Alignment explanation
Indices: 34011462--34011502 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
34011452 CAACTGTACT
34011462 AAATACCACT-ACATG-TAGTAG
1 AAATACCACTAACATGCTAGTAG
34011483 AAAT-CCACTAACATGCTAGT
1 AAATACCACTAACATGCTAGT
34011503 GACCCATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (23 bp):
AAATACCACTAACATGCTAGTAG
Found at i:34013381 original size:29 final size:29
Alignment explanation
Indices: 34013331--34013470 Score: 140
Period size: 29 Copynumber: 4.8 Consensus size: 29
34013321 ACGTCACAAC
* *
34013331 AAGTTGAATAACGTGACGAAACACGACA-T
1 AAGTTGAATGACGTGACCAAACACGA-AGT
* * *
34013360 AAGTTGAATGATGTGGCCAAACATGAAGT
1 AAGTTGAATGACGTGACCAAACACGAAGT
* *
34013389 AAGTTGTATGACGTGACGAAACACGACA-T
1 AAGTTGAATGACGTGACCAAACACGA-AGT
* * *
34013418 AAGTTGAATGATGTGGCCAAACATGAAGT
1 AAGTTGAATGACGTGACCAAACACGAAGT
* *
34013447 AAGTTGTATGACGTGACGAAACAC
1 AAGTTGAATGACGTGACCAAACAC
34013471 AATATAAATA
Statistics
Matches: 88, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
28 2 0.02
29 85 0.97
30 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (29 bp):
AAGTTGAATGACGTGACCAAACACGAAGT
Found at i:34013421 original size:58 final size:58
Alignment explanation
Indices: 34013331--34013470 Score: 262
Period size: 58 Copynumber: 2.4 Consensus size: 58
34013321 ACGTCACAAC
* *
34013331 AAGTTGAATAACGTGACGAAACACGACATAAGTTGAATGATGTGGCCAAACATGAAGT
1 AAGTTGTATGACGTGACGAAACACGACATAAGTTGAATGATGTGGCCAAACATGAAGT
34013389 AAGTTGTATGACGTGACGAAACACGACATAAGTTGAATGATGTGGCCAAACATGAAGT
1 AAGTTGTATGACGTGACGAAACACGACATAAGTTGAATGATGTGGCCAAACATGAAGT
34013447 AAGTTGTATGACGTGACGAAACAC
1 AAGTTGTATGACGTGACGAAACAC
34013471 AATATAAATA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 80 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (58 bp):
AAGTTGTATGACGTGACGAAACACGACATAAGTTGAATGATGTGGCCAAACATGAAGT
Found at i:34016230 original size:17 final size:18
Alignment explanation
Indices: 34016190--34016231 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34016180 AAGCAATTAA
* *
34016190 TTAAATTAGTAATATTAT
1 TTAAATTAGTAAAAATAT
34016208 TT-AATTA-TAAAAATAT
1 TTAAATTAGTAAAAATAT
34016224 TTAAATTA
1 TTAAATTA
34016232 AGGTGTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAAATTAGTAAAAATAT
Found at i:34024264 original size:25 final size:25
Alignment explanation
Indices: 34024209--34024269 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
34024199 TAAAAATGTA
* *
34024209 ATAGGATTAAGGTAGTTGATTTTTT
1 ATAGGGTTAGGGTAGTTGATTTTTT
34024234 ATAGGGTTAGGGTAGTTGATTTTTT
1 ATAGGGTTAGGGTAGTTGATTTTTT
34024259 ATAGGGTTAGG
1 ATAGGGTTAGG
34024270 ATTCTGGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (25 bp):
ATAGGGTTAGGGTAGTTGATTTTTT
Found at i:34044234 original size:387 final size:387
Alignment explanation
Indices: 34043520--34044285 Score: 1309
Period size: 387 Copynumber: 2.0 Consensus size: 387
34043510 TTGCTAGCCA
* **
34043520 GGGTCTCAGTTTCGTCTTTTAGCTGTTTTAGCTCATTCTCCAAGTTGGTTATTTCCACTTGTGAA
1 GGGTCTCAGTTTCATCTTTTAGCTCCTTTAGCTCATTCTCCAAGTTGGTTATTTCCACTTGTGAA
* * *
34043585 TTGTTACTTTGTTCGGTTAGTGAAGCAACATTCATCTCTGCCTGGGAAAGTGCATTTTCAAGTGA
66 TTGTTACTTTGTTCAGTTAGTGAAGCAACATTCATCTCTGCCCGAGAAAGTGCATTTTCAAGTGA
** *
34043650 CTTTATAGTGTTATATGCCTCTGTAAGTCTGCACATCTGAATAGCAACTTCCTCCCTCACTTTCT
131 CTTTATAGCATTATATGCCTCAGTAAGTCTGCACATCTGAATAGCAACTTCCTCCCTCACTTTCT
* *
34043715 CGACCTCCATCTCTGAAGCAGCTTTGCTACCTTGAGCCTCCTCTTTCTCACTGATAAGCAAGGAA
196 CCACCTCCATCTCTGAAGCAGCTCTGCTACCTTGAGCCTCCTCTTTCTCACTGATAAGCAAGGAA
* * * *
34043780 ATTTTATTTTCTGCCAGTGACAATGCCTCTTCGAGTGACTTTCTAGCCTCACTAGTCTCAGCAAA
261 ATGTTATTTTCTGCCAGTGACAACGCCTCCTCGAGTGACTTTCTAGCATCACTAGTCTCAGCAAA
*
34043845 CTTGTTAGTTTGTGAATGAGCTTCTTCGA-TTGCTTTCTGCAACTCTATTTCTATTGCTTTCT
326 CTTGTTAGTTTGTGAATGAGCTTCTTC-ATTTGCTTTCTGCAACTCTACTTCTATTGCTTTCT
*
34043907 GGGTCTCAGTTTCATCTTTTAGCTCCTTTAGCTCATTCTCTAAGTTGGTTATTTCCACTTGTGAA
1 GGGTCTCAGTTTCATCTTTTAGCTCCTTTAGCTCATTCTCCAAGTTGGTTATTTCCACTTGTGAA
34043972 TTGTTACTTTGTTCAGTTAGTGAAGCAACATTCATCTCTGCCCGAGAAAGTGCATTTTCAAGTGA
66 TTGTTACTTTGTTCAGTTAGTGAAGCAACATTCATCTCTGCCCGAGAAAGTGCATTTTCAAGTGA
* * *** *
34044037 CTTTATAGCATTATATGCTTCAGTGAGTCTGCTGGTCTGAATAGCAACTTCCTCCCTCATTTTCT
131 CTTTATAGCATTATATGCCTCAGTAAGTCTGCACATCTGAATAGCAACTTCCTCCCTCACTTTCT
34044102 CCACCTCCATCTCTGAAGCAGCTCTGCTACCTTGAGCCTCCTCTTTCTCACTGATAAGCAAGGAA
196 CCACCTCCATCTCTGAAGCAGCTCTGCTACCTTGAGCCTCCTCTTTCTCACTGATAAGCAAGGAA
34044167 ATGTTATTTTCTGCCAGTGACAACGCCTCCTCGAGTGACTTTCTAGCATCACTAGTCTCAGCAAA
261 ATGTTATTTTCTGCCAGTGACAACGCCTCCTCGAGTGACTTTCTAGCATCACTAGTCTCAGCAAA
34044232 CTTGTTAGTTTGTGAATGAGCTTCTTCATTTGCTTTCTGCAACTCTACTTCTAT
326 CTTGTTAGTTTGTGAATGAGCTTCTTCATTTGCTTTCTGCAACTCTACTTCTAT
34044286 ATTTTTCTTC
Statistics
Matches: 355, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
386 1 0.00
387 354 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (387 bp):
GGGTCTCAGTTTCATCTTTTAGCTCCTTTAGCTCATTCTCCAAGTTGGTTATTTCCACTTGTGAA
TTGTTACTTTGTTCAGTTAGTGAAGCAACATTCATCTCTGCCCGAGAAAGTGCATTTTCAAGTGA
CTTTATAGCATTATATGCCTCAGTAAGTCTGCACATCTGAATAGCAACTTCCTCCCTCACTTTCT
CCACCTCCATCTCTGAAGCAGCTCTGCTACCTTGAGCCTCCTCTTTCTCACTGATAAGCAAGGAA
ATGTTATTTTCTGCCAGTGACAACGCCTCCTCGAGTGACTTTCTAGCATCACTAGTCTCAGCAAA
CTTGTTAGTTTGTGAATGAGCTTCTTCATTTGCTTTCTGCAACTCTACTTCTATTGCTTTCT
Found at i:34047718 original size:20 final size:20
Alignment explanation
Indices: 34047695--34047747 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
34047685 TATTTTATGA
34047695 AAAATATAATGTTTATTT-TT
1 AAAATATAAT-TTTATTTATT
*
34047715 AAAAT-TACTTTTATTTATT
1 AAAATATAATTTTATTTATT
34047734 AAAATATAATTTTA
1 AAAATATAATTTTA
34047748 ATATATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 7 0.24
19 10 0.34
20 12 0.41
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AAAATATAATTTTATTTATT
Found at i:34047827 original size:6 final size:6
Alignment explanation
Indices: 34047813--34047910 Score: 70
Period size: 6 Copynumber: 15.5 Consensus size: 6
34047803 TTTTAATATC
* * *
34047813 TTATAT TTATTT TTATTT TTATTA TGATTT TATATTT TATATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT T-TATTT T-TATTT TTATTT
* * * * * *
34047863 CTTAATA TAATTT TTATATT ATATATT TTATTT TAATTT TTTTTT TTA
1 -TTATTT TTATTT TTAT-TT TTAT-TT TTATTT TTATTT TTATTT TTA
34047911 AAAGATAATA
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
6 45 0.62
7 27 0.38
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (6 bp):
TTATTT
Found at i:34047852 original size:15 final size:13
Alignment explanation
Indices: 34047820--34047907 Score: 69
Period size: 13 Copynumber: 6.9 Consensus size: 13
34047810 ATCTTATATT
34047820 TATTTTTATTTT-
1 TATTTTTATTTTA
* *
34047832 TATTATGATTTTA
1 TATTTTTATTTTA
34047845 TATTTTATATTTT-
1 TATTTT-TATTTTA
* *
34047858 TATTTCTTAATATA
1 TATTT-TTATTTTA
*
34047872 -ATTTTTATATTA
1 TATTTTTATTTTA
34047884 TATATTTTATTTTA
1 TAT-TTTTATTTTA
34047898 -ATTTTT-TTTT
1 TATTTTTATTTT
34047908 TTAAAAGATA
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
11 4 0.07
12 19 0.32
13 22 0.37
14 15 0.25
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (13 bp):
TATTTTTATTTTA
Found at i:34047859 original size:32 final size:31
Alignment explanation
Indices: 34047813--34047896 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 31
34047803 TTTTAATATC
* *
34047813 TTATATT-TATTTTTATTTTTATTATGATTT
1 TTATATTATATTTTTATTTTTAATATAATTT
*
34047843 TATATTTTATATTTTTATTTCTTAATATAATTT
1 T-TATATTATATTTTTATTT-TTAATATAATTT
34047876 TTATATTATATATTTTATTTT
1 TTATATTATAT-TTTTATTTT
34047897 AATTTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.02
31 5 0.11
32 21 0.46
33 19 0.41
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (31 bp):
TTATATTATATTTTTATTTTTAATATAATTT
Found at i:34047888 original size:34 final size:32
Alignment explanation
Indices: 34047793--34047896 Score: 104
Period size: 34 Copynumber: 3.1 Consensus size: 32
34047783 ATAGCATCCC
34047793 TTTAATATATTTTTAATATCTTATATTTATTTTTATT
1 TTTAATATATTTTT-ATA--TTATA--TATTTTTATT
* *
34047830 TTTATTATGA-TTTTATATTTTATATTTTTATT
1 TTTAATAT-ATTTTTATATTATATATTTTTATT
34047862 TCTTAATATAATTTTTATATTATATA-TTTTATT
1 T-TTAATAT-ATTTTTATATTATATATTTTTATT
34047895 TT
1 TT
34047897 AATTTTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
32 12 0.20
33 15 0.25
34 17 0.29
36 3 0.05
37 11 0.19
38 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (32 bp):
TTTAATATATTTTTATATTATATATTTTTATT
Found at i:34048382 original size:23 final size:21
Alignment explanation
Indices: 34048339--34048383 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
34048329 AAATTGTTAT
**
34048339 TTTAAAAAAATTTATTCAATA
1 TTTAAAAAAATTTATAAAATA
34048360 TTTAAATAAAATATTATAAAATA
1 TTTAAA-AAAAT-TTATAAAATA
34048383 T
1 T
34048384 ATTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 9 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAAAAAATTTATAAAATA
Found at i:34048998 original size:19 final size:19
Alignment explanation
Indices: 34048976--34049027 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
34048966 TGTAGTTCAA
*
34048976 CATATCTAATGTATCTCCT
1 CATATCTAATGTACCTCCT
* *
34048995 CATATCCAATGTACCTCTT
1 CATATCTAATGTACCTCCT
34049014 CATATCTAATGTAC
1 CATATCTAATGTAC
34049028 ATATTTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (19 bp):
CATATCTAATGTACCTCCT
Found at i:34049786 original size:20 final size:18
Alignment explanation
Indices: 34049757--34049810 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
34049747 ATTAGGTTGC
34049757 TTTTAAGTTAGTTATTTTAA
1 TTTT-AGTTA-TTATTTTAA
*
34049777 TTTTATGTTATTCCTTTTAA
1 TTTTA-GTTATT-ATTTTAA
34049797 -TTTAGTTATTATTT
1 TTTTAGTTATTATTT
34049811 ATTAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.10
18 6 0.20
19 7 0.23
20 14 0.47
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTAGTTATTATTTTAA
Found at i:34050891 original size:14 final size:14
Alignment explanation
Indices: 34050872--34050898 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34050862 TTAGTCTAAA
34050872 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
34050886 TTTTAGTTAATTA
1 TTTTAGTTAATTA
34050899 ATTAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:34053009 original size:56 final size:56
Alignment explanation
Indices: 34052941--34053046 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
34052931 ACCAATATAA
* *
34052941 ATCGATGTCCATTAAAAGATTTTGGAGTGATGAGCCCAATCACATCCATTCCCTAC
1 ATCGATATCCATTAAAAGATTTTGGAGTGATCAGCCCAATCACATCCATTCCCTAC
* * *
34052997 ATCGATATCCATTAGAAGCTTTTGGAGTGATCAGCCCAATCATATCCATT
1 ATCGATATCCATTAAAAGATTTTGGAGTGATCAGCCCAATCACATCCATT
34053047 GCAAGTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (56 bp):
ATCGATATCCATTAAAAGATTTTGGAGTGATCAGCCCAATCACATCCATTCCCTAC
Found at i:34065852 original size:27 final size:27
Alignment explanation
Indices: 34065817--34065892 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
34065807 ACGCAAGTTG
*
34065817 TTACATGGCAAGACCACGAGTTGATGT
1 TTACGTGGCAAGACCACGAGTTGATGT
**
34065844 TTACGTGGCAAGACCACGAGAAGATGT
1 TTACGTGGCAAGACCACGAGTTGATGT
*
34065871 TTACGTGGCAAGACCACAAGTT
1 TTACGTGGCAAGACCACGAGTT
34065893 TATATTACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (27 bp):
TTACGTGGCAAGACCACGAGTTGATGT
Found at i:34066836 original size:27 final size:26
Alignment explanation
Indices: 34066763--34066836 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
34066753 TGCAAGCACG
*
34066763 TGTTACATGGCAAGACCACCAGTTGA
1 TGTTACATGGCAAGACCACGAGTTGA
*
34066789 TGTATACATGGCAAGACCACGAGTTTA
1 TGT-TACATGGCAAGACCACGAGTTGA
* *
34066816 TGTTATATGGCTAAGGCCACG
1 TGTTACATGGC-AAGACCACG
34066837 GGTTAGTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.24
27 32 0.76
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (26 bp):
TGTTACATGGCAAGACCACGAGTTGA
Found at i:34068303 original size:19 final size:19
Alignment explanation
Indices: 34068281--34068317 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34068271 TATTTCATCA
* *
34068281 TATCGAATGTATCTCTTCG
1 TATCCAATGTACCTCTTCG
34068300 TATCCAATGTACCTCTTC
1 TATCCAATGTACCTCTTC
34068318 ATTTACCATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (19 bp):
TATCCAATGTACCTCTTCG
Found at i:34070767 original size:12 final size:13
Alignment explanation
Indices: 34070738--34070768 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
34070728 AATTAGTCAA
34070738 AAAAATCATAAAC
1 AAAAATCATAAAC
34070751 AAAAATCATAAAC
1 AAAAATCATAAAC
34070764 AAAAA
1 AAAAA
34070769 AATGAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATCATAAAC
Found at i:34072477 original size:4 final size:4
Alignment explanation
Indices: 34072468--34072518 Score: 60
Period size: 4 Copynumber: 14.2 Consensus size: 4
34072458 TTTTTAATTT
34072468 TAAA TAAA TAAA -AAA TAAA TAAA -AAA TAAA T-AA -AAA TAAA -AAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
34072511 TAAA -AAA T
1 TAAA TAAA T
34072519 GATAATACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
3 16 0.39
4 25 0.61
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
TAAA
Found at i:34072483 original size:7 final size:7
Alignment explanation
Indices: 34072468--34072518 Score: 61
Period size: 7 Copynumber: 7.1 Consensus size: 7
34072458 TTTTTAATTT
34072468 TAAATAAA
1 TAAA-AAA
34072476 TAAAAAA
1 TAAAAAA
34072483 TAAATAAA
1 TAAA-AAA
34072491 -AAATAAA
1 TAAA-AAA
34072498 T-AAAAA
1 TAAAAAA
34072504 TAAAAAA
1 TAAAAAA
34072511 TAAAAAA
1 TAAAAAA
34072518 T
1 T
34072519 GATAATACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 4 0.10
7 29 0.73
8 7 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:34072485 original size:11 final size:11
Alignment explanation
Indices: 34072469--34072518 Score: 73
Period size: 11 Copynumber: 4.4 Consensus size: 11
34072459 TTTTAATTTT
34072469 AAATAAATAAA
1 AAATAAATAAA
34072480 AAATAAATAAA
1 AAATAAATAAA
34072491 AAATAAATAAAA
1 AAATAAAT-AAA
*
34072503 ATAAAAAATAAA
1 A-AATAAATAAA
34072515 AAAT
1 AAAT
34072519 GATAATACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 21 0.60
12 8 0.23
13 6 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:34072810 original size:11 final size:11
Alignment explanation
Indices: 34072776--34072813 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
34072766 AGAAAATATG
34072776 ATAAT-ATGAA
1 ATAATAATGAA
34072786 ATAA-AATGAA
1 ATAATAATGAA
*
34072796 ATAATAATTAA
1 ATAATAATGAA
34072807 ATAATAA
1 ATAATAA
34072814 AAAATGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 13 0.52
11 12 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (11 bp):
ATAATAATGAA
Found at i:34073357 original size:18 final size:17
Alignment explanation
Indices: 34073319--34073360 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
34073309 TGAGATAAAA
34073319 TAAAAAA-ATAATAACT
1 TAAAAAATATAATAACT
* *
34073335 AAAAAAATATAGTGAACT
1 TAAAAAATATAAT-AACT
34073353 TAAAAAAT
1 TAAAAAAT
34073361 TAAAACCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 4 0.19
18 11 0.52
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
TAAAAAATATAATAACT
Found at i:34095303 original size:14 final size:14
Alignment explanation
Indices: 34095296--34095329 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
34095286 AATTAAAATT
34095296 AATTAATTAACTAA
1 AATTAATTAACTAA
*
34095310 AACTAATTAACTAA
1 AATTAATTAACTAA
34095324 AATTAA
1 AATTAA
34095330 AACCAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTAATTAACTAA
Found at i:34096445 original size:20 final size:20
Alignment explanation
Indices: 34096420--34096462 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34096410 AATCATAACC
*
34096420 AAATTAAAAGGAATAACATA
1 AAATTAAAAGAAATAACATA
* *
34096440 AAATTAAAATAAATAACTTA
1 AAATTAAAAGAAATAACATA
34096460 AAA
1 AAA
34096463 GTAACCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AAATTAAAAGAAATAACATA
Found at i:34104282 original size:14 final size:14
Alignment explanation
Indices: 34104273--34104306 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
34104263 AATTAAAATT
34104273 AATTAATTAACTAA
1 AATTAATTAACTAA
*
34104287 AACTAATTAACTAA
1 AATTAATTAACTAA
34104301 AATTAA
1 AATTAA
34104307 AATCAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTAATTAACTAA
Found at i:34105477 original size:16 final size:15
Alignment explanation
Indices: 34105435--34105477 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
34105425 ATATAAAATT
34105435 AAAATAACTAATTTA
1 AAAATAACTAATTTA
*
34105450 AAAGTAACCTAATTATA
1 AAAATAA-CTAATT-TA
*
34105467 AAAACAACTAA
1 AAAATAACTAA
34105478 AAATAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 6 0.26
16 10 0.43
17 7 0.30
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAATAACTAATTTA
Found at i:34106782 original size:20 final size:20
Alignment explanation
Indices: 34106757--34106794 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34106747 AAAACACAAC
34106757 AAAACATGCGAA-ATATAAAT
1 AAAACATGC-AAGATATAAAT
34106777 AAAACATGCAAGATATAA
1 AAAACATGCAAGATATAA
34106795 CTACTCCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAACATGCAAGATATAAAT
Found at i:34107492 original size:22 final size:23
Alignment explanation
Indices: 34107467--34107548 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 23
34107457 TTACGCTTCT
* *
34107467 GGTTTGAGTGCCTC-GCTCTCAA
1 GGTTTGAGCGCCGCGGCTCTCAA
34107489 GG-TTGAGCGCCGCGGCTCTC-A
1 GGTTTGAGCGCCGCGGCTCTCAA
* * *
34107510 GGGTTGAGCGTCGCGGCTCT-TA
1 GGTTTGAGCGCCGCGGCTCTCAA
*
34107532 GGGTTGAGCGCCGCGGC
1 GGTTTGAGCGCCGCGGC
34107549 GTTCAACTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.23
22 41 0.77
ACGTcount: A:0.10, C:0.28, G:0.39, T:0.23
Consensus pattern (23 bp):
GGTTTGAGCGCCGCGGCTCTCAA
Found at i:34107494 original size:21 final size:22
Alignment explanation
Indices: 34107481--34107548 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
34107471 TGAGTGCCTC
34107481 GCTCTCAAGGTTGAGCGCCGCG
1 GCTCTCAAGGTTGAGCGCCGCG
* *
34107503 GCTCTCAGGGTTGAGCGTCGCG
1 GCTCTCAAGGTTGAGCGCCGCG
* *
34107525 GCTCTTAGGGTTGAGCGCCGCG
1 GCTCTCAAGGTTGAGCGCCGCG
34107547 GC
1 GC
34107549 GTTCAACTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.10, C:0.29, G:0.40, T:0.21
Consensus pattern (22 bp):
GCTCTCAAGGTTGAGCGCCGCG
Found at i:34122014 original size:32 final size:31
Alignment explanation
Indices: 34121948--34122015 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
34121938 CCATCGGTTT
* * *
34121948 CTTCC-TTAAAAACCCACCCTATTCTCCTTT
1 CTTCCTTTAAAAACCCACCCCACTCTCCTTC
* *
34121978 CTTCCTTTTAAAACCCAACCCCACTCTTCTTC
1 CTTCCTTTAAAAACCC-ACCCCACTCTCCTTC
34122010 CTTCCT
1 CTTCCT
34122016 CTCTGTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.16
31 9 0.29
32 17 0.55
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.37
Consensus pattern (31 bp):
CTTCCTTTAAAAACCCACCCCACTCTCCTTC
Found at i:34127473 original size:23 final size:25
Alignment explanation
Indices: 34127447--34127497 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
34127437 ATGGAAGGCC
34127447 TCCTTG-GAGGT-CTGGAGTTTGTA
1 TCCTTGCGAGGTACTGGAGTTTGTA
**
34127470 TCC-TGCGCTGTACTGGAGTTTGTA
1 TCCTTGCGAGGTACTGGAGTTTGTA
34127494 TCCT
1 TCCT
34127498 GCGCTGTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 2 0.09
23 6 0.26
24 15 0.65
ACGTcount: A:0.12, C:0.20, G:0.29, T:0.39
Consensus pattern (25 bp):
TCCTTGCGAGGTACTGGAGTTTGTA
Found at i:34127485 original size:24 final size:24
Alignment explanation
Indices: 34127458--34127509 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
34127448 CCTTGGAGGT
34127458 CTGGAGTTTGTATCCTGCGCTGTA
1 CTGGAGTTTGTATCCTGCGCTGTA
34127482 CTGGAGTTTGTATCCTGCGCTGTA
1 CTGGAGTTTGTATCCTGCGCTGTA
34127506 CTGG
1 CTGG
34127510 GATATGGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.21, G:0.31, T:0.37
Consensus pattern (24 bp):
CTGGAGTTTGTATCCTGCGCTGTA
Found at i:34129394 original size:14 final size:14
Alignment explanation
Indices: 34129375--34129402 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34129365 AATGTATAGG
34129375 CAACAATACTGTGA
1 CAACAATACTGTGA
34129389 CAACAATACTGTGA
1 CAACAATACTGTGA
34129403 TTTTTTCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
CAACAATACTGTGA
Found at i:34137146 original size:20 final size:20
Alignment explanation
Indices: 34137107--34137146 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34137097 AATCACGTCA
* *
34137107 ATCTATCGATAGATATAAGT
1 ATCTATCAATAGATACAAGT
*
34137127 ATCTATCAATAGATGCAAGT
1 ATCTATCAATAGATACAAGT
34137147 TAGGGTTCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
ATCTATCAATAGATACAAGT
Found at i:34137904 original size:34 final size:34
Alignment explanation
Indices: 34137866--34137966 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 34
34137856 AAACATCAAC
34137866 CATGTAAATACATCCAAAAGACTAGTATGACAAA
1 CATGTAAATACATCCAAAAGACTAGTATGACAAA
* * * * *
34137900 CATGT--A-GC-T-GAATATAC-A-TATGAAAAA
1 CATGTAAATACATCCAAAAGACTAGTATGACAAA
34137927 CATGTAAATACATCCAAAAGACTAGTATGACAAA
1 CATGTAAATACATCCAAAAGACTAGTATGACAAA
34137961 CATGTA
1 CATGTA
34137967 GCTGAATATA
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
27 13 0.26
28 1 0.02
29 6 0.12
30 2 0.04
31 2 0.04
32 6 0.12
33 1 0.02
34 19 0.38
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.23
Consensus pattern (34 bp):
CATGTAAATACATCCAAAAGACTAGTATGACAAA
Found at i:34137921 original size:27 final size:27
Alignment explanation
Indices: 34137891--34137993 Score: 89
Period size: 27 Copynumber: 3.6 Consensus size: 27
34137881 AAAAGACTAG
*
34137891 TATGACAAACATGTAGCTGAATATACA
1 TATGAAAAACATGTAGCTGAATATACA
* * * *
34137918 TATGAAAAACATGTAAATACATCCAAAAGACTA
1 TATGAAAAACATGT--A-GC-T-GAATATAC-A
*
34137951 GTATGACAAACATGTAGCTGAATATACA
1 -TATGAAAAACATGTAGCTGAATATACA
34137979 TATGAAAAACATGTA
1 TATGAAAAACATGTA
34137994 AATACATCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
27 27 0.47
28 1 0.02
29 6 0.10
30 2 0.03
31 2 0.03
32 6 0.10
33 1 0.02
34 13 0.22
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (27 bp):
TATGAAAAACATGTAGCTGAATATACA
Found at i:34137940 original size:61 final size:61
Alignment explanation
Indices: 34137866--34138006 Score: 282
Period size: 61 Copynumber: 2.3 Consensus size: 61
34137856 AAACATCAAC
34137866 CATGTAAATACATCCAAAAGACTAGTATGACAAACATGTAGCTGAATATACATATGAAAAA
1 CATGTAAATACATCCAAAAGACTAGTATGACAAACATGTAGCTGAATATACATATGAAAAA
34137927 CATGTAAATACATCCAAAAGACTAGTATGACAAACATGTAGCTGAATATACATATGAAAAA
1 CATGTAAATACATCCAAAAGACTAGTATGACAAACATGTAGCTGAATATACATATGAAAAA
34137988 CATGTAAATACATCCAAAA
1 CATGTAAATACATCCAAAA
34138007 TTACATGATC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 80 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.23
Consensus pattern (61 bp):
CATGTAAATACATCCAAAAGACTAGTATGACAAACATGTAGCTGAATATACATATGAAAAA
Found at i:34140720 original size:13 final size:14
Alignment explanation
Indices: 34140663--34140717 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
34140653 TTTATGTGTT
34140663 TTTATT-TTTTAT-
1 TTTATTATTTTATC
* *
34140675 TCTATTATTTTGTC
1 TTTATTATTTTATC
*
34140689 TTTGTTA-TTTATC
1 TTTATTATTTTATC
34140702 TTTATTATTTTATC
1 TTTATTATTTTATC
34140716 TT
1 TT
34140718 ATTTTATAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 5 0.15
13 16 0.47
14 13 0.38
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTATTATTTTATC
Found at i:34140974 original size:19 final size:19
Alignment explanation
Indices: 34140934--34140974 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
34140924 CAAACATATC
* *
34140934 AAACAAGATTAAATTAATA
1 AAACAAGATTAAAATAAAA
*
34140953 AAACAGGATTAAAATAAAA
1 AAACAAGATTAAAATAAAA
34140972 AAA
1 AAA
34140975 TTAAGTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (19 bp):
AAACAAGATTAAAATAAAA
Found at i:34152913 original size:56 final size:56
Alignment explanation
Indices: 34152827--34152952 Score: 225
Period size: 56 Copynumber: 2.2 Consensus size: 56
34152817 CAATTGAAAG
*
34152827 AAAATAAAAAATTAAATTAGTATAAATTTTTTTAATAACAAAGTAAAAGAAGATTA
1 AAAATAAAAAATTAAATTAGTATAAATTTTTTCAATAACAAAGTAAAAGAAGATTA
*
34152883 AAAATAAAAAATTAAATTAGTATAAATTTTTTCAATAACAAAGTAAAAGAATATTA
1 AAAATAAAAAATTAAATTAGTATAAATTTTTTCAATAACAAAGTAAAAGAAGATTA
*
34152939 AAAATAAAATATTA
1 AAAATAAAAAATTA
34152953 TATAAAAAGC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (56 bp):
AAAATAAAAAATTAAATTAGTATAAATTTTTTCAATAACAAAGTAAAAGAAGATTA
Found at i:34157911 original size:20 final size:20
Alignment explanation
Indices: 34157884--34157926 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
34157874 AAGAAAATTA
*
34157884 AAAAAAAAACAAATGAGAAAAC
1 AAAAAAAAA-AAA-GACAAAAC
34157906 AAAAAAAAAAAAGACAAAAC
1 AAAAAAAAAAAAGACAAAAC
34157926 A
1 A
34157927 GGAGCTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.81, C:0.09, G:0.07, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAAAGACAAAAC
Found at i:34161284 original size:26 final size:24
Alignment explanation
Indices: 34161235--34161304 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 24
34161225 TTTGTAAAAT
34161235 TTAAAATATTAATATTTTATATATAA
1 TTAAAATATTAATA--TTATATATAA
*
34161261 TTGAAACATTATTAATATTA-ATATGA
1 TT-AAA-A-TATTAATATTATATATAA
34161287 TTAAAATATTAAATATTA
1 TTAAAATATT-AATATTA
34161305 GTATTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.10
24 8 0.21
25 3 0.08
26 9 0.23
27 6 0.15
28 1 0.03
29 8 0.21
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (24 bp):
TTAAAATATTAATATTATATATAA
Found at i:34161498 original size:16 final size:15
Alignment explanation
Indices: 34161458--34161517 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 15
34161448 NNNNNNNNNN
* *
34161458 TAAAATATTGATATT
1 TAAATTATTAATATT
34161473 TAAATTATTAATATT
1 TAAATTATTAATATT
* *
34161488 T---TAATTAAT-TA
1 TAAATTATTAATATT
34161499 TAAATTATTAATATT
1 TAAATTATTAATATT
34161514 TAAA
1 TAAA
34161518 AAATAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
11 2 0.06
12 7 0.20
14 7 0.20
15 19 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TAAATTATTAATATT
Found at i:34172486 original size:30 final size:30
Alignment explanation
Indices: 34172427--34172491 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
34172417 CTTGATTGAG
*
34172427 GATGAAGAAGATGACATGCAAAGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAAATGAA
* *
34172457 GATGAAGAAGATGACATGGAAGGAAATGAA
1 GATGAAGAAGATGACATGCAAAGAAATGAA
*
34172487 AATGA
1 GATGA
34172492 TGATGACGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.31, T:0.14
Consensus pattern (30 bp):
GATGAAGAAGATGACATGCAAAGAAATGAA
Found at i:34175574 original size:12 final size:12
Alignment explanation
Indices: 34175552--34175585 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34175542 GGTAAGATAT
*
34175552 GTGATGAAATAC
1 GTGAAGAAATAC
*
34175564 GTGGAGAAATAC
1 GTGAAGAAATAC
34175576 GTGAAGAAAT
1 GTGAAGAAAT
34175586 TAAGAATCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (12 bp):
GTGAAGAAATAC
Found at i:34176267 original size:13 final size:15
Alignment explanation
Indices: 34176229--34176267 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
34176219 TCAGTTGAAA
34176229 AATTATTTCCAACGG
1 AATTATTTCCAACGG
*
34176244 AATTATTTCCAATGG
1 AATTATTTCCAACGG
34176259 -ATT-TTTCCA
1 AATTATTTCCA
34176268 TTGGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 3 0.13
15 14 0.61
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (15 bp):
AATTATTTCCAACGG
Found at i:34179927 original size:21 final size:21
Alignment explanation
Indices: 34179903--34179947 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
34179893 TCTCTAGCAA
*
34179903 TGATCTGTCTAATTTGAATGT
1 TGATCTATCTAATTTGAATGT
34179924 TGATCTATCTAATTTGAATGT
1 TGATCTATCTAATTTGAATGT
34179945 TGA
1 TGA
34179948 CCTGCCTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (21 bp):
TGATCTATCTAATTTGAATGT
Found at i:34186400 original size:22 final size:22
Alignment explanation
Indices: 34186358--34186400 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34186348 AAAATTAAAT
* *
34186358 TAAAATTGTGAAATATGAAAAA
1 TAAAATTATGAAATATAAAAAA
34186380 TAAAATTTATGAAATA-AAAAA
1 TAAAA-TTATGAAATATAAAAA
34186401 TTACTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (22 bp):
TAAAATTATGAAATATAAAAAA
Found at i:34189087 original size:27 final size:30
Alignment explanation
Indices: 34189057--34189125 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
34189047 ACCATTATTT
*
34189057 ATATTTTTTATT-ATTA-ATTTTT-ATATC
1 ATATTTTTTATTAAATATATTTTTAATATC
* * *
34189084 ATATTATCTCTTAAATATATTTTTAATATC
1 ATATTTTTTATTAAATATATTTTTAATATC
*
34189114 ATATATTTTATT
1 ATATTTTTTATT
34189126 TTTTATTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 9 0.29
28 3 0.10
29 6 0.19
30 13 0.42
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (30 bp):
ATATTTTTTATTAAATATATTTTTAATATC
Found at i:34189164 original size:27 final size:26
Alignment explanation
Indices: 34189057--34189166 Score: 80
Period size: 27 Copynumber: 4.0 Consensus size: 26
34189047 ACCATTATTT
*
34189057 ATATTTTTTATTATTAATTTTT-ATATC
1 ATATATTTTATT-TT-ATTTTTAATATC
* *
34189084 ATATTATCTCTTAAATATATTTTTAATATC
1 ATA-TAT-T-TT-ATTTTATTTTTAATATC
* *
34189114 ATATATTTTATTTT-TTATTATAATCTT
1 ATATATTTTATTTTATT-TT-TAATATC
34189141 ATATATTTTATTTTATTTCTTAATAT
1 ATATATTTTATTTTATTT-TTAATAT
34189167 AGTTTTCTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
25 2 0.03
26 5 0.08
27 30 0.45
28 6 0.09
29 10 0.15
30 11 0.17
31 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (26 bp):
ATATATTTTATTTTATTTTTAATATC
Found at i:34208367 original size:79 final size:79
Alignment explanation
Indices: 34208219--34208368 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 79
34208209 TTGGACCAAA
* * * **
34208219 AAAATTCACCTATTGGTCATTCAATTTATCTCTAAATAAATCAAAGTAATTTAGAGACAATATTT
1 AAAATTCACCTAATGGTCATCCAATTTATCTCTAAATAAATCAAAGTAATTTAGAGACAAAATCC
34208284 AAATTTAATCTATT
66 AAATTTAATCTATT
* * * *
34208298 AAAATTTACCTAATGGTCATCCAATTTATTTCTAAATAAAT-TAAGTTAATTTAGAGATAAAATC
1 AAAATTCACCTAATGGTCATCCAATTTATCTCTAAATAAATCAAAG-TAATTTAGAGACAAAATC
34208362 CAAATTT
65 CAAATTT
34208369 GATCATCTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 3 0.05
79 58 0.95
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (79 bp):
AAAATTCACCTAATGGTCATCCAATTTATCTCTAAATAAATCAAAGTAATTTAGAGACAAAATCC
AAATTTAATCTATT
Found at i:34208709 original size:28 final size:28
Alignment explanation
Indices: 34208678--34208739 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
34208668 AGAGTTCAAC
* *
34208678 CAAATCCAAAAAGTAAGATTTTAAAGAT
1 CAAAGCCAAAAAGGAAGATTTTAAAGAT
** *
34208706 CAAAGCCTCAAAGGAAGATTTTGAAGAT
1 CAAAGCCAAAAAGGAAGATTTTAAAGAT
34208734 CAAAGC
1 CAAAGC
34208740 AATTAAAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (28 bp):
CAAAGCCAAAAAGGAAGATTTTAAAGAT
Found at i:34208750 original size:76 final size:77
Alignment explanation
Indices: 34208615--34208794 Score: 224
Period size: 76 Copynumber: 2.4 Consensus size: 77
34208605 GGAGAAAGAA
* * *
34208615 GAAGATTCTGAAGATCAAAGTCTCGAAA-GAAGATTCTGAAGATTAAAGCATCAAGAGTTCAACC
1 GAAGATTTTGAAGATCAAAGCCTCGAAAGGAAGATTCTGAAGATCAAAGCATCAAGAGTTCAACC
34208679 AAATCCAAAAAG
66 AAATCCAAAAAG
* * * *
34208691 TAAGATTTTAAAGATCAAAGCCTC-AAAGGAAGATTTTGAAGATCAAAGCAATTAA-AGTTCAAC
1 GAAGATTTTGAAGATCAAAGCCTCGAAAGGAAGATTCTGAAGATCAAAGC-ATCAAGAGTTCAAC
* *
34208754 CAAGTCCAAGAAG
65 CAAATCCAAAAAG
* *
34208767 GAAGA-TTTGAGGATCAAAGCCTCTAAAG
1 GAAGATTTTGAAGATCAAAGCCTCGAAAG
34208795 TTCCATAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 19 0.21
76 66 0.74
77 4 0.04
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (77 bp):
GAAGATTTTGAAGATCAAAGCCTCGAAAGGAAGATTCTGAAGATCAAAGCATCAAGAGTTCAACC
AAATCCAAAAAG
Found at i:34208981 original size:42 final size:42
Alignment explanation
Indices: 34208894--34208981 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
34208884 GATCAAGTCG
* ** * *
34208894 CAAGACCCTTGGAGTGAAGTCTCCAAATCATTTGTTAAGTCT
1 CAAGACCCTTGAAACGAAGTCTCCAAATCATTTATTAAGTAT
**
34208936 CAAGACCCTTGAAACGAAGTCTCCAAATGGTTTATTCAAG-AT
1 CAAGACCCTTGAAACGAAGTCTCCAAATCATTTATT-AAGTAT
34208978 CAAG
1 CAAG
34208982 TCGTCAAGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 35 0.92
43 3 0.08
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
CAAGACCCTTGAAACGAAGTCTCCAAATCATTTATTAAGTAT
Found at i:34219728 original size:17 final size:16
Alignment explanation
Indices: 34219696--34219744 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
34219686 TATAATTTTC
*
34219696 TTATATTTAGTTATTT
1 TTATAATTAGTTATTT
34219712 TTATAATTAGTTTATTT
1 TTATAATTAG-TTATTT
* *
34219729 TTA-AGTGAGTTATTT
1 TTATAATTAGTTATTT
34219744 T
1 T
34219745 AATTTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.24
16 13 0.45
17 9 0.31
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (16 bp):
TTATAATTAGTTATTT
Found at i:34222658 original size:8 final size:8
Alignment explanation
Indices: 34222645--34222670 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34222635 TTCTAGACTT
34222645 TTGATTAA
1 TTGATTAA
34222653 TTGATTAA
1 TTGATTAA
34222661 TTGATTAA
1 TTGATTAA
34222669 TT
1 TT
34222671 AGTTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (8 bp):
TTGATTAA
Found at i:34222676 original size:16 final size:17
Alignment explanation
Indices: 34222645--34222686 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
34222635 TTCTAGACTT
34222645 TTGATTAATTGATT-AA
1 TTGATTAATTGATTAAA
34222661 TTGATTAATT-AGTTAAA
1 TTGATTAATTGA-TTAAA
34222678 TTGA-TAATT
1 TTGATTAATT
34222687 TTAGTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TTGATTAATTGATTAAA
Found at i:34222696 original size:6 final size:6
Alignment explanation
Indices: 34222685--34222717 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
34222675 AAATTGATAA
*
34222685 TTTTAG TTTTAG TTTTAG TTTTAA TTTTAG TTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTT
34222718 ATTTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTTAG
Found at i:34222702 original size:12 final size:12
Alignment explanation
Indices: 34222682--34222717 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34222672 GTTAAATTGA
34222682 TAATTTTAGTTT
1 TAATTTTAGTTT
*
34222694 TAGTTTTAGTTT
1 TAATTTTAGTTT
34222706 TAATTTTAGTTT
1 TAATTTTAGTTT
34222718 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (12 bp):
TAATTTTAGTTT
Found at i:34224447 original size:18 final size:17
Alignment explanation
Indices: 34224424--34224460 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
34224414 GAGAAACGGT
*
34224424 AGATAATTAGAAAGTAGA
1 AGATAATTAAAAAG-AGA
34224442 AGATAATTAAAAAGAGA
1 AGATAATTAAAAAGAGA
34224459 AG
1 AG
34224461 TTAGAGAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (17 bp):
AGATAATTAAAAAGAGA
Found at i:34225170 original size:65 final size:65
Alignment explanation
Indices: 34225051--34225174 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
34225041 TAGCTGTTCC
* * * *
34225051 GCATGGAGTAGTGTTCCATTTATTCTAGTTGTTCAGTGTGAAGTAATGCATCACTTATTATTACT
1 GCATGAAGTAGTGTTCCACTTATTCTAGTTGTTCAGCGTGAAATAATGCATCACTTATTATTACT
** * * **
34225116 GCATGAAGTAGTGTTTTACTTATTCTAGTTGTTCTGCGTGAAATAGTGTTTCACTTATT
1 GCATGAAGTAGTGTTCCACTTATTCTAGTTGTTCAGCGTGAAATAATGCATCACTTATT
34225175 CAAGTTGTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 49 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (65 bp):
GCATGAAGTAGTGTTCCACTTATTCTAGTTGTTCAGCGTGAAATAATGCATCACTTATTATTACT
Found at i:34225172 original size:35 final size:35
Alignment explanation
Indices: 34225114--34225185 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
34225104 CTTATTATTA
* * *
34225114 CTGCATGAAGTAGTGTTTTACTTATTCTAGTTGTT
1 CTGCATGAAATAGTGTTTCACTTATTCAAGTTGTT
*
34225149 CTGCGTGAAATAGTGTTTCACTTATTCAAGTTGTT
1 CTGCATGAAATAGTGTTTCACTTATTCAAGTTGTT
34225184 CT
1 CT
34225186 CATTATTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (35 bp):
CTGCATGAAATAGTGTTTCACTTATTCAAGTTGTT
Found at i:34228415 original size:2 final size:2
Alignment explanation
Indices: 34228408--34228434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34228398 AATATCATAC
34228408 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34228435 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34230461 original size:51 final size:51
Alignment explanation
Indices: 34230385--34230483 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
34230375 ACAATACCTA
*
34230385 TGCAAATTGCTGTGGACCTTGACAAGATGCATGGGAGTCTCTTATGAACAG
1 TGCAAATTGCTGTGGACCATGACAAGATGCATGGGAGTCTCTTATGAACAG
* * *
34230436 TGCAAGTTGGTGTGGACCATGACAAGGTGCATGGGAGTCTCTTATGAA
1 TGCAAATTGCTGTGGACCATGACAAGATGCATGGGAGTCTCTTATGAA
34230484 TGGGGTAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (51 bp):
TGCAAATTGCTGTGGACCATGACAAGATGCATGGGAGTCTCTTATGAACAG
Found at i:34231335 original size:18 final size:19
Alignment explanation
Indices: 34231322--34231357 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34231312 GAATTTTAGA
*
34231322 ATAAAATAGAATTTATATG
1 ATAAAAAAGAATTTATATG
34231341 ATAAAAAAGAA-TTATAT
1 ATAAAAAAGAATTTATAT
34231358 TTATTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
ATAAAAAAGAATTTATATG
Found at i:34232659 original size:30 final size:30
Alignment explanation
Indices: 34232615--34232676 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
34232605 AAGATATGAG
*
34232615 AGAGAAAG-AGAAAAAAGTAAAATCAAAATA
1 AGAGAAAGAAAAAAAAAGTAAAA-CAAAATA
* *
34232645 AGAGGAAGAAAAAAAAATTAAAACAAAATA
1 AGAGAAAGAAAAAAAAAGTAAAACAAAATA
34232675 AG
1 AG
34232677 TATTAATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.10
Consensus pattern (30 bp):
AGAGAAAGAAAAAAAAAGTAAAACAAAATA
Found at i:34235792 original size:30 final size:30
Alignment explanation
Indices: 34235756--34235815 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34235746 CATCTTTGTT
34235756 TTCATCTCCTTCCATGTCATCTTCTTCATC
1 TTCATCTCCTTCCATGTCATCTTCTTCATC
* * *
34235786 TTCATCTCTTTGCATGTCATTTTCTTCATC
1 TTCATCTCCTTCCATGTCATCTTCTTCATC
34235816 CTCAATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.13, C:0.32, G:0.05, T:0.50
Consensus pattern (30 bp):
TTCATCTCCTTCCATGTCATCTTCTTCATC
Found at i:34242396 original size:70 final size:70
Alignment explanation
Indices: 34242283--34242634 Score: 478
Period size: 70 Copynumber: 5.1 Consensus size: 70
34242273 CAACAAAACA
* *
34242283 GATTTGGGGAAAGTGAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCAGCACAAGAA
1 GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGAA
34242348 GGCTC
66 GGCTC
* *
34242353 GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCTTTTGGTCTCGGCACAAGAA
1 GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGAA
*
34242418 GAG--A
66 G-GCTC
* * * *
34242422 GATTTGGGGAAAGTGAGCGACGCAAGGAGAAAGGCAGCAAACAGCCTCTGGCCTCGGCACAAGGA
1 GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGAA
34242487 GGCTC
66 GGCTC
* * * * * *
34242492 GATTTGGGAAAATTCAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCGACACAAAAA
1 GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGAA
*
34242557 GAG--A
66 G-GCTC
* * * *
34242561 GATTTAGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAACCTTTGGTCTTGGCACAAGAA
1 GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGAA
34242626 GGCTC
66 GGCTC
34242631 GATT
1 GATT
34242635 CGTTTAAAAT
Statistics
Matches: 242, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
68 2 0.01
69 116 0.48
70 122 0.50
71 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.33, T:0.14
Consensus pattern (70 bp):
GATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGAA
GGCTC
Found at i:34242523 original size:139 final size:139
Alignment explanation
Indices: 34242282--34242634 Score: 544
Period size: 139 Copynumber: 2.5 Consensus size: 139
34242272 ACAACAAAAC
* *
34242282 AGATTTGGGGAAAGTGAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCAGCACAAGA
1 AGATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGA
* * * * * *
34242347 AGGCTCGATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCTTTTGGTCTCGGCA
66 AGGCTCGATTTGGGAAAAGTCAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCGACA
*
34242412 CAAGAAGAG
131 CAAAAAGAG
* * * *
34242421 AGATTTGGGGAAAGTGAGCGACGCAAGGAGAAAGGCAGCAAACAGCCTCTGGCCTCGGCACAAGG
1 AGATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGA
*
34242486 AGGCTCGATTTGGGAAAATTCAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCGACA
66 AGGCTCGATTTGGGAAAAGTCAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCGACA
34242551 CAAAAAGAG
131 CAAAAAGAG
* * * *
34242560 AGATTTAGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAACCTTTGGTCTTGGCACAAGA
1 AGATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGA
34242625 AGGCTCGATT
66 AGGCTCGATT
34242635 CGTTTAAAAT
Statistics
Matches: 192, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
139 192 1.00
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.14
Consensus pattern (139 bp):
AGATTTGGGGAAAGTGAGCGACGCACGGAGAAGGGCAGCAAACAGCCTCTGGTCTCGGCACAAGA
AGGCTCGATTTGGGAAAAGTCAGCGACGCACGAAGAAGGGCAGCAAACAGCCTCTGGTCTCGACA
CAAAAAGAG
Found at i:34243176 original size:18 final size:18
Alignment explanation
Indices: 34243153--34243204 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
34243143 GTAAACATAA
34243153 ATGTATTAACTCATATAC
1 ATGTATTAACTCATATAC
*
34243171 ATGTATGTAA-ACATAT--
1 ATGTAT-TAACTCATATAC
34243187 A--TATTAACTCATATAC
1 ATGTATTAACTCATATAC
34243203 AT
1 AT
34243205 AAAGTTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 11
0.68 0.05 0.28
Matches are distributed among these distances:
13 3 0.11
14 8 0.30
16 2 0.07
18 11 0.41
19 3 0.11
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (18 bp):
ATGTATTAACTCATATAC
Found at i:34243197 original size:32 final size:33
Alignment explanation
Indices: 34243138--34243204 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
34243128 TATATAAAGT
*
34243138 TGTATGTAAACATAAATGTATTAACTCATATACA
1 TGTATGTAAACAT-AATATATTAACTCATATACA
34243172 TGTATGTAAACAT-ATATATTAACTCATATACA
1 TGTATGTAAACATAATATATTAACTCATATACA
34243204 T
1 T
34243205 AAAGTTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 19 0.59
34 13 0.41
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (33 bp):
TGTATGTAAACATAATATATTAACTCATATACA
Found at i:34245506 original size:19 final size:20
Alignment explanation
Indices: 34245464--34245507 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34245454 AAAACGTAAT
*
34245464 TTTTCCTTTGAATTTTCTAG
1 TTTTCCTTTGAATTTTCTAC
**
34245484 TTTTCCTTTGGTTTTTCT-C
1 TTTTCCTTTGAATTTTCTAC
34245503 TTTTC
1 TTTTC
34245508 TTCCTTTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.07, C:0.18, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTCCTTTGAATTTTCTAC
Found at i:34248263 original size:24 final size:24
Alignment explanation
Indices: 34248236--34248291 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
34248226 TCATTGATTT
34248236 TCAAGTAAGAATACATTTGTACTA
1 TCAAGTAAGAATACATTTGTACTA
34248260 TCAAGTAAGAATACATTTGTACTA
1 TCAAGTAAGAATACATTTGTACTA
34248284 TCAAGTAA
1 TCAAGTAA
34248292 CTATCTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (24 bp):
TCAAGTAAGAATACATTTGTACTA
Found at i:34259454 original size:24 final size:24
Alignment explanation
Indices: 34259422--34259467 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34259412 TTTCGAGACA
*
34259422 AAAACAACAAGTCAATTTCAATAC
1 AAAACAACAAGTCAATTACAATAC
*
34259446 AAAACAACAATTCAATTACAAT
1 AAAACAACAAGTCAATTACAAT
34259468 TTCTTGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAACAACAAGTCAATTACAATAC
Found at i:34261259 original size:63 final size:64
Alignment explanation
Indices: 34261160--34261288 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 64
34261150 GCTCATCTTT
* * * * *
34261160 CTCTCTCAGCTCTCTGAACTGTCTCAACTATGTCAACTCTCCGTTGAGCACCATCGTCATC-AG
1 CTCTCTCAGCTCGCTGAACTGTATCAACTATATCAACTATCCGTTGAGCACCATAGTCATCGAG
* * * **
34261223 CTCTCTCAGCTCGCTGAACTGTATGAGCTCTATCAACTATTTGTTGAGCACCATAGTCATCGAG
1 CTCTCTCAGCTCGCTGAACTGTATCAACTATATCAACTATCCGTTGAGCACCATAGTCATCGAG
34261287 CT
1 CT
34261289 GTAGTTTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
63 51 0.93
64 4 0.07
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (64 bp):
CTCTCTCAGCTCGCTGAACTGTATCAACTATATCAACTATCCGTTGAGCACCATAGTCATCGAG
Found at i:34261801 original size:31 final size:31
Alignment explanation
Indices: 34261631--34261815 Score: 214
Period size: 31 Copynumber: 6.0 Consensus size: 31
34261621 TCAGCGTTGG
* * * *
34261631 CGTGTTACAACATTTGACT-TGATACGCATGG
1 CGTGTTACAACATTTTA-TGTTATATGCATGA
* * *
34261662 TGTGTTACAACATTTTATGTTATACGCATGG
1 CGTGTTACAACATTTTATGTTATATGCATGA
34261693 CGTGTTACAACATTTTATGTTATATGCATGA
1 CGTGTTACAACATTTTATGTTATATGCATGA
*
34261724 CGTGTTATAACATTTTATGTTATATGCATGA
1 CGTGTTACAACATTTTATGTTATATGCATGA
* *
34261755 CGTGCTACAACATTTTACGTTATATGCATCG-
1 CGTGTTACAACATTTTATGTTATATGCAT-GA
* *
34261786 CGTGTTACCATATTTTACT-TTATATGCATG
1 CGTGTTACAACATTTTA-TGTTATATGCATG
34261816 GCATGCTACT
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.01
31 134 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (31 bp):
CGTGTTACAACATTTTATGTTATATGCATGA
Found at i:34262960 original size:20 final size:20
Alignment explanation
Indices: 34262935--34262975 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34262925 TATGTGACAC
34262935 AAGCTTCAGGCTAATGGAGT
1 AAGCTTCAGGCTAATGGAGT
34262955 AAGCTTCAGGCTAATGGAGT
1 AAGCTTCAGGCTAATGGAGT
34262975 A
1 A
34262976 GCATTGAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (20 bp):
AAGCTTCAGGCTAATGGAGT
Found at i:34265682 original size:118 final size:117
Alignment explanation
Indices: 34265315--34265789 Score: 465
Period size: 118 Copynumber: 4.0 Consensus size: 117
34265305 TATGCTAAGC
* * * *
34265315 TGACACGCTGAGTGCATGCAGATTTCTGTGGTGACATGCTGAA-TTCTTACATTATTGTGGGGTG
1 TGACACACTGAGTGCATGCAGATTTTTGTGGTGACACGCT-AACTTCTTACAGTATTGT-GGGTG
* *
34265379 ACATGGCATGCCCCATCTTGTGGTGACATGCTGAGTGGAAGTAGATAGTTGGAA
64 ACATGGCATGCCCCATCTTGTGGTGACATGCTGAGTGGAACTAGATAGTTGGCA
* * * *
34265433 TGACACGCTGAGTGCATGCAAATTTTTGTGGTGACACGCTGACTTCTTACAGTATTGTGAGGTAA
1 TGACACACTGAGTGCATGCAGATTTTTGTGGTGACACGCTAACTTCTTACAGTATTGTG-GGTGA
* * * * *
34265498 CACGACGCA--CCCCA-ATTGTGGTGACATGCTAAGTGGAACCAGATAGTTGGCG
65 CATG--GCATGCCCCATCTTGTGGTGACATGCTGAGTGGAACTAGATAGTTGGCA
* * * * * *
34265550 TGACACACTAAGTGCATGTAGATTTTTATGGTTACACGCTAACTTCTTGCAGTATTATGGGCTGA
1 TGACACACTGAGTGCATGCAGATTTTTGTGGTGACACGCTAACTTCTTACAGTATTGTGGG-TGA
** * *
34265615 CATGGCATGCCCCATCTTGTGGTGACACACGGAGTGGAACTAGATACTTGGCA
65 CATGGCATGCCCCATCTTGTGGTGACATGCTGAGTGGAACTAGATAGTTGGCA
* ** * * * * *
34265668 TGACACACGGAGTGCATGCAGATTTCGGTGGTGAAACCCTGACTTCTTTCAATATTGTGGGATGA
1 TGACACACTGAGTGCATGCAGATTTTTGTGGTGACACGCTAACTTCTTACAGTATTGTGGG-TGA
* * * * * * * * * *
34265733 CACGACATACCCCA-ATTATGGTGACACGTTGAGTGGAACAAGATACTTGGCG
65 CATGGCATGCCCCATCTTGTGGTGACATGCTGAGTGGAACTAGATAGTTGGCA
34265785 TGACA
1 TGACA
34265790 TGTTGACCTG
Statistics
Matches: 293, Mismatches: 56, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
115 3 0.01
116 2 0.01
117 130 0.44
118 155 0.53
120 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (117 bp):
TGACACACTGAGTGCATGCAGATTTTTGTGGTGACACGCTAACTTCTTACAGTATTGTGGGTGAC
ATGGCATGCCCCATCTTGTGGTGACATGCTGAGTGGAACTAGATAGTTGGCA
Found at i:34265738 original size:235 final size:235
Alignment explanation
Indices: 34265315--34265789 Score: 603
Period size: 235 Copynumber: 2.0 Consensus size: 235
34265305 TATGCTAAGC
* * * * * * *
34265315 TGACACGCTGAGTGCATGCAGATTTCTGTGGTGACATGCTGAATTCTTACATTATTGTGGGGTGA
1 TGACACACTAAGTGCATGCAGATTTCTATGGTGACACGCTGAATTCTTACAGTATTATGGGCTGA
** * * * * *
34265380 CATGGCATGCCCCATCTTGTGGTGACATGCTGAGTGGAAGTAGATAGTTGGAATGACACGCTGAG
66 CATGGCATGCCCCATCTTGTGGTGACACACGGAGTGGAACTAGATACTTGGAATGACACACGGAG
** * * * *
34265445 TGCATGCAAATTTTTGTGGTGACACGCTGACTTCTTACAGTATTGTGAGGTAACACGACGCACCC
131 TGCATGCAAATTTCGGTGGTGAAACCCTGACTTCTTACAATATTGTGAGGTAACACGACACACCC
* * * *
34265510 CAATTGTGGTGACATGCTAAGTGGAACCAGATAGTTGGCG
196 CAATTATGGTGACACGCTAAGTGGAACAAGATACTTGGCG
* * * *
34265550 TGACACACTAAGTGCATGTAGATTTTTATGGTTACACGCT-AACTTCTTGCAGTATTATGGGCTG
1 TGACACACTAAGTGCATGCAGATTTCTATGGTGACACGCTGAA-TTCTTACAGTATTATGGGCTG
*
34265614 ACATGGCATGCCCCATCTTGTGGTGACACACGGAGTGGAACTAGATACTTGGCATGACACACGGA
65 ACATGGCATGCCCCATCTTGTGGTGACACACGGAGTGGAACTAGATACTTGGAATGACACACGGA
* * * *
34265679 GTGCATGCAGATTTCGGTGGTGAAACCCTGACTTCTTTCAATATTGTG-GGATGACACGACATAC
130 GTGCATGCAAATTTCGGTGGTGAAACCCTGACTTCTTACAATATTGTGAGG-TAACACGACACAC
* *
34265743 CCCAATTATGGTGACACGTTGAGTGGAACAAGATACTTGGCG
194 CCCAATTATGGTGACACGCTAAGTGGAACAAGATACTTGGCG
34265785 TGACA
1 TGACA
34265790 TGTTGACCTG
Statistics
Matches: 203, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
234 4 0.02
235 199 0.98
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (235 bp):
TGACACACTAAGTGCATGCAGATTTCTATGGTGACACGCTGAATTCTTACAGTATTATGGGCTGA
CATGGCATGCCCCATCTTGTGGTGACACACGGAGTGGAACTAGATACTTGGAATGACACACGGAG
TGCATGCAAATTTCGGTGGTGAAACCCTGACTTCTTACAATATTGTGAGGTAACACGACACACCC
CAATTATGGTGACACGCTAAGTGGAACAAGATACTTGGCG
Found at i:34269700 original size:31 final size:31
Alignment explanation
Indices: 34269661--34269956 Score: 405
Period size: 31 Copynumber: 9.5 Consensus size: 31
34269651 GTTAACCCAT
34269661 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
34269692 AATATGGTAACACGCCATGCATATAATGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
34269723 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
34269754 AATGTGGCAACACGCCATACATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* * *
34269785 AATGTTGTAACACACCATGCATATAACGAAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
34269816 AATATGGTAACACGCCATGCATAAAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* * * *
34269847 AATGTTGTAACAGGGCATGCATATAATGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
*
34269878 AATGTTGTAACACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* * * *
34269909 ACTGTTGTAACACGCCATGCGTATCAA-GTCA
1 AATGTGGTAACACGCCATGCATAT-AACGTAA
*
34269940 AATGTTGTAACACGCCA
1 AATGTGGTAACACGCCA
34269957 ACGCTACCAC
Statistics
Matches: 235, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
31 233 0.99
32 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (31 bp):
AATGTGGTAACACGCCATGCATATAACGTAA
Found at i:34270696 original size:47 final size:47
Alignment explanation
Indices: 34270644--34270941 Score: 197
Period size: 47 Copynumber: 6.4 Consensus size: 47
34270634 ATGGAGTCTG
* * **
34270644 ACAAACTTTGAACCCTGCCGTATCATAGATTTCGTCCATGGCGTGTC
1 ACAAACTCTGAACGCTGGTGTATCATAGATTTCGTCCATGGCGTGTC
* * *
34270691 ACAAACTCTGAACGCTGGTGTTTCATAAATTTCGTCCATGGTGTGTC
1 ACAAACTCTGAACGCTGGTGTATCATAGATTTCGTCCATGGCGTGTC
* * * **
34270738 ACAAACTCTGTACGCTGGTGTGTCA-AGATTCCCCCCATGGCGTGTC
1 ACAAACTCTGAACGCTGGTGTATCATAGATTTCGTCCATGGCGTGTC
* * ** * * * * * **
34270784 ACAAACTCTGAACTCTAGCATGTCACAAATTCCCTCCATGGTATGTC
1 ACAAACTCTGAACGCTGGTGTATCATAGATTTCGTCCATGGCGTGTC
* * * * * * * *
34270831 ACCAACTCTGAACACTGACT-TGTCACAGATTCCTTCCATGGCATGTC
1 ACAAACTCTGAACGCTG-GTGTATCATAGATTTCGTCCATGGCGTGTC
* ** * * * * *
34270878 ACAAACTCTAAACTTTGATGTGTCACA-ACTTCCCTCCATGGCGTGTC
1 ACAAACTCTGAACGCTGGTGTATCATAGA-TTTCGTCCATGGCGTGTC
*
34270925 ACAAACTCTGAATGCTG
1 ACAAACTCTGAACGCTG
34270942 ACGTGTCACA
Statistics
Matches: 205, Mismatches: 42, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
46 38 0.19
47 167 0.81
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
ACAAACTCTGAACGCTGGTGTATCATAGATTTCGTCCATGGCGTGTC
Found at i:34270757 original size:24 final size:24
Alignment explanation
Indices: 34270686--34270762 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
34270676 CGTCCATGGC
*
34270686 GTGTCACAAACTCTGAACGCTGGT
1 GTGTCACAAACTCTGTACGCTGGT
* * *
34270710 GTTTCATAAA-TTTCGT-C-CATGGT
1 GTGTCACAAACTCT-GTACGC-TGGT
34270733 GTGTCACAAACTCTGTACGCTGGT
1 GTGTCACAAACTCTGTACGCTGGT
34270757 GTGTCA
1 GTGTCA
34270763 AGATTCCCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 1 0.02
23 17 0.41
24 22 0.54
25 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (24 bp):
GTGTCACAAACTCTGTACGCTGGT
Found at i:34270902 original size:94 final size:94
Alignment explanation
Indices: 34270678--34270952 Score: 315
Period size: 94 Copynumber: 2.9 Consensus size: 94
34270668 ATAGATTTCG
* * * * * *
34270678 TCCATGGCGTGTCACAAACTCTGAACGCTGGTGTTTCATAAATTTCGTCCATGGTGTGTCACAAA
1 TCCATGGCGTGTCACAAACTCTGAACTCTGATGTGTCACAAATTCCCTCCATGGTGTGTCACAAA
* *
34270743 CTCTGTACGCTG-GTGTGTCA-AGATTCCC
66 CTCTGAACGCTGACT-TGTCACAGATTCCC
* * *
34270771 CCCATGGCGTGTCACAAACTCTGAACTCT-A-GCATGTCACAAATTCCCTCCATGGTATGTCACC
1 TCCATGGCGTGTCACAAACTCTGAACTCTGATG--TGTCACAAATTCCCTCCATGGTGTGTCACA
* *
34270834 AACTCTGAACACTGACTTGTCACAGATTCCT
64 AACTCTGAACGCTGACTTGTCACAGATTCCC
* * * * *
34270865 TCCATGGCATGTCACAAACTCTAAACTTTGATGTGTCACAACTTCCCTCCATGGCGTGTCACAAA
1 TCCATGGCGTGTCACAAACTCTGAACTCTGATGTGTCACAAATTCCCTCCATGGTGTGTCACAAA
* *
34270930 CTCTGAATGCTGACGTGTCACAG
66 CTCTGAACGCTGACTTGTCACAG
34270953 CCGTGTCACA
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
91 1 0.01
93 68 0.45
94 81 0.53
95 1 0.01
96 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
TCCATGGCGTGTCACAAACTCTGAACTCTGATGTGTCACAAATTCCCTCCATGGTGTGTCACAAA
CTCTGAACGCTGACTTGTCACAGATTCCC
Found at i:34270948 original size:47 final size:46
Alignment explanation
Indices: 34270678--34270951 Score: 255
Period size: 47 Copynumber: 5.9 Consensus size: 46
34270668 ATAGATTTCG
** * * * *
34270678 TCCATGGCGTGTCACAAACTCTGAACGCTGGTGTTTCATAAATTTCG
1 TCCATGGCGTGTCACAAACTCTGAACGCTGACGTGTCA-CAATTCCC
* * **
34270725 TCCATGGTGTGTCACAAACTCTGTACGCTGGTGTGTCA-AGATTCCC
1 TCCATGGCGTGTCACAAACTCTGAACGCTGACGTGTCACA-ATTCCC
* * *
34270771 CCCATGGCGTGTCACAAACTCTGAACTCT-AGCATGTCACAAATTCCC
1 TCCATGGCGTGTCACAAACTCTGAACGCTGA-CGTGTCAC-AATTCCC
** * * * *
34270818 TCCATGGTATGTCACCAACTCTGAACACTGACTTGTCACAGATTCCT
1 TCCATGGCGTGTCACAAACTCTGAACGCTGACGTGTCACA-ATTCCC
* * ** *
34270865 TCCATGGCATGTCACAAACTCTAAACTTTGATGTGTCACAACTTCCC
1 TCCATGGCGTGTCACAAACTCTGAACGCTGACGTGTCACAA-TTCCC
*
34270912 TCCATGGCGTGTCACAAACTCTGAATGCTGACGTGTCACA
1 TCCATGGCGTGTCACAAACTCTGAACGCTGACGTGTCACA
34270952 GCCGTGTCAC
Statistics
Matches: 187, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 36 0.19
47 148 0.79
48 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
TCCATGGCGTGTCACAAACTCTGAACGCTGACGTGTCACAATTCCC
Found at i:34270987 original size:58 final size:58
Alignment explanation
Indices: 34270897--34271043 Score: 185
Period size: 58 Copynumber: 2.5 Consensus size: 58
34270887 AAACTTTGAT
* *
34270897 GTGTCACA-ACTTCCCT-CCATGGCGTGTCACAAACTCTGAA-TGCTGA-CGTGTCACAGCC
1 GTGTCACACA-TT-CCTACCATGTCGTGTCACAAACTCTAAACT-CT-ACCGTGTCACAGCC
*
34270955 GTGTCACACATTCCTACCATGTCGTGTCACAAACTCTAAACTCTACCGTGTCATAGCC
1 GTGTCACACATTCCTACCATGTCGTGTCACAAACTCTAAACTCTACCGTGTCACAGCC
* *
34271013 GTCTCACACATTCCCACCATGTCGTGTCACA
1 GTGTCACACATTCCTACCATGTCGTGTCACA
34271044 CATTCCCAAC
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
57 4 0.05
58 74 0.93
59 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (58 bp):
GTGTCACACATTCCTACCATGTCGTGTCACAAACTCTAAACTCTACCGTGTCACAGCC
Found at i:34271046 original size:23 final size:23
Alignment explanation
Indices: 34271016--34271066 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
34271006 CATAGCCGTC
*
34271016 TCACACATTCCCACCATGTCGTG
1 TCACACATTCCCAACATGTCGTG
*
34271039 TCACACATTCCCAACATGTCGTT
1 TCACACATTCCCAACATGTCGTG
34271062 TCACA
1 TCACA
34271067 AACTCTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.27
Consensus pattern (23 bp):
TCACACATTCCCAACATGTCGTG
Found at i:34277409 original size:40 final size:42
Alignment explanation
Indices: 34277365--34277452 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
34277355 TTCTATCTAA
** *
34277365 AACACCTCAAGGA-AA-AAAAAACATTATGAGTTGTATTTGG
1 AACACCTCAAGGAGAAGAAAAAACATTAAAAGTTATATTTGG
* *
34277405 AACACCTCTAGGAGAAGAAGAAACATTAAAAGTTATATTTGG
1 AACACCTCAAGGAGAAGAAAAAACATTAAAAGTTATATTTGG
34277447 AACACC
1 AACACC
34277453 ATCCGAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 12 0.29
41 2 0.05
42 27 0.66
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (42 bp):
AACACCTCAAGGAGAAGAAAAAACATTAAAAGTTATATTTGG
Found at i:34277463 original size:42 final size:42
Alignment explanation
Indices: 34277383--34277468 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
34277373 AAGGAAAAAA
** * *
34277383 AAACATTATGAGTTGTATTTGGAACACCTCTAGGAGAAGAAG
1 AAACATTAAAAGTTATATTTGGAACACCTCTAGAAGAAGAAG
*
34277425 AAACATTAAAAGTTATATTTGGAACACCATC-CGAAGAAGAAG
1 AAACATTAAAAGTTATATTTGGAACACC-TCTAGAAGAAGAAG
34277467 AA
1 AA
34277469 CTATTATGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (42 bp):
AAACATTAAAAGTTATATTTGGAACACCTCTAGAAGAAGAAG
Found at i:34281653 original size:12 final size:12
Alignment explanation
Indices: 34281632--34281670 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
34281622 CTATTCATGG
*
34281632 TGCTTTTCCTGT
1 TGCTTCTCCTGT
*
34281644 TGCTTCTCCTCT
1 TGCTTCTCCTGT
*
34281656 TGCTTCTGCTGT
1 TGCTTCTCCTGT
34281668 TGC
1 TGC
34281671 CCCTTCTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.18, T:0.51
Consensus pattern (12 bp):
TGCTTCTCCTGT
Found at i:34281859 original size:24 final size:24
Alignment explanation
Indices: 34281827--34281995 Score: 121
Period size: 24 Copynumber: 7.0 Consensus size: 24
34281817 AGATGTAGAT
*
34281827 GCAGTCAATGAAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
34281851 GCAGTCAATGCAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
* * ** * * *
34281875 ACGAG-CGATATAGATGCAGATGCAGA
1 GC-AGTCAATGCAGTTGGAGAT-C-CA
34281901 TGCAGTCAATGCAGTTGGAGATCCA
1 -GCAGTCAATGCAGTTGGAGATCCA
* * *
34281926 ACAATCAATGCAGTTAGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
* * ** *
34281950 GCGGGCAATGCAAATGCAGAT---
1 GCAGTCAATGCAGTTGGAGATCCA
*
34281971 GCAGTCAATGCAATTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
34281995 G
1 G
34281996 AGAGGAATGC
Statistics
Matches: 107, Mismatches: 30, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
21 17 0.16
24 70 0.65
25 4 0.04
26 4 0.04
27 12 0.11
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (24 bp):
GCAGTCAATGCAGTTGGAGATCCA
Found at i:34281934 original size:75 final size:69
Alignment explanation
Indices: 34281813--34281994 Score: 229
Period size: 75 Copynumber: 2.6 Consensus size: 69
34281803 GCAAATGAAT
* * * * *
34281813 ATGCAGATGTAGATGCAGTCAATGAAGTTGGAGATCCAGCAGTCAATGCAGTTGGAGATCCAACG
1 ATGCAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAACAATCAATGCAGTTAGAGATCCAACG
*
34281878 AGCGATATA
66 -G-G---CA
*
34281887 GATGCAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAACAATCAATGCAGTTAGAGATCCAGC
1 -ATGCAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAACAATCAATGCAGTTAGAGATCCAAC
34281952 GGGCA
65 GGGCA
* *
34281957 ATGCAAATGCAGATGCAGTCAATGCAATTGGAGATCCA
1 ATGCAGATGCAGATGCAGTCAATGCAGTTGGAGATCCA
34281995 GAGAGGAATG
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
69 36 0.37
70 1 0.01
73 1 0.01
74 1 0.01
75 59 0.60
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (69 bp):
ATGCAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAACAATCAATGCAGTTAGAGATCCAACG
GGCA
Found at i:34281979 original size:45 final size:45
Alignment explanation
Indices: 34281930--34282018 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
34281920 GATCCAACAA
* *
34281930 TCAATGCAGTTAGAGATCCAGCG-GGCAATGCAAATGCAGATGCAG
1 TCAATGCAATTAGAGATCCAGAGAGG-AATGCAAATGCAGATGCAG
*
34281975 TCAATGCAATTGGAGATCCAGAGAGGAATGCAAATGCAGATGCA
1 TCAATGCAATTAGAGATCCAGAGAGGAATGCAAATGCAGATGCA
34282019 ATCACTGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (45 bp):
TCAATGCAATTAGAGATCCAGAGAGGAATGCAAATGCAGATGCAG
Found at i:34283650 original size:26 final size:26
Alignment explanation
Indices: 34283621--34283670 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
34283611 AACATTATTC
*
34283621 TGTATCATTTTCATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
34283647 TGTATCATTTACATATTATTCTTT
1 TGTATCATTTACATATTATTCTTT
34283671 TTATTCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTGT
Found at i:34283957 original size:46 final size:44
Alignment explanation
Indices: 34283907--34284059 Score: 103
Period size: 46 Copynumber: 3.3 Consensus size: 44
34283897 GAATCACGTC
34283907 ACTAGTTTATATTGACTCATGTGAGTAATAAATGTGGAGTAGAGTT
1 ACTAGTTTATATTGACTCA-GTGAGTAATAAATGTGGAGT-GAGTT
* * * *** * * *
34283953 ACTAG-TTACTATCGAAGCTC-GTGACATGACTTCTTAGTGGAATCGTGTC
1 ACTAGTTTA-TATTG-A-CTCAGTGA-GT-AATAAAT-GTGGAGT-GAGTT
34284002 ACTAGTTTATATTGACTCACGTGAGTAATAAATGTGGAGTGACGTT
1 ACTAGTTTATATTGACTCA-GTGAGTAATAAATGTGGAGTGA-GTT
*
34284048 ACTAGTTAATAT
1 ACTAGTTTATAT
34284060 GGAATGGCAT
Statistics
Matches: 77, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
45 4 0.05
46 32 0.42
47 8 0.10
48 8 0.10
49 22 0.29
50 3 0.04
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (44 bp):
ACTAGTTTATATTGACTCAGTGAGTAATAAATGTGGAGTGAGTT
Found at i:34284003 original size:95 final size:95
Alignment explanation
Indices: 34283860--34284059 Score: 312
Period size: 95 Copynumber: 2.1 Consensus size: 95
34283850 ATCACGTCAG
* *
34283860 TAGTTAATATGGAAGCGCGTGACATGACTTCTCCGTGGAATCACGTCACTAGTTTATATTGACTC
1 TAGTTAATATCGAAGCGCGTGACATGACTTCTCAGTGGAATCACGTCACTAGTTTATATTGACTC
*
34283925 ATGTGAGTAATAAATGTGGAGTAGA-GTTAC
66 ACGTGAGTAATAAATGTGGAGT-GACGTTAC
* * * **
34283955 TAGTTACTATCGAAGCTCGTGACATGACTTCTTAGTGGAATCGTGTCACTAGTTTATATTGACTC
1 TAGTTAATATCGAAGCGCGTGACATGACTTCTCAGTGGAATCACGTCACTAGTTTATATTGACTC
34284020 ACGTGAGTAATAAATGTGGAGTGACGTTAC
66 ACGTGAGTAATAAATGTGGAGTGACGTTAC
34284050 TAGTTAATAT
1 TAGTTAATAT
34284060 GGAATGGCAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 2 0.02
95 93 0.98
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (95 bp):
TAGTTAATATCGAAGCGCGTGACATGACTTCTCAGTGGAATCACGTCACTAGTTTATATTGACTC
ACGTGAGTAATAAATGTGGAGTGACGTTAC
Found at i:34284164 original size:23 final size:24
Alignment explanation
Indices: 34284105--34284166 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
34284095 GTAGAAAAAT
34284105 GGAGTCGCATGACTAGATGATCTG
1 GGAGTCGCATGACTAGATGATCTG
*
34284129 GGAGTCGCGTGACTAGATGATCTG
1 GGAGTCGCATGACTAGATGATCTG
34284153 GGA-TCGCATGACTA
1 GGAGTCGCATGACTA
34284167 TTTACGCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 10 0.28
24 26 0.72
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (24 bp):
GGAGTCGCATGACTAGATGATCTG
Found at i:34287027 original size:78 final size:77
Alignment explanation
Indices: 34286891--34287246 Score: 480
Period size: 78 Copynumber: 4.6 Consensus size: 77
34286881 CTGCACTCAG
* * * * *
34286891 TTTGCTTCGTTGTACTGGTCATAGCTGCTGCAACATCTTATGTTTTAGATATGCTTGTCCCTCAA
1 TTTGCTTCATTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCC-CAA
*
34286956 TCACAGCAGTAAT
65 TCACAACAGTAAT
* * * *
34286969 TTTGCTTCATTGTTTTGGTCACAATTGCTGCAACATCTTGTGTTTTAGATACGTTTGTCCCCAAA
1 TTTGCTTCATTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCC-AA
*
34287034 TCACAACAGTCAT
65 TCACAACAGTAAT
*
34287047 TTTGCTTCGTTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTTCCCCAA
1 TTTGCTTCATTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTG-TCCCCAA
*
34287112 TCACAGCAGTCAA-
65 TCACAACAGT-AAT
* * * *
34287125 TTTGCTTCGTTGTTTTGGTCACAGCTACTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCCAA
1 TTTGCTTCATTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGT-CCCCAA
*
34287190 TCACAACAGTCAT
65 TCACAACAGTAAT
* *
34287203 TTTGCTTCATTGTTCGGGTCACAACTGCTGCAACATCATGTGTT
1 TTTGCTTCATTGTTCTGGTCACAACTGCTGCAACATCTTGTGTT
34287247 GCAAATATCA
Statistics
Matches: 244, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
77 3 0.01
78 235 0.96
79 6 0.02
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (77 bp):
TTTGCTTCATTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCAAT
CACAACAGTAAT
Found at i:34287175 original size:156 final size:156
Alignment explanation
Indices: 34286891--34287246 Score: 554
Period size: 156 Copynumber: 2.3 Consensus size: 156
34286881 CTGCACTCAG
* * * *
34286891 TTTGCTTCGTTGTACTGGTCATAGCTGCTGCAACATCTTATGTTTTAGATATGCTTGTCCCTCAA
1 TTTGCTTCGTTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCTCAA
* *
34286956 TCACAGCAGTAATTTTGCTTCATTGTTTTGGTCACAATTGCTGCAACATCTTGTGTTTTAGATAC
66 TCACAGCAGTAATTTTGCTTCATTGTTTTGGTCACAACTACTGCAACATCTTGTGTTTTAGATAC
*
34287021 GTTTGTCCCCAAATCACAACAGTCAT
131 GCTTGTCCCCAAATCACAACAGTCAT
34287047 TTTGCTTCGTTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTTCCC-CA
1 TTTGCTTCGTTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTG-TCCCTCA
* *
34287111 ATCACAGCAGTCAA-TTTGCTTCGTTGTTTTGGTCACAGCTACTGCAACATCTTGTGTTTTAGAT
65 ATCACAGCAGT-AATTTTGCTTCATTGTTTTGGTCACAACTACTGCAACATCTTGTGTTTTAGAT
* *
34287175 ATGCTTGTCCCCCAATCACAACAGTCAT
129 ACGCTTGTCCCCAAATCACAACAGTCAT
* * *
34287203 TTTGCTTCATTGTTCGGGTCACAACTGCTGCAACATCATGTGTT
1 TTTGCTTCGTTGTTCTGGTCACAACTGCTGCAACATCTTGTGTT
34287247 GCAAATATCA
Statistics
Matches: 184, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
156 178 0.97
157 6 0.03
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (156 bp):
TTTGCTTCGTTGTTCTGGTCACAACTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCTCAA
TCACAGCAGTAATTTTGCTTCATTGTTTTGGTCACAACTACTGCAACATCTTGTGTTTTAGATAC
GCTTGTCCCCAAATCACAACAGTCAT
Found at i:34290713 original size:118 final size:116
Alignment explanation
Indices: 34290531--34291342 Score: 975
Period size: 111 Copynumber: 7.1 Consensus size: 116
34290521 AGCAAGAGGC
* * * * * * *
34290531 GAATAGCAAAAGTCACGTGCCATCGCTCTCGCAATATATAACAACAGGTCACTTAATATATAAAA
1 GAATTGCACAAGTCACGTGCCACCACTCTCGC-ATA-CTAACAACAGGTAACGTAATATATAAAA
* * *
34290596 ACCAGTCACGCAAGCCTAAAAAATTACTGAACAAAAGCCTCAAAACAATACAT
64 ACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
*
34290649 GAATTGCACAAGTCACGTGCCACTACTCTCGCAATACATAACAACAGGTAACGTAATATATAAAA
1 GAATTGCACAAGTCACGTGCCACCACTCTCGC-ATAC-TAACAACAGGTAACGTAATATATAAAA
* *
34290714 ACCAGTCACGCAAGCCTAAAAAGCTACTGAACAAAAGCCCCTAAACAACACAT
64 ACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
** * * *
34290767 GAATTGCACAAGTCACGCACCACCACTCACGC-TAC-AAC-A-A-GCAACGCAATATATAAAAAC
1 GAATTGCACAAGTCACGTGCCACCACTCTCGCATACTAACAACAGGTAACGTAATATATAAAAAC
* *
34290827 CAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACATAT
66 CAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
* *
34290878 GAATTGCACAAGTCACGTGTCACCAATCTCGCAATACATAACAACAGGTAACGTAATATATAAAA
1 GAATTGCACAAGTCACGTGCCACCACTCTCGC-ATAC-TAACAACAGGTAACGTAATATATAAAA
* * *
34290943 ACCAGTCACGCAAGCCT-AAAAACCACTGAACAAAAGCCCCTCAACAACACAT
64 ACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
** ** * * *
34290995 GAATTATACAAGTCACACGCCACCA--CT--CATGCT-ACAACAGGTAACGCAATATATAAAAAT
1 GAATTGCACAAGTCACGTGCCACCACTCTCGCATACTAACAACAGGTAACGTAATATATAAAAAC
* *
34291055 CAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCTTTAAACAACACAT
66 CAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
* * * * *
34291106 GAATTGCATAAGTAACGTGCCACCACTCACG----CT-ACAACAGGTAACGCAATATAAAAAAAC
1 GAATTGCACAAGTCACGTGCCACCACTCTCGCATACTAACAACAGGTAACGTAATATATAAAAAC
* * *
34291166 CAATCACGTAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
66 CAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
* * * *
34291217 GAATTGCACAAGTCACATGCCACCATTCTCG----CT-ACAACAGGTAACGTAATAGATAAAAAT
1 GAATTGCACAAGTCACGTGCCACCACTCTCGCATACTAACAACAGGTAACGTAATATATAAAAAC
* *
34291277 CAGTCACGCAAGGCTAAAAAACTACTAAACAAAAGCCT-TAAAACAACACAT
66 CAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCT-AAACAACACAT
34291328 GAATTGCACAAGTCA
1 GAATTGCACAAGTCA
34291343 GTCACGCATT
Statistics
Matches: 604, Mismatches: 76, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
110 39 0.06
111 327 0.54
112 4 0.01
113 6 0.01
114 3 0.00
115 5 0.01
116 4 0.01
117 52 0.09
118 164 0.27
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17
Consensus pattern (116 bp):
GAATTGCACAAGTCACGTGCCACCACTCTCGCATACTAACAACAGGTAACGTAATATATAAAAAC
CAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACAT
Found at i:34291133 original size:339 final size:345
Alignment explanation
Indices: 34290557--34291342 Score: 1078
Period size: 339 Copynumber: 2.3 Consensus size: 345
34290547 GTGCCATCGC
* * * *
34290557 TCTCGCAATATATAACAACAGGTCACTTAATATATAAAAACCAGTCACGCAAGCCTAAAAAATTA
1 TCTCGCAATACATAACAACAGGTAACGTAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
* * * ** *
34290622 CTGAACAAAAGCCTCAAAACAATACATGAATTGCACAAGTCACGTGCCACTACTCTCGCAATACA
66 CTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACACGCCAC-ACACTC-CAATACA
* *
34290687 TAACAACAGGTAACGTAATATATAAAAACCAGTCACGCAAGCCTAAAAAGCTACTGAACAAAAGC
129 TAACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGC
*
34290752 CCCTAAACAACACATGAATTGCACAAGTCACGCACCACCACTCACGCTACAACAAGCAACGCAAT
194 CCCTAAACAACACATGAATTGCACAAGTAACGCACCACCACTCACGCTACAACAAGCAACGCAAT
* * * * *
34290817 ATATAAAAACCAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCTCTAAACAACATATGAAT
259 ATAAAAAAACCAATCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
* *
34290882 TGCACAAGTCACGTGTCACCAA
324 TGCACAAGTCACATGCCACCAA
*
34290904 TCTCGCAATACATAACAACAGGTAACGTAATATATAAAAACCAGTCACGCAAGCCT-AAAAACCA
1 TCTCGCAATACATAACAACAGGTAACGTAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
* ** *
34290968 CTGAACAAAAGCCCCTCAACAACACATGAATTATACAAGTCACACGCCAC-CACT-C-ATGC-T-
66 CTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACACGCCACACACTCCAATACATA
* * *
34291028 ACAACAGGTAACGCAATATATAAAAATCAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCT
131 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCC
* * ** * *
34291093 TTAAACAACACATGAATTGCATAAGTAACGTGCCACCACTCACGCTACAACAGGTAACGCAATAT
196 CTAAACAACACATGAATTGCACAAGTAACGCACCACCACTCACGCTACAACAAGCAACGCAATAT
*
34291158 AAAAAAACCAATCACGTAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTG
261 AAAAAAACCAATCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTG
*
34291223 CACAAGTCACATGCCACCAT
326 CACAAGTCACATGCCACCAA
* * *
34291243 TCTCG-----C-T-ACAACAGGTAACGTAATAGATAAAAATCAGTCACGCAAGGCTAAAAAACTA
1 TCTCGCAATACATAACAACAGGTAACGTAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
* *
34291301 CTAAACAAAAG-CCTTAAAACAACACATGAATTGCACAAGTCA
66 CTGAACAAAAGCCCCT-AAACAACACATGAATTGCACAAGTCA
34291343 GTCACGCATT
Statistics
Matches: 392, Mismatches: 45, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
332 42 0.11
333 41 0.10
334 1 0.00
339 199 0.51
340 1 0.00
341 3 0.01
342 1 0.00
344 3 0.01
346 48 0.12
347 53 0.14
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17
Consensus pattern (345 bp):
TCTCGCAATACATAACAACAGGTAACGTAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
CTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACACGCCACACACTCCAATACATA
ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCC
CTAAACAACACATGAATTGCACAAGTAACGCACCACCACTCACGCTACAACAAGCAACGCAATAT
AAAAAAACCAATCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTG
CACAAGTCACATGCCACCAA
Found at i:34292678 original size:48 final size:48
Alignment explanation
Indices: 34292620--34292795 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 48
34292610 ACGCAACGTT
34292620 AACAAATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTC
1 AACAAATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTC
* ** * * *
34292668 AACAAATATTCAGTCAAGTAAT-ATTCAGTCACGTATTTCCTGACACGCAATGCTC
1 AACAAATATTCAGTCACGTAATGCCT-A-TAAAG-A---ACT--CACGCAATGCTC
* * * * *
34292723 AACATATATTCAGTCATGTAATGCCTATAAAGAATTCACACAATACTC
1 AACAAATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTC
* *
34292771 AACAAATATTCAGGCACCTAATGCC
1 AACAAATATTCAGTCACGTAATGCC
34292796 AAATAAACAA
Statistics
Matches: 99, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
47 1 0.01
48 53 0.54
49 3 0.03
50 2 0.02
53 3 0.03
54 3 0.03
55 33 0.33
56 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (48 bp):
AACAAATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTC
Found at i:34296545 original size:21 final size:21
Alignment explanation
Indices: 34296487--34296568 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 21
34296477 AGTTTCAAAA
* *
34296487 TTGTTTAAATGAGTTCTAAAT
1 TTGTTTAAATGAGTTTTGAAT
* *
34296508 TTGTTTGAATGAGTTTTGATT
1 TTGTTTAAATGAGTTTTGAAT
* *
34296529 TTGTTTAAATGATTTTTGAAC
1 TTGTTTAAATGAGTTTTGAAT
* *
34296550 TT-ATTAAGTGAGTTTTGAA
1 TTGTTTAAATGAGTTTTGAA
34296569 CATAAATTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
20 14 0.28
21 36 0.72
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.51
Consensus pattern (21 bp):
TTGTTTAAATGAGTTTTGAAT
Found at i:34297387 original size:33 final size:33
Alignment explanation
Indices: 34297344--34297433 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 33
34297334 AAAGGTAGAG
*
34297344 AGGTTATGCTTGATCTTTGAAAAGACATTGTGA
1 AGGTTATGCTTGATCTTTGAAAAGACATTGTAA
* * *
34297377 AGGTTGTGCTTAATCCTTTGAAAAGGCATTGTAA
1 AGGTTATGCTTGAT-CTTTGAAAAGACATTGTAA
* * *
34297411 AGGTCATGCTTGAACCTTGAAAA
1 AGGTTATGCTTGATCTTTGAAAA
34297434 AGTATTCTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 20 0.43
34 27 0.57
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (33 bp):
AGGTTATGCTTGATCTTTGAAAAGACATTGTAA
Found at i:34299644 original size:20 final size:20
Alignment explanation
Indices: 34299619--34299664 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
34299609 TTTTGACCCC
34299619 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
34299639 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
34299659 ATTTGA
1 ATTTGA
34299665 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Done.