Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 221 of 292
Found at i:64737662 original size:21 final size:21
Alignment explanation
Indices: 64737634--64737686 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
64737624 CTATCATATG
64737634 TATTATTATCTTACTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
64737658 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
64737678 TCATTATTA
1 T-ATTATTA
64737687 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:64741816 original size:12 final size:12
Alignment explanation
Indices: 64741795--64741825 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
64741785 AACATTTTGA
*
64741795 CATTCGTGCATT
1 CATTCATGCATT
64741807 CATTCATGCATT
1 CATTCATGCATT
64741819 CATTCAT
1 CATTCAT
64741826 ACATCGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:64762196 original size:71 final size:71
Alignment explanation
Indices: 64762075--64762208 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
64762065 GTTTTCCAAG
* *
64762075 AAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
64762140 GTTTCA
66 GTTTCA
* * *
64762146 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
64762209 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:64762248 original size:160 final size:157
Alignment explanation
Indices: 64761984--64762359 Score: 662
Period size: 160 Copynumber: 2.4 Consensus size: 157
64761974 TTGTTTTTTC
64761984 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
64762049 CTGCTTTTTAGTTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
64762114 GACACGTTGAGGTAATTTCAATTTATGTTT
131 G--ACGTTGAGGTAATTTCAATTTATG-TT
64762144 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
64762209 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
*
64762274 GACGTTGAGGTAATTTTAATTTATGTT
131 GACGTTGAGGTAATTTCAATTTATGTT
* * * *
64762301 CCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
64762360 TAGTTTATGT
Statistics
Matches: 209, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
157 57 0.27
158 23 0.11
160 129 0.62
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (157 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
GACGTTGAGGTAATTTCAATTTATGTT
Found at i:64762647 original size:203 final size:201
Alignment explanation
Indices: 64762388--64762756 Score: 541
Period size: 203 Copynumber: 1.8 Consensus size: 201
64762378 TTGATTCATC
*
64762388 TTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAG-AG
1 TTGCGAAAGGTGAGTTAAGCCTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAAG
* *
64762452 ATGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTCTTAATTCCTGTTTT-
66 -TGAGTTGAGCCTAAGG--CAC--GCTGAGCTATTTTCAATTTCTGCTTCTTAATTCATGTTTTC
**
64762515 TTA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTTTCAAATAA
126 CAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTTTCAAATAA
64762579 ATCAACCCATA
191 ATCAACCCATA
* *
64762590 TTGCGAGAGGTGAGTTGAGCCTTTCAACTTT-TGTTTTTTTCAAAAATCAACTCATATTGCGAGA
1 TTGCGAAAGGTGAGTTAAGCCTTTCAA-TTTCTG-TTTTTTCAAAAATCAACTCATATTGCGAGA
* *
64762654 AGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCA
64 AGTGAGTTGAGCCT-AAGGCACGCTGAGCTATTTTCAATTTCTGCTTCTTAATTCATGTTTTCCA
*
64762719 AGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
128 AGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64762757 CAGGTCACAC
Statistics
Matches: 150, Mismatches: 10, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
201 37 0.25
202 27 0.18
203 82 0.55
204 2 0.01
205 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (201 bp):
TTGCGAAAGGTGAGTTAAGCCTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAAG
TGAGTTGAGCCTAAGGCACGCTGAGCTATTTTCAATTTCTGCTTCTTAATTCATGTTTTCCAAGA
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTTTCAAATAAATCAA
CCCATA
Found at i:64762653 original size:56 final size:56
Alignment explanation
Indices: 64762511--64762667 Score: 246
Period size: 58 Copynumber: 2.8 Consensus size: 56
64762501 TTAATTCCTG
64762511 TTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
1 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
* *
64762566 TTTTTTCAAATAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTT-TGT
1 TTTTTTC-AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAA-TTTATAT
*
64762624 TTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64762668 CAAGGCACGC
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
55 6 0.06
56 33 0.35
57 4 0.04
58 48 0.51
59 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (56 bp):
TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
Found at i:64762822 original size:73 final size:72
Alignment explanation
Indices: 64762721--64762929 Score: 251
Period size: 73 Copynumber: 2.9 Consensus size: 72
64762711 GTTTTCCAAG
* *
64762721 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAATTT
1 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGT--CACGCTGAGGTATTTTTAATTT
64762786 -ATGTTTCA
64 GATGTTTCA
* ** ** *
64762794 AAATTTGACTCATATTGTGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTGATTCCT
1 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATT--T
*
64762858 GTTGTTTCA
64 GATGTTTCA
* * * *
64762867 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTT
64762930 CTACTTTCCA
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
70 7 0.06
71 12 0.11
72 2 0.02
73 86 0.76
74 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (72 bp):
AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTGA
TGTTTCA
Found at i:64763032 original size:136 final size:137
Alignment explanation
Indices: 64762857--64763119 Score: 388
Period size: 136 Copynumber: 1.9 Consensus size: 137
64762847 TTTTGATTCC
* * * *
64762857 TGTTGTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATT
1 TGTTGTTTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTACT
* ***
64762922 TTCAATTTCTACTTTCCAATTCCT-GT-TTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 TTCAATTTCTACTTTCCAATTCCTACTGTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTG
64762985 TACCTTTT
130 TACCTTTT
64762993 TGTT-TTTCAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAC
1 TGTTGTTTC-AAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAC
* * *
64763057 TTTCAATTTCTGCTTTTCAATTCCTACTGTTCAAAAAAATCAGCTCATATTGCGAGAGTGAGT
65 TTTCAATTTCTACTTTCCAATTCCTACTGTTCAAAAAAATCAACTCATATTGCGAGAGTGAGT
64763120 CAAGCTTTAG
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
135 4 0.04
136 78 0.69
137 7 0.06
138 24 0.21
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (137 bp):
TGTTGTTTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTACT
TTCAATTTCTACTTTCCAATTCCTACTGTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGT
ACCTTTT
Found at i:64764816 original size:26 final size:27
Alignment explanation
Indices: 64764783--64764842 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
64764773 GTGAATGTTG
*
64764783 TATA-TATT-TATGTATAATATTATTTT
1 TATATTATTGTAT-TATAATATTATTAT
*
64764809 TA-ATTATTGTATTTTAATATTATTAT
1 TATATTATTGTATTATAATATTATTAT
64764835 TATATTAT
1 TATATTAT
64764843 ATATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTATTGTATTATAATATTATTAT
Found at i:64764852 original size:29 final size:26
Alignment explanation
Indices: 64764797--64764852 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
64764787 TATTTATGTA
* *
64764797 TAATATTATTTTTAATTATTGTATTT
1 TAATATTATTATTAATTATTATATTT
64764823 TAATATTATTATTATATTATATATACTTT
1 TAATATTATTATTA-ATTAT-TATA-TTT
64764852 T
1 T
64764853 TCGTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 5 0.20
28 3 0.12
29 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TAATATTATTATTAATTATTATATTT
Found at i:64764993 original size:21 final size:21
Alignment explanation
Indices: 64764965--64765017 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
64764955 CTATCATATG
64764965 TATTATTATCTTACTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
64764989 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
64765009 TCATTATTA
1 T-ATTATTA
64765018 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:64768486 original size:18 final size:19
Alignment explanation
Indices: 64768460--64768498 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
64768450 ATTCAATTCA
64768460 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
64768479 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
64768497 AT
1 AT
64768499 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:64784229 original size:37 final size:36
Alignment explanation
Indices: 64784160--64784237 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 36
64784150 ATAAGTGTAT
*
64784160 TTATTATAAAACTTAAAGTTAATATATAATATTATA
1 TTATAATAAAACTTAAAGTTAATATATAATATTATA
64784196 TTATAATAAAACTTAAACGTTAAGTATAT-ATATTATA
1 TTATAATAAAACTTAAA-GTTAA-TATATAATATTATA
64784233 TTATA
1 TTATA
64784238 TTATAATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
36 16 0.41
37 18 0.46
38 5 0.13
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (36 bp):
TTATAATAAAACTTAAAGTTAATATATAATATTATA
Found at i:64784333 original size:25 final size:25
Alignment explanation
Indices: 64784263--64784336 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
64784253 AAAAGAAAAA
*
64784263 AAAAG-AAAA-AGAAGGAGAGAAAG
1 AAAAGAAAAAGAGAAGGAGAGAAGG
* *
64784286 AAACGAAACAGAGAAGGAGAGAAGG
1 AAAAGAAAAAGAGAAGGAGAGAAGG
* *
64784311 AAAAGAAAAAGAGAAAGAAAGAAGG
1 AAAAGAAAAAGAGAAGGAGAGAAGG
64784336 A
1 A
64784337 GAAAAGTTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 35 0.83
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (25 bp):
AAAAGAAAAAGAGAAGGAGAGAAGG
Found at i:64792082 original size:20 final size:18
Alignment explanation
Indices: 64792057--64792096 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
64792047 ATGATAGAGT
64792057 TAAAAATAAGAAGAAAAAAA
1 TAAAAAT-AGAA-AAAAAAA
*
64792077 TAAAAATATAAAAAAAAA
1 TAAAAATAGAAAAAAAAA
64792095 TA
1 TA
64792097 CATAAATGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
TAAAAATAGAAAAAAAAA
Found at i:64793892 original size:59 final size:59
Alignment explanation
Indices: 64793827--64793946 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
64793817 AGTTTACAAG
64793827 TACCATCCATCAACCTTGAGAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAA
1 TACCATCCATCAACCTTGAGAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAA
*
64793886 TACCATCCATCAACCTTGAGAGGCAAGGCAGAAATGACCATATTGTTACACTTTCCCAA
1 TACCATCCATCAACCTTGAGAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAA
64793945 TA
1 TA
64793947 GTCTTCTCAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (59 bp):
TACCATCCATCAACCTTGAGAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAA
Found at i:64804039 original size:18 final size:19
Alignment explanation
Indices: 64804016--64804060 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
64804006 TTTTATTATA
*
64804016 CATTTTTTGTA-ATCTTTT
1 CATTTTTTGTACATATTTT
*
64804034 CATTTTTGGTACATATTTT
1 CATTTTTTGTACATATTTT
*
64804053 AATTTTTT
1 CATTTTTT
64804061 TATGGAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (19 bp):
CATTTTTTGTACATATTTT
Found at i:64805018 original size:132 final size:129
Alignment explanation
Indices: 64804835--64805214 Score: 422
Period size: 132 Copynumber: 2.9 Consensus size: 129
64804825 TTCACAATTT
* ** * *
64804835 TTTTAAAAACTCTTTAAAACGAAGGCGAGATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAA
1 TTTTAAAAACTCTTTAAAAC-AAAGAAAGGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAA
* *
64804900 CGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCGCTCATG
65 CGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCACTC---
64804965 CC-
127 CCA
* * *
64804967 TTTTAAGAACTCTTTAAAACAAAGATAAGGTTTGATATTTAGCAATTCGCGGAATCGTTCCCTAA
1 TTTTAAAAACTCTTTAAAACAAAGA-AAGGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAA
* * * **
64805032 TGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATC-AGATAACCCTTCCGAATTTCACTCCC
65 CGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAG-TATCCCTTCAAAATTTCACTCCC
64805096 A
129 A
** * * * *
64805097 TTTTCTAAAAACTCTAAAAAAACGAAAGAAATGTTTGATGTTTGGCAATTCGGGGAATAGTGCCC
1 -TTT-TAAAAACTCT-TTAAAAC-AAAGAAAGGTTTGATATTTGGCAATTCGCGGAATCGTGCCC
* * * * *
64805162 TATCGTGCTGGGTTGCAATCTCCCGTTTGTTCAAAATAATCGAGTATCTCTTC
62 TAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAGTATCCCTTC
64805215 GGGATTTCAC
Statistics
Matches: 209, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
129 2 0.01
131 8 0.04
132 115 0.55
133 77 0.37
134 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (129 bp):
TTTTAAAAACTCTTTAAAACAAAGAAAGGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
GTGTTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCACTCCCA
Found at i:64805189 original size:133 final size:131
Alignment explanation
Indices: 64804868--64805237 Score: 417
Period size: 133 Copynumber: 2.8 Consensus size: 131
64804858 GGCGAGATTC
* *
64804868 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* * * **
64804933 TAATCGAGTATCCCTTCAAAATTTCGCT-CATGCCTTT-TAAGAACTCTTTAAAACAAAGATAAG
66 TAATCGAGTATCCCTTCAGAATTTCACTCCAT---TTTCTAAAAACTCTAAAAAACAAAGATAAG
64804996 GTTT
128 GTTT
* * *
64805000 GATATTTAGCAATTCGCGGAATCGTTCCCTAAT-GTGTTGGGTTGCAATTTCTCGTTTGCTCAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCT-ATCGTGTTGGGTTGCAATTTCCCGTTTGCTCAAA
* *
64805064 ATAATC-AGATAACCCTTCCGAATTTCACTCCCATTTTCTAAAAACTCTAAAAAAACGAAAGA-A
65 ATAATCGAG-TATCCCTTCAGAATTTCACT-CCATTTTCTAAAAACTCT-AAAAAAC-AAAGATA
*
64805127 ATGTTT
126 AGGTTT
* * * * * *
64805133 GATGTTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTGCAATCTCCCGTTTGTTCAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* * * *
64805198 TAATCGAGTATCTCTTCGGGATTTCACTCGTATTTTCTAA
66 TAATCGAGTATCCCTTCAGAATTTCACTC-CATTTTCTAA
64805238 GGCGAGGCAA
Statistics
Matches: 202, Mismatches: 26, Indels: 19
0.82 0.11 0.08
Matches are distributed among these distances:
131 5 0.02
132 92 0.46
133 95 0.47
134 10 0.05
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
GATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
TAATCGAGTATCCCTTCAGAATTTCACTCCATTTTCTAAAAACTCTAAAAAACAAAGATAAGGTT
T
Found at i:64807115 original size:14 final size:14
Alignment explanation
Indices: 64807096--64807123 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64807086 ATAATAAGAC
64807096 AAATAATAGAAAAT
1 AAATAATAGAAAAT
64807110 AAATAATAGAAAAT
1 AAATAATAGAAAAT
64807124 TCTAAACAAA
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:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
AAATAATAGAAAAT
Found at i:64808899 original size:16 final size:16
Alignment explanation
Indices: 64808878--64808909 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64808868 ATTAGTTTAA
64808878 TTAATTTATTTAATTT
1 TTAATTTATTTAATTT
*
64808894 TTAATTTATTTGATTT
1 TTAATTTATTTAATTT
64808910 AACCAACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTAATTTATTTAATTT
Found at i:64810837 original size:29 final size:32
Alignment explanation
Indices: 64810798--64810860 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 32
64810788 AGCTTATATA
*
64810798 TTTATAAATTTT-AAAAGATT-AAAT-TAATT
1 TTTATAAATTTTAAAAAAATTAAAATATAATT
*
64810827 TTTATTAATTTTAAAAAAATTAAAATATAATT
1 TTTATAAATTTTAAAAAAATTAAAATATAATT
64810859 TT
1 TT
64810861 ATTTTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.38
30 7 0.24
31 4 0.14
32 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (32 bp):
TTTATAAATTTTAAAAAAATTAAAATATAATT
Found at i:64813942 original size:21 final size:21
Alignment explanation
Indices: 64813916--64813961 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
64813906 TATATTTATT
64813916 TTTATAAAATATTTAAA-ATTA
1 TTTATAAAATATTTAAACA-TA
* *
64813937 TTTATAATATTTTTAAACATA
1 TTTATAAAATATTTAAACATA
64813958 TTTA
1 TTTA
64813962 AATTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATAAAATATTTAAACATA
Found at i:64816340 original size:32 final size:30
Alignment explanation
Indices: 64816282--64816351 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 30
64816272 CCTAAACTTT
*
64816282 TTTTTGTCCAATTTGATACTCCAACTTAACA
1 TTTTT-TCCAATTTGATACTCAAACTTAACA
*
64816313 CTTTTTTCCTAATTTGATACAT-AAACTTGACA
1 -TTTTTTCC-AATTTGATAC-TCAAACTTAACA
64816345 TTTTTTC
1 TTTTTTC
64816352 TTAAGTTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 10 0.29
32 23 0.68
33 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTTTTCCAATTTGATACTCAAACTTAACA
Found at i:64816607 original size:24 final size:23
Alignment explanation
Indices: 64816563--64816608 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
64816553 ATGATTTTTA
*
64816563 TTTTATTTTATATGTTCAATTAC
1 TTTTATTTTATATATTCAATTAC
* *
64816586 TTTTAGTTTTATTTATTTAATTA
1 TTTTA-TTTTATATATTCAATTA
64816609 AATATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATATATTCAATTAC
Found at i:64817432 original size:25 final size:23
Alignment explanation
Indices: 64817404--64817468 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
64817394 ATAAAAAAAT
*
64817404 TTAAAAATATAATAAATCAAATATA
1 TTAAAAACATAA-AAAT-AAATATA
64817429 TTAAAAACATAAAAAT-AA-ATA
1 TTAAAAACATAAAAATAAATATA
*
64817450 TTAAAACAAATAAAAATAA
1 TTAAAA-ACATAAAAATAA
64817469 TACTAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.25
22 11 0.31
23 1 0.03
24 4 0.11
25 11 0.31
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAAAACATAAAAATAAATATA
Found at i:64817462 original size:22 final size:21
Alignment explanation
Indices: 64817422--64817479 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
64817412 ATAATAAATC
*
64817422 AAAT-ATATTAAAA-ACATAA
1 AAATAATATTAAAACAAATAA
64817441 AAATAAATATTAAAACAAATAA
1 AAAT-AATATTAAAACAAATAA
*
64817463 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
64817480 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
21 21 0.62
22 9 0.26
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:64820660 original size:44 final size:45
Alignment explanation
Indices: 64820605--64820697 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 45
64820595 TTCTTAAATT
64820605 ATTCAGATACCATACTTATATTTAACACATAAATAT-AAAATATA
1 ATTCAGATACCATACTTATATTTAACACATAAATATAAAAATATA
*
64820649 ATTCGGATACCATACTTATATTTAACACATAAATATAAAAATATA
1 ATTCAGATACCATACTTATATTTAACACATAAATATAAAAATATA
64820694 ATTC
1 ATTC
64820698 TTTCGTATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 35 0.74
45 12 0.26
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (45 bp):
ATTCAGATACCATACTTATATTTAACACATAAATATAAAAATATA
Found at i:64825595 original size:23 final size:23
Alignment explanation
Indices: 64825541--64825601 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
64825531 GATACATAAA
64825541 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
64825562 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
64825583 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
64825602 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:64825609 original size:23 final size:23
Alignment explanation
Indices: 64825527--64825613 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
64825517 CCTGATCAGT
* *
64825527 ATACGATACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
64825549 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
64825569 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
64825592 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
64825614 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:64826009 original size:15 final size:15
Alignment explanation
Indices: 64825984--64826040 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
64825974 TCATGTATAT
64825984 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
64826000 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
64826015 -ATAATTTCAATCAA
1 TATAAATTCAATCAA
64826029 TATAAATTCAAT
1 TATAAATTCAAT
64826041 AAATTCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 13 0.34
15 21 0.55
16 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:64826025 original size:29 final size:27
Alignment explanation
Indices: 64825987--64826044 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
64825977 TGTATATTAT
64825987 ATAATTCAATCAATATAAATTCAATCAA
1 ATAATTCAATCAATATAAATTCAAT-AA
64826015 ATAATTTCAATCAATATAAATTCAATAA
1 ATAA-TTCAATCAATATAAATTCAATAA
64826043 AT
1 AT
64826045 TCATCGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATTCAATCAATATAAATTCAATAA
Found at i:64832177 original size:2 final size:2
Alignment explanation
Indices: 64832172--64832196 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64832162 TTGTTGTGTG
64832172 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
64832197 TTCATTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64841918 original size:41 final size:41
Alignment explanation
Indices: 64841834--64842110 Score: 457
Period size: 41 Copynumber: 6.8 Consensus size: 41
64841824 AATAGGGCTT
*
64841834 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAA-ATAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
*
64841874 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
* *
64841915 TAGCGGCGTTATTGGAAAAGCGCCGCTAAAAGACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
* *
64841956 TAGCGGCGTTTTTGGAAAAGCACCGCTAAAAGACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
64841997 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
* *
64842038 TAGCGGCGTTTTTGGCAAAGTGCCGTTAAAAGACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
* *
64842079 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAG
1 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAG
64842111 TCATATAACC
Statistics
Matches: 222, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
40 31 0.14
41 191 0.86
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAGACAGAGCAA
Found at i:64842405 original size:15 final size:15
Alignment explanation
Indices: 64842369--64842414 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
64842359 GGGTTTAATA
*
64842369 TTTAAGATTTAAGG-
1 TTTATGATTTAAGGT
*
64842383 TCTATGATTTAAGGT
1 TTTATGATTTAAGGT
*
64842398 TTTATGATTTAAAGT
1 TTTATGATTTAAGGT
64842413 TT
1 TT
64842415 AATGGCCATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTATGATTTAAGGT
Found at i:64842415 original size:14 final size:14
Alignment explanation
Indices: 64842369--64842415 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
64842359 GGGTTTAATA
*
64842369 TTTAAGATTTAAGG
1 TTTATGATTTAAGG
*
64842383 TCTATGATTTAAGG
1 TTTATGATTTAAGG
*
64842397 TTTTATGATTTAAAG
1 -TTTATGATTTAAGG
64842412 TTTA
1 TTTA
64842416 ATGGCCATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (14 bp):
TTTATGATTTAAGG
Found at i:64842858 original size:19 final size:19
Alignment explanation
Indices: 64842834--64842880 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
64842824 ATATTATATT
64842834 TAAAAA-AATGATAAGTAAA
1 TAAAAATAATGATAA-TAAA
*
64842853 TAAAAATATTGATAATAAA
1 TAAAAATAATGATAATAAA
64842872 TAAAAATAA
1 TAAAAATAA
64842881 AATATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (19 bp):
TAAAAATAATGATAATAAA
Found at i:64842907 original size:15 final size:13
Alignment explanation
Indices: 64842871--64842912 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 13
64842861 TTGATAATAA
64842871 ATAAAAATAAAAT
1 ATAAAAATAAAAT
64842884 ATAAAAATACAAAT
1 ATAAAAATA-AAAT
64842898 ATATAAAATAGAAAT
1 ATA-AAAATA-AAAT
64842913 TAGTGGCGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 9 0.35
14 7 0.27
15 10 0.38
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:64845706 original size:22 final size:23
Alignment explanation
Indices: 64845664--64845706 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
64845654 TTTCAAAAAT
*
64845664 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
64845687 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
64845707 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:64845854 original size:85 final size:85
Alignment explanation
Indices: 64845756--64845915 Score: 275
Period size: 85 Copynumber: 1.9 Consensus size: 85
64845746 CTTTGTGAGA
* *
64845756 AAAGCGCCGCTAAAGGTCATGGTCTTTAATAGCGTTTGTAAAAAAAGTGCCGCTAAAAGTCATGG
1 AAAGCGCCGCTAAAGGTCATGGTCTTTAACAGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGG
64845821 TTTTTAGCGGCGTTTTTAGG
66 TTTTTAGCGGCGTTTTTAGG
* * *
64845841 AAAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGG
1 AAAGCGCCGCTAAAGGTCATGGTCTTTAACAGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGG
64845906 TTTTTAGCGG
66 TTTTTAGCGG
64845916 TATTTTTTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGGTCATGGTCTTTAACAGCGTTTGTAAAAAAAGCGCCGCTAAAAGTCATGG
TTTTTAGCGGCGTTTTTAGG
Found at i:64845863 original size:42 final size:43
Alignment explanation
Indices: 64845755--64845915 Score: 207
Period size: 43 Copynumber: 3.8 Consensus size: 43
64845745 GCTTTGTGAG
* ***
64845755 AAAAGCGCCGCTAAAGGTCATGGTCTTTAATAGCGTTTGTAAA
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTAAA
* * * *
64845798 AAAAGTGCCGCTAAAAGTCATGGTTTTTAGCGGCGTTT-TTAG
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTAAA
* * *
64845840 GAAAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAA
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTAAA
*
64845883 AAAAGCGCCGCTAAAAGTCATGGTTTTTAGCGG
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGG
64845916 TATTTTTTTA
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 35 0.36
43 63 0.64
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTAAA
Found at i:64847917 original size:49 final size:49
Alignment explanation
Indices: 64847853--64848030 Score: 302
Period size: 49 Copynumber: 3.6 Consensus size: 49
64847843 ATGACTTCGA
64847853 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
*
64847902 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
* *
64847951 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCGAATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
* * *
64848000 TCGCATGTGTAGTACTAAGTGCAGACTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
64848031 TGCGTACTAG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 121 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
Found at i:64849502 original size:25 final size:26
Alignment explanation
Indices: 64849452--64849501 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
64849442 ATTAACTTAA
*
64849452 TTAGAGTGATTAAAATAAAATAAAAT
1 TTAGAGTGATCAAAATAAAATAAAAT
*
64849478 TTAGAGTGATCAAAATAAGATAAA
1 TTAGAGTGATCAAAATAAAATAAA
64849502 TCCGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.14, T:0.28
Consensus pattern (26 bp):
TTAGAGTGATCAAAATAAAATAAAAT
Found at i:64854174 original size:23 final size:23
Alignment explanation
Indices: 64854148--64854196 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
64854138 CTTTAAAATA
* *
64854148 AATAGTTATTTTCTTTTTTATAT
1 AATACTTATTTTATTTTTTATAT
* *
64854171 AATACTTTTTTTATTTTTTATTT
1 AATACTTATTTTATTTTTTATAT
64854194 AAT
1 AAT
64854197 TTAATATCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
AATACTTATTTTATTTTTTATAT
Found at i:64854554 original size:89 final size:88
Alignment explanation
Indices: 64854333--64854555 Score: 275
Period size: 89 Copynumber: 2.5 Consensus size: 88
64854323 ATGCAATTTG
* * * *
64854333 GGAACATGTCAATGGTGAACATTGAAATTGAGGGAAACCATGTTTGTGGGGAAGTAATTCAGTGG
1 GGAACATGTCAATGGTGAACATTGAAA-TGAGGGAAACCATGTTTATGCGGAAGTAACTCAATGG
*
64854398 TGGAAACCATAAAAAGGCGATTCA
65 TGGAAACCATAAAAAGGCAATTCA
* * * * **
64854422 GGAATATGTCAATGGTGAACATTGAAATCAAAGAAAATTATGTTTATGCGGAAGTAACTCAATGG
1 GGAACATGTCAATGGTGAACATTGAAAT-GAGGGAAACCATGTTTATGCGGAAGTAACTCAATGG
* * *
64854487 TGGAAACCATAGAAGGGTAATTCA
65 TGGAAACCATAAAAAGGCAATTCA
* *
64854511 GGAACATGACAATGGTGAACATTGAAACTGAGGGGAACCATGTTT
1 GGAACATGTCAATGGTGAACATTGAAA-TGAGGGAAACCATGTTT
64854556 GTGGGTTAAC
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
88 1 0.01
89 108 0.98
90 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (88 bp):
GGAACATGTCAATGGTGAACATTGAAATGAGGGAAACCATGTTTATGCGGAAGTAACTCAATGGT
GGAAACCATAAAAAGGCAATTCA
Found at i:64858586 original size:216 final size:216
Alignment explanation
Indices: 64858208--64858859 Score: 1207
Period size: 216 Copynumber: 3.0 Consensus size: 216
64858198 ACTTCAGGCG
*
64858208 TGTATTACTTTATTTTGAACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGCATTTT
1 TGTATTACTTTATTTTGCACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGCATTTT
* *
64858273 TAGCTGGTATGTGAGATTTTGTAATTCTCTTTAGGTCAGTAAATAAATCTGGTAGTTGATTGGCA
66 CAGCTGGTATGTGAGATTTTGTAATTCTCTTTAGGTCAGTAAATGAATCTGGTAGTTGATTGGCA
64858338 ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGCGGGGATCTAATTG
131 ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGCGGGGATCTAATTG
64858403 AGATAATGATGATCCATTCCA
196 AGATAATGATGATCCATTCCA
* *
64858424 TGTGTTACTTTATTTTGCACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGAATTTT
1 TGTATTACTTTATTTTGCACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGCATTTT
* *
64858489 CAGCTAGTATGTGAGATTTTTTAATTCTCTTTAGGTCAGTAAATGAATCTGGTAGTTGATTGGCA
66 CAGCTGGTATGTGAGATTTTGTAATTCTCTTTAGGTCAGTAAATGAATCTGGTAGTTGATTGGCA
* *
64858554 ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGTGAGGATCTAATTG
131 ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGCGGGGATCTAATTG
64858619 AGATAATGATGATCCATTCCA
196 AGATAATGATGATCCATTCCA
64858640 TGTATTACTTTATTTTGCACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGCATTTT
1 TGTATTACTTTATTTTGCACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGCATTTT
64858705 CAGCTGGTATGTGAGATTTTGTAATTCTCTTTAGGTCAGTAAATGAATCTGGTAGTTGATTGGCA
66 CAGCTGGTATGTGAGATTTTGTAATTCTCTTTAGGTCAGTAAATGAATCTGGTAGTTGATTGGCA
64858770 ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGCGAGGG-TCTAATT
131 ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGCG-GGGATCTAATT
64858834 GAGATAATGATGATCCATTCCA
195 GAGATAATGATGATCCATTCCA
64858856 TGTA
1 TGTA
64858860 ATTTCTTTGA
Statistics
Matches: 420, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
216 418 1.00
217 2 0.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (216 bp):
TGTATTACTTTATTTTGCACTAACAATATACCCTATTGGGATATCAATTCGTATTGGAGCATTTT
CAGCTGGTATGTGAGATTTTGTAATTCTCTTTAGGTCAGTAAATGAATCTGGTAGTTGATTGGCA
ATGTTTTGCAAATGTGTGATCCTTTGAACTTCTTGTTCACATAGACTTGTGCGGGGATCTAATTG
AGATAATGATGATCCATTCCA
Found at i:64861090 original size:44 final size:45
Alignment explanation
Indices: 64861002--64861090 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
64860992 AGAACAGAAA
*
64861002 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
64861048 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
64861091 ATAATTCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:64861101 original size:44 final size:45
Alignment explanation
Indices: 64860995--64861128 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
64860985 ACAGGACAGA
* * *
64860995 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
64861041 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * * *
64861085 ACAGGAATAATTCATGTAAATCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
64861129 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:64865010 original size:2 final size:2
Alignment explanation
Indices: 64864994--64865045 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
64864984 CATATTAAAA
* * *
64864994 AT AT AT AC AT A- AT AT AT AT AT AT AT AT AA AT AT AT ACG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
64865036 AT AC AT AT AT
1 AT AT AT AT AT
64865046 TAGAAATGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
1 1 0.03
2 38 0.95
3 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:64865308 original size:26 final size:26
Alignment explanation
Indices: 64865279--64865328 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
64865269 TAATATAGTG
*
64865279 TTAAAAATAAATACATAATATAATTA
1 TTAAAAATAAATACACAATATAATTA
*
64865305 TTAAAAATATATACACAATATAAT
1 TTAAAAATAAATACACAATATAAT
64865329 AAAATATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
TTAAAAATAAATACACAATATAATTA
Found at i:64865410 original size:26 final size:26
Alignment explanation
Indices: 64865381--64865443 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
64865371 TAAAGTTAAA
*
64865381 AATAATATATAAAAAAATATATACAT
1 AATAATATATAAAAAAATATACACAT
* * *
64865407 AAT-ATCTATTAAAAGAATATACACCT
1 AATAATATA-TAAAAAAATATACACAT
64865433 AATATATATAT
1 AATA-ATATAT
64865444 GTATTAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 4 0.14
26 20 0.69
27 1 0.03
28 4 0.14
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (26 bp):
AATAATATATAAAAAAATATACACAT
Found at i:64865426 original size:38 final size:40
Alignment explanation
Indices: 64865353--64865427 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
64865343 ATATGATATT
* *
64865353 AAAAATATATACATAATGTAAAGTTAAAAATAATATATAA
1 AAAAATATATACATAATATAAAGTTAAAAAGAATATATAA
**
64865393 AAAAATATATACATAATATCTA-TT-AAAAGAATATA
1 AAAAATATATACATAATATAAAGTTAAAAAGAATATA
64865428 CACCTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 10 0.32
39 2 0.06
40 19 0.61
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (40 bp):
AAAAATATATACATAATATAAAGTTAAAAAGAATATATAA
Found at i:64866822 original size:69 final size:69
Alignment explanation
Indices: 64866745--64866881 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
64866735 GGTGTGGGTC
64866745 AGGGTTTGTTTGGAATTGGGTTATTGGATTAAAATTTGGGCTTTGGGTACTTGGGGTATAGGGTT
1 AGGGTTTGTTTGGAATTGGGTTATTGGATTAAAATTTGGGCTTTGGGTACTTGGGGTATAGGGTT
64866810 GGTT
66 GGTT
*
64866814 AGGGTTTGTTTGGAATTGGGTTATTGGATTAAAATTTGGGCTTTGGGTACTTGGGGTATGGGGTT
1 AGGGTTTGTTTGGAATTGGGTTATTGGATTAAAATTTGGGCTTTGGGTACTTGGGGTATAGGGTT
64866879 GGT
66 GGT
64866882 AATTCGAGGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.17, C:0.03, G:0.39, T:0.42
Consensus pattern (69 bp):
AGGGTTTGTTTGGAATTGGGTTATTGGATTAAAATTTGGGCTTTGGGTACTTGGGGTATAGGGTT
GGTT
Found at i:64867236 original size:21 final size:21
Alignment explanation
Indices: 64867211--64867263 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
64867201 AAGATAAGAT
**
64867211 CTGCAACTTCAATGTGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
64867232 CTGCAACTTCGATCAGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
64867253 CTGTAACTTCA
1 CTGCAACTTCA
64867264 GGGCTCTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.34, G:0.13, T:0.28
Consensus pattern (21 bp):
CTGCAACTTCAATCAGCTCCA
Found at i:64867675 original size:174 final size:171
Alignment explanation
Indices: 64867381--64868025 Score: 774
Period size: 176 Copynumber: 3.7 Consensus size: 171
64867371 CGGCATGTGA
* * *
64867381 CCCGAGGCTCAACTCACCTCTC-CTAATATGAGCTGACTTTTGATAAAAATAGAATTTGAAAAAC
1 CCCGAGGCTCAACTCACCTCTCGC-AATATGAGTTGATTTTTG--AAACATA-AA-TTGAAAAAC
* *
64867445 AGAAACTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGC-TGACTT
61 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTTGA-TT
*
64867509 TTGATAAAAATAGAATTTGAAAAAGAAAAACTGAAAATACCTCAGCGTGT
125 TTGAT-AAAATA-AATTTGAAAAA-AAAAATTGAAAATACCTCAGCGTGT
* * *
64867559 CCCGAGGCTCAACTTACCTTTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACGGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAA
* * **
64867624 TTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTGACCTCTCGCAATATGAGCTTGATTTTTTTG
66 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTGAT-
*
64867689 AAACATAAA-TTGAAAAAAGGAAATTGAAAATACCTCAGCGTGT
130 AAA-ATAAATTTGAAAAAA-AAAATTGAAAATACCTCAGCGTGT
* *
64867732 CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTTGGAACATAAATTGAAAAACAG
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAG-TTGA--TTTTTGAAACATAAATTGAAAAACAG
* *
64867797 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACTTCTCGCAATATGAGCTTG-TTTT-
63 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTG
*** *
64867860 -T----TTTTTTTGAAAAACAAAAATTGAAAATACCTTAGCGTGT
128 ATAAAATAAATTTGAAAAA-AAAAATTGAAAATACCTCAGCGTGT
** * * *
64867900 CCCGAGGCTCAACTCATTTCTCACAATATGAGTTGA-TTCTGATGAACAAAAATTGAAAAACAGA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AACATAAATTGAAAAACAGA
* * *
64867964 AATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCACAATATGAG-TTGATTTT
64 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTT
64868026 TGAAACAGAA
Statistics
Matches: 414, Mismatches: 41, Indels: 36
0.84 0.08 0.07
Matches are distributed among these distances:
164 4 0.01
165 3 0.01
166 72 0.17
167 5 0.01
168 58 0.14
169 1 0.00
172 1 0.00
173 60 0.14
174 76 0.18
175 12 0.03
176 85 0.21
178 36 0.09
179 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (171 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAA
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTGATA
AAATAAATTTGAAAAAAAAAATTGAAAATACCTCAGCGTGT
Found at i:64867720 original size:88 final size:88
Alignment explanation
Indices: 64867384--64867863 Score: 613
Period size: 88 Copynumber: 5.5 Consensus size: 88
64867374 CATGTGACCC
** *
64867384 GAGGCTCAACTCACCTCTC-CTAATATGAGC-TGACTTTTGAT-AAAAATAGAATTTGAAAAACA
1 GAGGCTCAACTCACCTCTCGC-AATATGAGCTTGA-TTTTTTTGAAACATA-AA-TTGAAAAA-A
*
64867446 -GAAACTGAAAATACCTCAGCGTGTCCT
61 GGAAATTGAAAATACCTCAGCGTGTCCT
* ** *
64867473 GAGGCTCAACTCATCTCTCGCAATATGAGC-TGACTTTTGAT-AAAAATAGAATTTG-AAAAAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTTGA-TTTTTTTGAAACATA-AA-TTGAAAAAAG-
* * *
64867535 AAAACTGAAAATACCTCAGCGTGTCCC
62 GAAATTGAAAATACCTCAGCGTGTCCT
* * *
64867562 GAGGCTCAACTTACCTTTCGCAATATGAG-TTGA--TTTTTGAAACATAAATTGAAAAACGGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTTGAAACATAAATTGAAAAAAGGAAA
*
64867624 TTGAAAATACCTTAGCGTGTCCT
66 TTGAAAATACCTCAGCGTGTCCT
*
64867647 GAGGCTCAACTGACCTCTCGCAATATGAGCTTGATTTTTTTGAAACATAAATTGAAAAAAGGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTTGAAACATAAATTGAAAAAAGGAAA
64867712 TTGAAAATACCTCAGCGTGTCCT
66 TTGAAAATACCTCAGCGTGTCCT
*
64867735 GAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTTGGAACATAAATTGAAAAACA-GAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTTGAAACATAAATTGAAAAA-AGGAA
64867799 ATTGAAAATACCTCAGCGTGTCCT
65 ATTGAAAATACCTCAGCGTGTCCT
* * *
64867823 GAGGCTTAACTCACTTCTCGCAATATGAGCTTGTTTTTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTT
64867864 TTTTGAAAAA
Statistics
Matches: 358, Mismatches: 23, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
85 53 0.15
86 14 0.04
87 7 0.02
88 176 0.49
89 107 0.30
90 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (88 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGCTTGATTTTTTTGAAACATAAATTGAAAAAAGGAAA
TTGAAAATACCTCAGCGTGTCCT
Found at i:64876484 original size:28 final size:28
Alignment explanation
Indices: 64876440--64876539 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
64876430 AGGAAGCGTC
* *
64876440 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGTCACAAATTATCTGAT
* *
64876468 CTGGTGGCTCTGTCACATA-TATCTGTT
1 CTGGTGGCTCTGTCACAAATTATCTGAT
*
64876495 CTGGTGGCTCTG-C-CATGATTATCTGTAT
1 CTGGTGGCTCTGTCACA-AATTATCTG-AT
* *
64876523 CTGGTGACTCGGTCACA
1 CTGGTGGCTCTGTCACA
64876540 TTACCTGTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
25 2 0.03
26 2 0.03
27 25 0.42
28 27 0.46
29 1 0.02
30 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGTCACAAATTATCTGAT
Found at i:64876498 original size:27 final size:28
Alignment explanation
Indices: 64876440--64876552 Score: 110
Period size: 27 Copynumber: 4.1 Consensus size: 28
64876430 AGGAAGCGTC
* * * *
64876440 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGTCACATATTATCTGTT
64876468 CTGGTGGCTCTGTCACATA-TATCTGTT
1 CTGGTGGCTCTGTCACATATTATCTGTT
64876495 CTGGTGGCTCTG-C-CATGATTATCTGTAT
1 CTGGTGGCTCTGTCACAT-ATTATCTGT-T
* * *
64876523 CTGGTGACTCGGTCAC--ATTACCTGTT
1 CTGGTGGCTCTGTCACATATTATCTGTT
64876549 CTGG
1 CTGG
64876553 CAGTCGAGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.04
26 7 0.10
27 34 0.47
28 27 0.37
29 1 0.01
30 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTGTCACATATTATCTGTT
Found at i:64876525 original size:55 final size:54
Alignment explanation
Indices: 64876440--64876552 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
64876430 AGGAAGCGTC
* * *
64876440 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCGGTCACAT-TACCTGTT
* **
64876495 CTGGTGGCTCTGCCA-TGATTATCTGTATCTGGTGACTCGGTCACATTACCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCGGTCACATTACCTGTT
64876549 CTGG
1 CTGG
64876553 CAGTCGAGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCGGTCACATTACCTGTT
Found at i:64877104 original size:302 final size:302
Alignment explanation
Indices: 64876558--64877161 Score: 1172
Period size: 302 Copynumber: 2.0 Consensus size: 302
64876548 TCTGGCAGTC
64876558 GAGCTGCATATTTCTGAGGCGTGTAGTGGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGAAAG
1 GAGCTGCATATTTCTGAGGCGTGTAGTGGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGAAAG
64876623 GTTGGTAAGGGGGTGTATGTGGTTGGTTATGGGTTGGGTTCTACATATACATGAAATATCTGATC
66 GTTGGTAAGGGGGTGTATGTGGTTGGTTATGGGTTGGGTTCTACATATACATGAAATATCTGATC
*
64876688 TAATCTATTATGGGCCTATGGGCTTAATTTTGTATACTGTTCTGGGCTAAGGCCAATTTATTCTG
131 TAATCTATTATGGGCCTATGGGCTTAATTCTGTATACTGTTCTGGGCTAAGGCCAATTTATTCTG
64876753 TTTCTGGGGTTTGAGCTGATATGGGCTATGGTTGGGATAATTTTACACACTGAGTTTCCCCAAAC
196 TTTCTGGGGTTTGAGCTGATATGGGCTATGGTTGGGATAATTTTACACACTGAGTTTCCCCAAAC
*
64876818 TCATCCCCTATCTTCATTCATGCAGGTAATCCCCAACCATAG
261 TCATCCCCTATCTTCATCCATGCAGGTAATCCCCAACCATAG
64876860 GAGCTGCATATTTCTGAGGCGTGTAGTGGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGAAAG
1 GAGCTGCATATTTCTGAGGCGTGTAGTGGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGAAAG
*
64876925 GTTGGTAAGGGGGTGTATGTGGTTGGTTATGGGTTGGGTTTTACATATACATGAAATATCTGATC
66 GTTGGTAAGGGGGTGTATGTGGTTGGTTATGGGTTGGGTTCTACATATACATGAAATATCTGATC
*
64876990 TAATCTGTTATGGGCCTATGGGCTTAATTCTGTATACTGTTCTGGGCTAAGGCCAATTTATTCTG
131 TAATCTATTATGGGCCTATGGGCTTAATTCTGTATACTGTTCTGGGCTAAGGCCAATTTATTCTG
64877055 TTTCTGGGGTTTGAGCTGATATGGGCTATGGTTGGGATAATTTTACACACTGAGTTTCCCCAAAC
196 TTTCTGGGGTTTGAGCTGATATGGGCTATGGTTGGGATAATTTTACACACTGAGTTTCCCCAAAC
64877120 TCATCCCCTATCTTCATCCATGCAGGTAATCCCCAACCATAG
261 TCATCCCCTATCTTCATCCATGCAGGTAATCCCCAACCATAG
64877162 TGGGCTTGGA
Statistics
Matches: 298, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
302 298 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (302 bp):
GAGCTGCATATTTCTGAGGCGTGTAGTGGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGAAAG
GTTGGTAAGGGGGTGTATGTGGTTGGTTATGGGTTGGGTTCTACATATACATGAAATATCTGATC
TAATCTATTATGGGCCTATGGGCTTAATTCTGTATACTGTTCTGGGCTAAGGCCAATTTATTCTG
TTTCTGGGGTTTGAGCTGATATGGGCTATGGTTGGGATAATTTTACACACTGAGTTTCCCCAAAC
TCATCCCCTATCTTCATCCATGCAGGTAATCCCCAACCATAG
Found at i:64881107 original size:24 final size:24
Alignment explanation
Indices: 64881057--64881113 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
64881047 GAGTATTAGG
* *
64881057 ATAAAAATAAAAACAATATTTACA
1 ATAAAAATAAAAACAATAATAACA
* * *
64881081 ATAAAAATGAAAATAATAATAAGA
1 ATAAAAATAAAAACAATAATAACA
*
64881105 ATAATAATA
1 ATAAAAATA
64881114 TGCTAATAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATAAAAACAATAATAACA
Found at i:64881473 original size:26 final size:26
Alignment explanation
Indices: 64881411--64881505 Score: 79
Period size: 26 Copynumber: 3.7 Consensus size: 26
64881401 CAAAGTATAT
**
64881411 ATATAGTATT-AAAAATATGTACATA
1 ATATAGTATTAAAAAATACATACATA
* **
64881436 ATATGGCGTTAAAAAATACATACATA
1 ATATAGTATTAAAAAATACATACATA
* *
64881462 ATATAGTATTAAATATATACATAAGATA
1 ATATAGTATTAAA-AAATACAT-ACATA
*
64881490 ATAT-GTA-AAAAAAATA
1 ATATAGTATTAAAAAATA
64881506 GTATTCGAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
25 11 0.20
26 26 0.47
27 10 0.18
28 8 0.15
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (26 bp):
ATATAGTATTAAAAAATACATACATA
Found at i:64881786 original size:23 final size:25
Alignment explanation
Indices: 64881729--64881819 Score: 100
Period size: 23 Copynumber: 3.6 Consensus size: 25
64881719 AATAAGGATA
64881729 ATATAAAAATATATACACGA-AATAATAT
1 ATATAAAAATATATA-AC-ATAAT-A-AT
*
64881757 ATATAAAAAAATATAAC-TAATAAT
1 ATATAAAAATATATAACATAATAAT
64881781 AT-TAAAAATATAT-ACATAATATAT
1 ATATAAAAATATATAACATAATA-AT
64881805 ATATAAAAATATATA
1 ATATAAAAATATATA
64881820 CGATATATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.04
23 15 0.27
24 8 0.14
25 12 0.21
26 3 0.05
27 2 0.04
28 14 0.25
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (25 bp):
ATATAAAAATATATAACATAATAAT
Found at i:64881799 original size:20 final size:20
Alignment explanation
Indices: 64881763--64881817 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 20
64881753 ATATATATAA
64881763 AAAAATATAACTAATAATATT
1 AAAAATATAAC-AATAATATT
64881784 AAAAATATATACATAATATATATAT
1 AAAAATATA-AC--AATA-ATAT-T
64881809 AAAAATATA
1 AAAAATATA
64881818 TACGATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.30
22 2 0.07
23 5 0.17
24 4 0.13
25 10 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATATAACAATAATATT
Found at i:64881825 original size:23 final size:23
Alignment explanation
Indices: 64881752--64881828 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
64881742 TACACGAAAT
*
64881752 AATATATATAAAAAAATATA-AC
1 AATATATATATAAAAATATATAC
64881774 TAATA-ATAT-TAAAAATATATAC
1 -AATATATATATAAAAATATATAC
64881796 ATAATATATATATAAAAATATATAC
1 --AATATATATATAAAAATATATAC
*
64881821 GATATATA
1 AATATATA
64881829 CATATATTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.19
22 6 0.12
23 16 0.33
24 4 0.08
25 13 0.27
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (23 bp):
AATATATATATAAAAATATATAC
Found at i:64881833 original size:17 final size:16
Alignment explanation
Indices: 64881788--64881835 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
64881778 AATATTAAAA
*
64881788 ATATATACATAATATAT
1 ATATATACAT-ATATAG
* *
64881805 ATATAAAAATATATACG
1 ATATATACATATATA-G
64881822 ATATATACATATAT
1 ATATATACATATAT
64881836 TAGAAATGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATATACATATATAG
Found at i:64881949 original size:3 final size:3
Alignment explanation
Indices: 64881934--64882030 Score: 151
Period size: 3 Copynumber: 32.3 Consensus size: 3
64881924 ATACTAGTAC
* * *
64881934 TAA TAA TAT TAA TAA TGAA T-A TAA CAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64881979 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64882027 TAA T
1 TAA T
64882031 TGTAACACCC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.02
3 81 0.94
4 3 0.03
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:64882770 original size:31 final size:31
Alignment explanation
Indices: 64882713--64882792 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
64882703 TCAAACATGT
* * *
64882713 ACTGGGCCATAGCCCCTTTCATATTTCATAAC
1 ACTGGGCCAAAG-CCTTTTCAAATTTCATAAC
**
64882745 ACTGGGCCAAAGCCTTTTCAAATTTCATATT
1 ACTGGGCCAAAGCCTTTTCAAATTTCATAAC
*
64882776 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
64882793 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 31 0.74
32 11 0.26
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCAAATTTCATAAC
Found at i:64883035 original size:24 final size:24
Alignment explanation
Indices: 64882999--64883150 Score: 245
Period size: 24 Copynumber: 6.4 Consensus size: 24
64882989 CTGGAGGCCT
*
64882999 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
64883024 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
64883048 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
64883071 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
64883095 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
64883119 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
64883142 AGCCTTTTT
1 AGCCCTTTT
64883151 TCACTTCCTC
Statistics
Matches: 121, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
23 44 0.36
24 73 0.60
25 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:64883075 original size:47 final size:48
Alignment explanation
Indices: 64882999--64883150 Score: 245
Period size: 47 Copynumber: 3.2 Consensus size: 48
64882989 CTGGAGGCCT
*
64882999 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
64883048 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
64883095 AGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
64883142 AGCCTTTTT
1 AGCCCTTTT
64883151 TCACTTCCTC
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
47 70 0.72
48 23 0.24
49 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:64883085 original size:71 final size:71
Alignment explanation
Indices: 64882999--64883150 Score: 259
Period size: 71 Copynumber: 2.1 Consensus size: 71
64882989 CTGGAGGCCT
64882999 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
64883064 GGGCATA
65 GGGCATA
* * *
64883071 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGG
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
64883136 GGCATA
66 GGCATA
*
64883142 AGCCTTTTT
1 AGCCCTTTT
64883151 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (71 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
GGCATA
Found at i:64883224 original size:20 final size:20
Alignment explanation
Indices: 64883199--64883265 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
64883189 TTATGATTAC
64883199 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64883219 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
64883239 GTCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
*
64883259 ACCATGT
1 ATCATGT
64883266 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64883334 original size:25 final size:25
Alignment explanation
Indices: 64883302--64883349 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
64883292 ATACATAAAC
* * *
64883302 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
64883327 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
64883350 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:64884597 original size:27 final size:27
Alignment explanation
Indices: 64884506--64884589 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
64884496 GGGCATATTC
* *
64884506 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCATACAAGGGCT-TTACG
* *
64884533 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAAGGGCTTTACG
*
64884560 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCATACAAGGGCTTTACG
64884587 GTC
1 GTC
64884590 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 46 0.92
28 4 0.08
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAAGGGCTTTACG
Found at i:64884681 original size:27 final size:27
Alignment explanation
Indices: 64884651--64884758 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
64884641 GTAAATCTAC
64884651 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
64884678 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
64884704 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
64884734 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
64884759 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:64884764 original size:27 final size:27
Alignment explanation
Indices: 64884734--64884818 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
64884724 GTAACTTTGT
64884734 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *
64884761 AAAT-TGAGGGTATTTTGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
64884788 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
64884815 AAAT
1 AAAT
64884819 TACAAATTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:64884869 original size:27 final size:27
Alignment explanation
Indices: 64884839--64884971 Score: 162
Period size: 27 Copynumber: 4.9 Consensus size: 27
64884829 GGGTATTTCT
*
64884839 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
64884866 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
64884893 GTAACTCTATAAATCGACGGTAAAAT-
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
64884919 GATAATTCTGTAAATCGAGGGTAAAA-C
1 G-TAATTCTGTAAATCGAGGGTAAAATA
**
64884946 GATAATTCTGTAAGCCGAGGGTAAAA
1 G-TAATTCTGTAAATCGAGGGTAAAA
64884972 CGGGGGTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.99
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:64884996 original size:27 final size:27
Alignment explanation
Indices: 64884966--64885017 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
64884956 TAAGCCGAGG
64884966 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAAACGGGGGTAAAATGGTAATTAT
*
64884993 GTAAATCGGGGGTAAAATGGTAATT
1 GTAAAACGGGGGTAAAATGGTAATT
64885018 TTACAAGTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (27 bp):
GTAAAACGGGGGTAAAATGGTAATTAT
Found at i:64885006 original size:38 final size:38
Alignment explanation
Indices: 64884928--64885009 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
64884918 TGATAATTCT
* * *
64884928 GTAAATCGAGGGTAAAACGATAATTCTGTAAGCCGAGG
1 GTAAAACGAGGGTAAAACGATAATTATGTAAACCGAGG
* * * * *
64884966 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGATAATTATGTAAACCGAGG
64885004 GTAAAA
1 GTAAAA
64885010 TGGTAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGATAATTATGTAAACCGAGG
Found at i:64885033 original size:27 final size:27
Alignment explanation
Indices: 64884976--64885033 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
64884966 GTAAAACGGG
**
64884976 GGTAAAATGGTAATTATGTAAATCGGG
1 GGTAAAATGGTAATTATGTAAATCGAA
64885003 GGTAAAATGGTAATT-T-TACAAGTCGAA
1 GGTAAAATGGTAATTATGTA-AA-TCGAA
64885030 GGTA
1 GGTA
64885034 TTTCAGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 3 0.11
27 22 0.81
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.29
Consensus pattern (27 bp):
GGTAAAATGGTAATTATGTAAATCGAA
Found at i:64885042 original size:27 final size:26
Alignment explanation
Indices: 64885012--64885101 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
64885002 GGGTAAAATG
64885012 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
64885039 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
64885066 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
64885093 GTAATTTTA
1 GTAATTTTA
64885102 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:64885115 original size:27 final size:27
Alignment explanation
Indices: 64885012--64885116 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
64885002 GGGTAAAATG
* *
64885012 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
64885039 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
64885066 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
64885093 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
64885117 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:64886105 original size:3 final size:3
Alignment explanation
Indices: 64886097--64886134 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
64886087 GGGGTGTTAC
64886097 AAT AAT AAT AAT AAT AAT AAT AAT ATAT ACAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT A
64886135 GTAAAAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
3 25 0.78
4 5 0.16
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:64886249 original size:26 final size:25
Alignment explanation
Indices: 64886166--64886325 Score: 100
Period size: 25 Copynumber: 6.5 Consensus size: 25
64886156 AATATAACTA
*
64886166 AATATAAAATAAT-CATA-ATAATAAT
1 AATATTAAA-AATACATACATAAT-AT
* ** **
64886191 AATATTAAAAGTATGTATGTAATAT
1 AATATTAAAAATACATACATAATAT
* *
64886216 AGTGTTAAAAATACATACATAATAT
1 AATATTAAAAATACATACATAATAT
* *
64886241 AATTATTAAAAATATATACACAATAT
1 AA-TATTAAAAATACATACATAATAT
* *
64886267 AATA--AAATATAC-GA-ATAATAT
1 AATATTAAAAATACATACATAATAT
* * *
64886288 GATATTAAAAATATATACATAATGT
1 AATATTAAAAATACATACATAATAT
64886313 AA-AGTTAAAAATA
1 AATA-TTAAAAATA
64886326 ATATATATAA
Statistics
Matches: 101, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
21 9 0.09
22 1 0.01
23 12 0.12
24 4 0.04
25 49 0.49
26 26 0.26
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
AATATTAAAAATACATACATAATAT
Found at i:64886342 original size:14 final size:15
Alignment explanation
Indices: 64886318--64886346 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64886308 AATGTAAAGT
64886318 TAAAAATAATATATA
1 TAAAAATAATATATA
64886333 TAAAAA-AATATATA
1 TAAAAATAATATATA
64886347 CATAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAATAATATATA
Found at i:64886345 original size:16 final size:17
Alignment explanation
Indices: 64886319--64886351 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
64886309 ATGTAAAGTT
*
64886319 AAAAATAATATATATAA
1 AAAAATAATATACATAA
64886336 AAAAAT-ATATACATAA
1 AAAAATAATATACATAA
64886352 TATCTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATAATATACATAA
Found at i:64886363 original size:25 final size:26
Alignment explanation
Indices: 64886323--64886385 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
64886313 AAAGTTAAAA
*
64886323 ATAATATATATAAAAA-AATATATAC
1 ATAATATATATAAAAAGAATATACAC
* *
64886348 ATAATATCTATTAAAAGAATATACAC
1 ATAATATATATAAAAAGAATATACAC
*
64886374 CTAATATATATA
1 ATAATATATATA
64886386 CATGTATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAATATATATAAAAAGAATATACAC
Found at i:64887776 original size:70 final size:70
Alignment explanation
Indices: 64887683--64887835 Score: 279
Period size: 70 Copynumber: 2.2 Consensus size: 70
64887673 GCTTGGGCTA
*
64887683 TATGGGTGTGGGTCAGGGTTTGTTTGGAATTGGGTTATTGGATTATAATTTTGGGCTTTGGGTAC
1 TATGGG-GTTGGTCAGGGTTTGTTTGGAATTGGGTTATTGGATTATAATTTTGGGCTTTGGGTAC
64887748 TTAGGG
65 TTAGGG
64887754 TATGGGGTTGGTCAGGGTTTGTTTGGAATTGGGTTATTGGATTATAATTTTGGGCTTTGGGTACT
1 TATGGGGTTGGTCAGGGTTTGTTTGGAATTGGGTTATTGGATTATAATTTTGGGCTTTGGGTACT
*
64887819 TGGGG
66 TAGGG
64887824 TATGGGGTTGGT
1 TATGGGGTTGGT
64887836 AATTTGGTGG
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
70 74 0.93
71 6 0.08
ACGTcount: A:0.14, C:0.04, G:0.39, T:0.42
Consensus pattern (70 bp):
TATGGGGTTGGTCAGGGTTTGTTTGGAATTGGGTTATTGGATTATAATTTTGGGCTTTGGGTACT
TAGGG
Found at i:64897206 original size:50 final size:52
Alignment explanation
Indices: 64897152--64897260 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 52
64897142 AATAAAGTAA
64897152 TGCATTATGTAACTTTCATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACT
1 TGCATTATGTAACTTTCATGTTAGTTTAAGTATGCATCATTAAATTAA-GACT
* * *
64897202 TGCATTATGTAACTTTCATGTTAGTTTAAGTCTGCATTATTAAATTAAGTCT
1 TGCATTATGTAACTTTCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
64897254 TGCATTA
1 TGCATTA
64897261 AATAACTTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
50 24 0.45
51 12 0.23
52 14 0.26
53 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (52 bp):
TGCATTATGTAACTTTCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
Found at i:64897426 original size:9 final size:9
Alignment explanation
Indices: 64897408--64897480 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
64897398 TTTATTTAAG
64897408 TTAA-GTGT
1 TTAATGTGT
64897416 TTAATGTGT
1 TTAATGTGT
64897425 TT--TGTGT
1 TTAATGTGT
64897432 TTAATAAGTGT
1 TTAAT--GTGT
*
64897443 TCAAATGTGT
1 T-TAATGTGT
*
64897453 TTAATATG-
1 TTAATGTGT
64897461 TT--TGT-T
1 TTAATGTGT
64897467 TTAATGTGT
1 TTAATGTGT
64897476 TTAAT
1 TTAAT
64897481 TGCAGGTGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
6 4 0.08
7 7 0.14
8 9 0.18
9 18 0.35
10 5 0.10
11 5 0.10
12 3 0.06
ACGTcount: A:0.25, C:0.01, G:0.19, T:0.55
Consensus pattern (9 bp):
TTAATGTGT
Found at i:64907011 original size:11 final size:12
Alignment explanation
Indices: 64906982--64907027 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
64906972 ATAAACTATG
*
64906982 TATATAATAATA
1 TATAAAATAATA
64906994 TATAAAATAATA
1 TATAAAATAATA
64907006 -ATAAAATAATGA
1 TATAAAATAAT-A
64907018 TATAGAAATA
1 TATA-AAATA
64907028 CAATTCATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.33
12 12 0.40
13 3 0.10
14 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
TATAAAATAATA
Found at i:64909810 original size:21 final size:19
Alignment explanation
Indices: 64909770--64909827 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
64909760 TTAACATGGT
*
64909770 AATAACT-ATAATAAAATAA
1 AATAACTAATAA-AAAATTA
64909789 AATAACTACATAAAAAATTA
1 AATAACTA-ATAAAAAATTA
64909809 AA-AACATAGATAAAAAATT
1 AATAAC-TA-ATAAAAAATT
64909828 GAACTGACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 10 0.29
20 20 0.59
21 4 0.12
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (19 bp):
AATAACTAATAAAAAATTA
Found at i:64911314 original size:2 final size:2
Alignment explanation
Indices: 64911307--64911338 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64911297 TATTTACCTA
64911307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64911339 CTTATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64913531 original size:46 final size:44
Alignment explanation
Indices: 64913427--64913534 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
64913417 TGTCTTTGAC
** * * *
64913427 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
64913471 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
64913517 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
64913535 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:64919483 original size:46 final size:44
Alignment explanation
Indices: 64919379--64919486 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
64919369 TGTCTTTGAC
** * * *
64919379 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
64919423 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
64919469 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
64919487 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:64922383 original size:21 final size:22
Alignment explanation
Indices: 64922359--64922399 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
64922349 TTATTTTATT
*
64922359 ATATTGTAAT-TTATATTAATG
1 ATATTATAATGTTATATTAATG
*
64922380 ATATTATAATGTTATTTTAA
1 ATATTATAATGTTATATTAA
64922400 CAATTGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
ATATTATAATGTTATATTAATG
Found at i:64922502 original size:5 final size:5
Alignment explanation
Indices: 64922492--64922532 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
64922482 AAGAAATTGT
64922492 TATTA TATTA TTATTA TATTA TATTATA TATTA TATTA TAT
1 TATTA TATTA -TATTA TATTA TA-T-TA TATTA TATTA TAT
64922533 AAATAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 22 0.67
6 7 0.21
7 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:64922523 original size:12 final size:12
Alignment explanation
Indices: 64922500--64922533 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
64922490 GTTATTATAT
64922500 TATTATTATATTA
1 TATTA-TATATTA
64922513 TATTATATATTA
1 TATTATATATTA
64922525 TATTATATA
1 TATTATATA
64922534 AATAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATATATTA
Found at i:64924265 original size:6 final size:6
Alignment explanation
Indices: 64924254--64924280 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64924244 ATGTGCCGAC
64924254 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
64924281 CGATTCGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:64924310 original size:45 final size:45
Alignment explanation
Indices: 64924260--64924368 Score: 173
Period size: 45 Copynumber: 2.4 Consensus size: 45
64924250 CGACTACTGT
*
64924260 TACTGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
* * *
64924305 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
*
64924350 TACTGTTATTGTTACTGTT
1 TACTGTTACTGTTACTGTT
64924369 CCGGATTTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:64924312 original size:51 final size:49
Alignment explanation
Indices: 64924237--64924369 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 49
64924227 TTACTGATCA
* * *
64924237 GGCAC-TTATGTGCCGACTACTGTTACTGTTACTGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTT-C-GTTACCGATTC
*
64924287 GGCACTTTGTGTGTCGAATACTGTTACTGTTAC----CGTTATCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTCGTTACCGATTC
* * *
64924332 AGCACTTTGTGTGTTGAATACTGTTATTGTTACTGTTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTC
64924370 CGGATTTGTT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
45 40 0.56
46 1 0.01
49 1 0.01
50 5 0.07
51 24 0.34
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (49 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTCGTTACCGATTC
Found at i:64924572 original size:18 final size:18
Alignment explanation
Indices: 64924550--64924796 Score: 147
Period size: 18 Copynumber: 13.3 Consensus size: 18
64924540 ATTATTTCTA
64924550 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
* *
64924568 GATAATAGACTGTTACTG
1 AATAATTGACTGTTACTG
* * *
64924586 AATAACTGAATATTACTG
1 AATAATTGACTGTTACTG
* * *
64924604 AATAAATGATTATTACTG
1 AATAATTGACTGTTACTG
* * *
64924622 AATAACTGATTGTCACTG
1 AATAATTGACTGTTACTG
*
64924640 AATAAATGACTGTTACTG
1 AATAATTGACTGTTACTG
* *
64924658 AATAACTTAATTGTTACTG
1 AATAA-TTGACTGTTACTG
* *
64924677 AAT-ATCTGA-TTTTACTA
1 AATAAT-TGACTGTTACTG
*
64924694 AATAATTGACTGTCACTGG
1 AATAATTGACTGTTACT-G
* *
64924713 ATAACCGATCAATTGATTGATACTG
1 ---A---AT-AATTGACTGTTACTG
* ** * *
64924738 AATAACTGGTTATTATTG
1 AATAATTGACTGTTACTG
* *
64924756 AATAATTGATTGTTACCG
1 AATAATTGACTGTTACTG
*
64924774 AATAACTGACTGTTACTG
1 AATAATTGACTGTTACTG
64924792 AATAA
1 AATAA
64924797 ACAATTGTTC
Statistics
Matches: 177, Mismatches: 40, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
17 13 0.07
18 133 0.75
19 15 0.08
22 2 0.01
25 3 0.02
26 11 0.06
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:64924608 original size:54 final size:54
Alignment explanation
Indices: 64924532--64924685 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 54
64924522 AAAGGTATAA
* * * * * *
64924532 AATAACTGATTATTTCTAAATAATTGACTGTTACTGGATAA-TAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATTGATTGTTACTGAATAACT-GACTGTCACTG
* * *
64924586 AATAACTGAATATTACTGAATAAATGATTATTACTGAATAACTGATTGTCACTG
1 AATAACTGAATATTACTGAATAATTGATTGTTACTGAATAACTGACTGTCACTG
* * * * *
64924640 AATAAATGACTGTTACTGAATAACTTAATTGTTACTGAATATCTGA
1 AATAACTGAATATTACTGAATAA-TTGATTGTTACTGAATAACTGA
64924686 TTTTACTAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
54 63 0.77
55 19 0.23
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (54 bp):
AATAACTGAATATTACTGAATAATTGATTGTTACTGAATAACTGACTGTCACTG
Found at i:64924614 original size:72 final size:73
Alignment explanation
Indices: 64924532--64924716 Score: 250
Period size: 72 Copynumber: 2.6 Consensus size: 73
64924522 AAAGGTATAA
* *
64924532 AATAACTGATTATTTCTAAATAATTGACTGTTACTGGAT-AATAGACTGTTACTGAATAACTGAA
1 AATAACTGATTATTACTAAATAATTGACTGTCACTGGATAAAT-GACTGTTACTGAATAACTGAA
64924596 -TATTACTG
65 TTATTACTG
* * * * * *
64924604 AATAAATGATTATTACTGAATAACTGATTGTCACTGAATAAATGACTGTTACTGAATAACTTAAT
1 AATAACTGATTATTACTAAATAATTGACTGTCACTGGATAAATGACTGTTACTGAATAACTGAAT
*
64924669 TGTTACTG
66 TATTACTG
*
64924677 AATATCTGATT-TTACTAAATAATTGACTGTCACTGGATAA
1 AATAACTGATTATTACTAAATAATTGACTGTCACTGGATAA
64924717 CCGATCAATT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
72 77 0.80
73 19 0.20
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (73 bp):
AATAACTGATTATTACTAAATAATTGACTGTCACTGGATAAATGACTGTTACTGAATAACTGAAT
TATTACTG
Found at i:64924698 original size:54 final size:55
Alignment explanation
Indices: 64924578--64924796 Score: 165
Period size: 54 Copynumber: 3.9 Consensus size: 55
64924568 GATAATAGAC
* * * *
64924578 TGTTACTGAATAACTGAATATTACTGAATAA-ATGATTATTACTGAATAACTGAT
1 TGTTACTGAATAAATGACTGTTACTGAATAACATAATTATTACTGAATAACTGAT
* * * *
64924632 TGTCACTGAATAAATGACTGTTACTGAATAACTTAATTGTTACTGAATATCTGAT
1 TGTTACTGAATAAATGACTGTTACTGAATAACATAATTATTACTGAATAACTGAT
* * * * *
64924687 T-TTACTAAATAATTGACTGTCACTGGATAACCGATCAATTGATTGATACTGAATAACTGGT
1 TGTTACTGAATAAATGACTGTTACTGAATAA-C-AT-AATT-A-T--TACTGAATAACTGAT
* * * * * * * *
64924748 TATTATTGAATAATTGATTGTTACCGAATAAC-TGACTGTTACTGAATAA
1 TGTTACTGAATAAATGACTGTTACTGAATAACATAATTATTACTGAATAA
64924797 ACAATTGTTC
Statistics
Matches: 130, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
54 61 0.47
55 21 0.16
56 2 0.02
57 4 0.03
58 2 0.02
59 2 0.02
61 15 0.12
62 23 0.18
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (55 bp):
TGTTACTGAATAAATGACTGTTACTGAATAACATAATTATTACTGAATAACTGAT
Found at i:64925177 original size:24 final size:24
Alignment explanation
Indices: 64925150--64925198 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
64925140 TGTAAAAGTA
64925150 TTGATGAAATAAGTAAATTATGGT
1 TTGATGAAATAAGTAAATTATGGT
64925174 TTGATGAAATAAGTAAATTATGGT
1 TTGATGAAATAAGTAAATTATGGT
64925198 T
1 T
64925199 GGCAACAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (24 bp):
TTGATGAAATAAGTAAATTATGGT
Found at i:64928828 original size:46 final size:46
Alignment explanation
Indices: 64928756--64928848 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
64928746 ATTTATTTGA
* *
64928756 TTCTTCCCAATCTCTAACATTTGACTCACAAAATTGTATGCAAACT
1 TTCTCCCCAATCTCTAACATTTGACTCACAAAATTGTATACAAACT
64928802 TTCTCCCCAATCTCTAACATTTGACTCACAAAATTGTATACAAACT
1 TTCTCCCCAATCTCTAACATTTGACTCACAAAATTGTATACAAACT
64928848 T
1 T
64928849 ACAGTCTCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.34
Consensus pattern (46 bp):
TTCTCCCCAATCTCTAACATTTGACTCACAAAATTGTATACAAACT
Found at i:64930238 original size:20 final size:22
Alignment explanation
Indices: 64930209--64930250 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
64930199 AATAAAATTG
*
64930209 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
64930229 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
64930251 TATGACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:64932367 original size:17 final size:16
Alignment explanation
Indices: 64932325--64932367 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
64932315 AATATATTTT
64932325 TAAAAATATTTTAAAA
1 TAAAAATATTTTAAAA
64932341 TAGAAAATATTTTAAAA
1 TA-AAAATATTTTAAAA
64932358 TAAAATATAT
1 TAAAA-ATAT
64932368 GATTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAATATTTTAAAA
Found at i:64936649 original size:26 final size:26
Alignment explanation
Indices: 64936589--64936651 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
64936579 TTTATTTACG
*
64936589 AAAT-TAAAAA-ACCTTATTATTAAT
1 AAATATAAAAATAACTTATTATTAAT
*
64936613 ATATATAAAAATAACTTA-TATTAAT
1 AAATATAAAAATAACTTATTATTAAT
*
64936638 AAATGATCAAAATA
1 AAAT-ATAAAAATA
64936652 TGCGGTTAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 16 0.50
26 13 0.41
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATATAAAAATAACTTATTATTAAT
Found at i:64936894 original size:14 final size:14
Alignment explanation
Indices: 64936855--64936897 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
64936845 ATTTAATTAT
64936855 TTTTAATTATTCAAAA
1 TTTTAATT-TT-AAAA
*
64936871 TTTAATATTTTAAAA
1 TTTTA-ATTTTAAAA
64936886 TTTTAATTTTAA
1 TTTTAATTTTAA
64936898 CTCAAACGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 8 0.33
16 6 0.25
17 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAATTTTAAAA
Found at i:64940310 original size:18 final size:16
Alignment explanation
Indices: 64940277--64940316 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
64940267 GTAAAAAATT
64940277 AATTTTATTATTTTAA
1 AATTTTATTATTTTAA
*
64940293 TATTTTATATATTTTTAA
1 AATTTTAT-TA-TTTTAA
64940311 AATTTT
1 AATTTT
64940317 TAAAAGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTATTATTTTAA
Found at i:64941255 original size:62 final size:62
Alignment explanation
Indices: 64941171--64941295 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
64941161 ATTCGAGAGG
*
64941171 TAATTGGAATGATATGGAAACCACAACGCCTAGGCTAAATGAAAGGGCCAAATTTGGCCCCA
1 TAATTGGAATGACATGGAAACCACAACGCCTAGGCTAAATGAAAGGGCCAAATTTGGCCCCA
*
64941233 TAATTGGAATGACATGGGAACCACAACGCCTAGGCTAAATGAAAGGGCCAAATTTGGCCCCA
1 TAATTGGAATGACATGGAAACCACAACGCCTAGGCTAAATGAAAGGGCCAAATTTGGCCCCA
64941295 T
1 T
64941296 TTTGCCTATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (62 bp):
TAATTGGAATGACATGGAAACCACAACGCCTAGGCTAAATGAAAGGGCCAAATTTGGCCCCA
Found at i:64946818 original size:41 final size:41
Alignment explanation
Indices: 64946761--64946863 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
64946751 AGTAGTAGTG
64946761 GCTGCAAAAGGTCTAGCATTAGCAACATTTATGAGAAAAAC
1 GCTGCAAAAGGTCTAGCATTAGCAACATTTATGAGAAAAAC
** *
64946802 GCTGCAAAAGGTCTAGCATTAGCGGCGTTTATGAGAAAAAC
1 GCTGCAAAAGGTCTAGCATTAGCAACATTTATGAGAAAAAC
* *
64946843 GCCT-CAAAAAGTCAAGCATTA
1 G-CTGCAAAAGGTCTAGCATTA
64946864 CGCCAAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 54 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (41 bp):
GCTGCAAAAGGTCTAGCATTAGCAACATTTATGAGAAAAAC
Found at i:64947810 original size:77 final size:78
Alignment explanation
Indices: 64947728--64947896 Score: 243
Period size: 77 Copynumber: 2.2 Consensus size: 78
64947718 AATGCCTTAG
* * * *
64947728 TATTTTTCCCAAAATCTATTCCCCCTTCCCACGAAATCCCAAAATTTCACCTGAAATCTCTTCTG
1 TATTTTTCCCAAAATCGATTCCCCCTCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTAT-
64947793 T-TTTTTTCCC-CT
65 TCTTTTTTCCCACT
* *
64947805 TATTTTTCCCAAAATCGGTTCCCCCTCCCCCCGAAATCCCAAAATTTCACCTAAAATCTCTTATT
1 TATTTTTCCCAAAATCGATTCCCCCTCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTATT
*
64947870 CTTTTTTCCCATTT
66 CTTTTTTCCCA-CT
64947884 TATTTTTCCCAAA
1 TATTTTTCCCAAA
64947897 CCATTCTCCC
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
76 1 0.01
77 67 0.82
79 14 0.17
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (78 bp):
TATTTTTCCCAAAATCGATTCCCCCTCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTATT
CTTTTTTCCCACT
Found at i:64947914 original size:77 final size:76
Alignment explanation
Indices: 64947728--64947915 Score: 229
Period size: 77 Copynumber: 2.4 Consensus size: 76
64947718 AATGCCTTAG
* * * *
64947728 TATTTTTCCCAAAATCTATTCCCCCTTCCCACGAAATCCCAAAATTTCACCTGAAATCTCTTCTG
1 TATTTTTCCCAAAATCCATTCCCCCTACCC-CGAAATCCCAAAATTTCACCTAAAATCTCTTATG
64947793 TTTTTTTCCCCT
65 TTTTTTTCCCCT
** *
64947805 TATTTTTCCCAAAATCGGTTCCCCCTCCCCCCGAAATCCCAAAATTTCACCTAAAATCTCTTAT-
1 TATTTTTCCCAAAATCCATTCCCCCT-ACCCCGAAATCCCAAAATTTCACCTAAAATCTCTTATG
*
64947869 TCTTTTTTCCCATTT
65 T-TTTTTTCCC--CT
64947884 TATTTTTCCC-AAA-CCATTCTCCCCTACCCCGA
1 TATTTTTCCCAAAATCCATTC-CCCCTACCCCGA
64947916 TTCCCTTTAT
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
76 1 0.01
77 74 0.76
78 11 0.11
79 11 0.11
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.37
Consensus pattern (76 bp):
TATTTTTCCCAAAATCCATTCCCCCTACCCCGAAATCCCAAAATTTCACCTAAAATCTCTTATGT
TTTTTTCCCCT
Found at i:64947975 original size:25 final size:25
Alignment explanation
Indices: 64947947--64948021 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
64947937 ATTTCCCCAA
64947947 ATTGGCGGCCCACTGCTGCATCTCC
1 ATTGGCGGCCCACTGCTGCATCTCC
*
64947972 ATTGGCAGG-CCGCTGCTGCATCTCC
1 ATTGGC-GGCCCACTGCTGCATCTCC
* * * * *
64947997 ATCGGCAGCCCTCTGTTGCTTCTCC
1 ATTGGCGGCCCACTGCTGCATCTCC
64948022 TTGTAAGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.93
26 2 0.05
ACGTcount: A:0.11, C:0.39, G:0.24, T:0.27
Consensus pattern (25 bp):
ATTGGCGGCCCACTGCTGCATCTCC
Found at i:64960014 original size:21 final size:22
Alignment explanation
Indices: 64959978--64960020 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
64959968 TTTAATTTTC
64959978 AAAATTTTAAAAAAATAAAAAT
1 AAAATTTTAAAAAAATAAAAAT
*
64960000 AAAATTTT-TAAAAATAAAAAT
1 AAAATTTTAAAAAAATAAAAAT
64960021 TATTTTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATTTTAAAAAAATAAAAAT
Found at i:64960063 original size:30 final size:30
Alignment explanation
Indices: 64960024--64960132 Score: 127
Period size: 30 Copynumber: 3.7 Consensus size: 30
64960014 TAAAAATTAT
64960024 TTTTAACCCTTAAACTTT-TCTTAAATTTCA
1 TTTTAACCCTTAAACTTTCT-TTAAATTTCA
*
64960054 TTTTGACCCTTAAACTTTCTTTAAATTTCA
1 TTTTAACCCTTAAACTTTCTTTAAATTTCA
* *
64960084 -CTTAGACCCCTAAACTTTCTTTAAATTAT-A
1 TTTTA-ACCCTTAAACTTTCTTTAAATT-TCA
*
64960114 TTTTAACCC-TAAATTTTCT
1 TTTTAACCCTTAAACTTTCT
64960133 AAAAATTACA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
29 11 0.16
30 53 0.77
31 5 0.07
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (30 bp):
TTTTAACCCTTAAACTTTCTTTAAATTTCA
Found at i:64960138 original size:29 final size:30
Alignment explanation
Indices: 64960017--64960145 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 30
64960007 TTAAAAATAA
64960017 AAATTAT-TTTTAACCCTTAAACTTTTCT-T
1 AAATTATATTTTAACCCTTAAAC-TTTCTAT
* *
64960046 AAATT-TCATTTTGACCCTTAAACTTTCTTT
1 AAATTAT-ATTTTAACCCTTAAACTTTCTAT
* * *
64960076 AAATT-TCA-CTTAGACCCCTAAACTTTCTTT
1 AAATTAT-ATTTTA-ACCCTTAAACTTTCTAT
* *
64960106 AAATTATATTTTAACCC-TAAATTTTCTAA
1 AAATTATATTTTAACCCTTAAACTTTCTAT
*
64960135 AAATTACATTT
1 AAATTATATTT
64960146 AGCCCCAGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
28 1 0.01
29 31 0.36
30 49 0.58
31 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (30 bp):
AAATTATATTTTAACCCTTAAACTTTCTAT
Done.