Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, whole genome shotgun sequence
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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 30 of 64
Found at i:4672414 original size:12 final size:11
Alignment explanation
Indices: 4672379--4672417 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
4672369 AATTAATTAA
4672379 TTAATTTTTAT
1 TTAATTTTTAT
*
4672390 TTATATATTTAT
1 TTA-ATTTTTAT
4672402 TTAATTTTATAT
1 TTAATTTT-TAT
4672414 TTAA
1 TTAA
4672418 AAAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTAATTTTTAT
Found at i:4672523 original size:16 final size:16
Alignment explanation
Indices: 4672502--4672537 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4672492 GGGTATGAAA
4672502 AAATAAAAAAAAATTT
1 AAATAAAAAAAAATTT
**
4672518 AAATAAAATTAAATTT
1 AAATAAAAAAAAATTT
4672534 AAAT
1 AAAT
4672538 TTTATAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAAAAAAAAATTT
Found at i:4675145 original size:21 final size:21
Alignment explanation
Indices: 4675121--4675162 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4675111 ATAATTTTTT
*
4675121 AAAATAATATTGAACTTTTAAA
1 AAAAGAAT-TTGAACTTTTAAA
*
4675143 AAAAGAATTTGAATTTTTAA
1 AAAAGAATTTGAACTTTTAA
4675163 CTTAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (21 bp):
AAAAGAATTTGAACTTTTAAA
Found at i:4675301 original size:30 final size:29
Alignment explanation
Indices: 4675245--4675301 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
4675235 ACAAAATATA
* *
4675245 AAAATATAATTTTAAATTTAATATTTTAT
1 AAAATATAATATTAAATTTAAAATTTTAT
4675274 AAAATAT-ATATTAAATATATAAAATTTT
1 AAAATATAATATTAAAT-T-TAAAATTTT
4675302 GAAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 8 0.33
30 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAATATAATATTAAATTTAAAATTTTAT
Found at i:4676724 original size:25 final size:23
Alignment explanation
Indices: 4676676--4676738 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
4676666 AGAAATTGGT
4676676 AGAACAAAA-GCAAGAAACAGAGG
1 AGAA-AAAAGGCAAGAAACAGAGG
4676699 ATGAAAAAAGGCATAGAAA-AGAAGG
1 A-GAAAAAAGGCA-AGAAACAG-AGG
*
4676724 AGAAAGAAGG-AAGAA
1 AGAAAAAAGGCAAGAA
4676739 GAAACTTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.11
23 6 0.17
24 16 0.46
25 9 0.26
ACGTcount: A:0.62, C:0.06, G:0.29, T:0.03
Consensus pattern (23 bp):
AGAAAAAAGGCAAGAAACAGAGG
Found at i:4678154 original size:2 final size:2
Alignment explanation
Indices: 4678147--4678176 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
4678137 TATGTATGTG
4678147 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
4678177 TTTAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4683660 original size:72 final size:72
Alignment explanation
Indices: 4683573--4683793 Score: 213
Period size: 72 Copynumber: 3.1 Consensus size: 72
4683563 CCATAATGAT
* * ** * *
4683573 TATTGAAACTATATTTTTTAAATTCTAAAATTTTAACAAATATTGTATTTTTAAGATAAAAAATA
1 TATTAAAATTATATTTTAAAAATTCTAAAATTTTAACAAAAATTGAATTTTTAAGATAAAAAATA
4683638 TAGTAGA
66 TAGTAGA
* * * * *
4683645 TATTAAAATTATATTTTCAAAAATT-TTAAATTTTAACAAAAATTGCATATTTGAGATAAAAACG
1 TATTAAAATTATATTTT-AAAAATTCTAAAATTTTAACAAAAATTGAATTTTTAAGATAAAAA-A
4683709 TA-A-TAGA
64 TATAGTAGA
* ** *
4683716 TGTTAAAATTATATTTTCGAAATTCTAAAATTTTAATAAAAATT-AATTTTTTAAGA-AAAAAA-
1 TATTAAAATTATATTTTAAAAATTCTAAAATTTTAACAAAAATTGAA-TTTTTAAGATAAAAAAT
*
4683778 GTAG-AGGA
65 ATAGTA-GA
4683786 TATTAAAA
1 TATTAAAA
4683794 AAAGATAGCA
Statistics
Matches: 121, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
69 2 0.02
70 20 0.17
71 44 0.36
72 48 0.40
73 7 0.06
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (72 bp):
TATTAAAATTATATTTTAAAAATTCTAAAATTTTAACAAAAATTGAATTTTTAAGATAAAAAATA
TAGTAGA
Found at i:4683733 original size:71 final size:72
Alignment explanation
Indices: 4683573--4683759 Score: 218
Period size: 72 Copynumber: 2.6 Consensus size: 72
4683563 CCATAATGAT
* * ** * * *
4683573 TATTGAAACTATATTTTTTAAATTCTAAAATTTTAACAAATATTGTATTTTTAAGATAAAAAATA
1 TATTAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATTGCATATTTAAGATAAAAAATA
4683638 TAGTAGA
66 TAGTAGA
* * *
4683645 TATTAAAATTATATTTTCAAAAATT-TTAAATTTTAACAAAAATTGCATATTTGAGATAAAAACG
1 TATTAAAATTATATTTTC-AAAATTCTAAAATTTTAACAAAAATTGCATATTTAAGATAAAAA-A
4683709 TA-A-TAGA
64 TATAGTAGA
* * *
4683716 TGTTAAAATTATATTTTCGAAATTCTAAAATTTTAATAAAAATT
1 TATTAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATT
4683760 AATTTTTTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
70 5 0.05
71 38 0.39
72 48 0.49
73 7 0.07
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (72 bp):
TATTAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATTGCATATTTAAGATAAAAAATA
TAGTAGA
Found at i:4683777 original size:71 final size:70
Alignment explanation
Indices: 4683556--4683777 Score: 207
Period size: 71 Copynumber: 3.1 Consensus size: 70
4683546 GTTTAAGATA
* * ** * *
4683556 AAAAAAACCATAAT-GATTATTGAAACTATATTTTTTAAATTCTAAAATTTTAACAAATATTGTA
1 AAAAAAA-CATAATAGA-TATTAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATTAT-
4683620 TTTTTAAG
63 TTTTTAAG
* * *
4683628 ATAAAAAATATAGTAGATATTAAAATTATATTTTCAAAAATT-TTAAATTTTAACAAAAATTGCA
1 A-AAAAAACATAATAGATATTAAAATTATATTTTC-AAAATTCTAAAATTTTAACAAAAATT--A
* *
4683692 -TATTTGAG
62 TTTTTTAAG
* * * * *
4683700 ATAAAAACGTAATAGATGTTAAAATTATATTTTCGAAATTCTAAAATTTTAATAAAAATTAATTT
1 AAAAAAACATAATAGATATTAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATT-ATTT
4683765 TTTAAG
65 TTTAAG
4683771 AAAAAAA
1 AAAAAAA
4683778 GTAGAGGATA
Statistics
Matches: 120, Mismatches: 23, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
70 6 0.05
71 57 0.47
72 44 0.37
73 13 0.11
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (70 bp):
AAAAAAACATAATAGATATTAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATTATTTT
TTAAG
Found at i:4683916 original size:183 final size:183
Alignment explanation
Indices: 4683619--4683960 Score: 404
Period size: 183 Copynumber: 1.9 Consensus size: 183
4683609 CAAATATTGT
* * * * *
4683619 ATTTTTAAGATAAAAAATATAGTAGATATTAAAATTATATTTTCAAAAATTTTAAATTTTAACAA
1 ATTTTTAAGATAAAAAATATAATAGATATTAAAACTATAATTTCAAAAATTTGAAACTTTAACAA
* *
4683684 AAATTGCATATTTGAGATAAAAACGTAATAGATGTTAAAATTATATTTTCGAAATTCTAAAATTT
66 AAA-TCCATATTTAAGATAAAAACGTAATAGATGTTAAAATTATATTTTC-AAATTCTAAAATTT
* *
4683749 TAATAAAAATTAATTTTTTAAGA-AAAAAAGTAGAGGATATTAAAAAAAGATAGC
129 TAAGAAAAATTAAGTTTTTAAGACAAAAAAGTAGAGGATATTAAAAAAAGATAGC
* * *
4683803 ATTTTTAAGAT-AAAAATGTAATCGATATTAAAACTATAATTTC-AAAATTTGAAACTTTAATAA
1 ATTTTTAAGATAAAAAATATAATAGATATTAAAACTATAATTTCAAAAATTTGAAACTTTAACAA
* * * * * * * *
4683866 AAA-CCATATTTTTAAGATTAAAAATGTAATGGTTGTTGAAATTTTATTTTCAAGTTTTAGAATT
66 AAATCCATA--TTTAAGA-TAAAAACGTAATAGATGTTAAAATTATATTTTCAAATTCTAAAATT
* **
4683930 TTAAGAAAGATTGCGTTTTTAAGACAAAAAA
128 TTAAGAAAAATTAAGTTTTTAAGACAAAAAA
4683961 ACGTAATTGA
Statistics
Matches: 131, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
180 4 0.03
182 55 0.42
183 61 0.47
184 11 0.08
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (183 bp):
ATTTTTAAGATAAAAAATATAATAGATATTAAAACTATAATTTCAAAAATTTGAAACTTTAACAA
AAATCCATATTTAAGATAAAAACGTAATAGATGTTAAAATTATATTTTCAAATTCTAAAATTTTA
AGAAAAATTAAGTTTTTAAGACAAAAAAGTAGAGGATATTAAAAAAAGATAGC
Found at i:4685936 original size:30 final size:30
Alignment explanation
Indices: 4685902--4685961 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4685892 GCAACATAAC
* *
4685902 AATTTAGCAA-TGACTTTTCAGTAGCAAATT
1 AATTTAGCAACAG-CTTTTCACTAGCAAATT
4685932 AATTTAGCAACAGCTTTTCACTAGCAAATT
1 AATTTAGCAACAGCTTTTCACTAGCAAATT
4685962 TTCATAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (30 bp):
AATTTAGCAACAGCTTTTCACTAGCAAATT
Found at i:4686261 original size:15 final size:15
Alignment explanation
Indices: 4686241--4686271 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4686231 CGAGCAGAGA
*
4686241 AAAGTTCATGCCATT
1 AAAGTTCATACCATT
4686256 AAAGTTCATACCATT
1 AAAGTTCATACCATT
4686271 A
1 A
4686272 TATGCAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (15 bp):
AAAGTTCATACCATT
Found at i:4686333 original size:17 final size:16
Alignment explanation
Indices: 4686313--4686352 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4686303 AACTGTCTTG
* *
4686313 AAAAAAATTAAAAACTT
1 AAAAAAAATAAAAA-AT
4686330 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
4686346 AAAAAAA
1 AAAAAAA
4686353 CAGGTAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:4694066 original size:60 final size:59
Alignment explanation
Indices: 4693993--4694112 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 59
4693983 GCAATATCAA
* * *
4693993 AATAGAATTCAACACGGTATGAAATTACTTACTAATTAACTCTTTAGATCTGGTTACTTG
1 AATAGAATTCAACACAGTATAAAATTACCTACTAA-TAACTCTTTAGATCTGGTTACTTG
* * * *
4694053 AATAGAATTCAACACAGTATAAAATTACCTGCTAATGATTTTTTAGATCTGGTTACTTG
1 AATAGAATTCAACACAGTATAAAATTACCTACTAATAACTCTTTAGATCTGGTTACTTG
4694112 A
1 A
4694113 CGCTTCATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 22 0.42
60 31 0.58
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (59 bp):
AATAGAATTCAACACAGTATAAAATTACCTACTAATAACTCTTTAGATCTGGTTACTTG
Found at i:4701236 original size:161 final size:161
Alignment explanation
Indices: 4700926--4701240 Score: 361
Period size: 161 Copynumber: 2.0 Consensus size: 161
4700916 AAATTAACAA
* * * * * *
4700926 TTATTGTTTTGTTTTAATAGTTTTGATAGTTTTAATACATGATATTAAACTTATCCAAAGTATTA
1 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCCAAAGTATTA
* * * * *
4700991 AACTTAGTTTTCATGGTTGATATGTATGAAAAAGTTATTGTTTACTTATATTTATGACTTTTTAT
66 AACTTAGATTTCACGATTGATATGTATGAAAAAGTTATCGTTTACTTATATTTAGGACTTTTTAT
*
4701056 GCTATTAATAGGTAAAAATACAAAATTGTTG
131 GCTATTAATAGGCAAAAATACAAAATTGTTG
* * *
4701087 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCGAA-TGATT
1 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCCAAAGT-ATT
* * * * *
4701151 GAACTT-GATTTCTACGATTGATATGTGTGAAAAAGTTGTCGTTTA-TCTCTATTTGGGACTATT
65 AAACTTAGATTTC-ACGATTGATATGTATGAAAAAGTTATCGTTTACT-TATATTTAGGACT-TT
*
4701214 TT-TGCCTTTTAA-AGGCAAAAATACAAA
127 TTATG-CTATTAATAGGCAAAAATACAAA
4701241 TTAAACTTTT
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
160 7 0.05
161 111 0.87
162 10 0.08
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (161 bp):
TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCCAAAGTATTA
AACTTAGATTTCACGATTGATATGTATGAAAAAGTTATCGTTTACTTATATTTAGGACTTTTTAT
GCTATTAATAGGCAAAAATACAAAATTGTTG
Found at i:4702409 original size:20 final size:20
Alignment explanation
Indices: 4702380--4702428 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4702370 TTTTTTTGTT
4702380 AATG-TATTAAAATAATTTA
1 AATGTTATTAAAATAATTTA
4702399 AATGTTATTAAAATAATTTA
1 AATGTTATTAAAATAATTTA
4702419 AATGTTATTA
1 AATGTTATTA
4702429 TTAATTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (20 bp):
AATGTTATTAAAATAATTTA
Found at i:4707602 original size:19 final size:18
Alignment explanation
Indices: 4707557--4707605 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
4707547 CCAACCGAAC
*
4707557 TATTTTTTATTTTTTTGG
1 TATTGTTTATTTTTTTGG
*
4707575 TATTTTTTATTTTTTGTGTG
1 TATTGTTTATTTTTT-TG-G
4707595 T-TTGTTTATTT
1 TATTGTTTATTT
4707606 ATTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 15 0.54
19 11 0.39
20 2 0.07
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (18 bp):
TATTGTTTATTTTTTTGG
Found at i:4707623 original size:26 final size:26
Alignment explanation
Indices: 4707575--4707633 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4707565 ATTTTTTTGG
*
4707575 TATTTTTTATTTTTTGTGTGTTTGTT
1 TATTTATTATTTTTTGTGTGTTTGTT
* *
4707601 TATTTATTATTTTTT-TTTGGTTTTTT
1 TATTTATTATTTTTTGTGT-GTTTGTT
4707627 TATTTAT
1 TATTTAT
4707634 ACATTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (26 bp):
TATTTATTATTTTTTGTGTGTTTGTT
Found at i:4707662 original size:46 final size:46
Alignment explanation
Indices: 4707564--4707662 Score: 103
Period size: 46 Copynumber: 2.2 Consensus size: 46
4707554 AACTATTTTT
*** * *
4707564 TATTTTTTTGGTATTTTTTATTTTTTGTGTGTTTGTTTATTTATTA
1 TATTTTTTTGGTATTTTTTATTTTACATGTGTTTATTTATTTATAA
* *
4707610 TTTTTTTTTGGT-TTTTTTATTTATACATTTGTTTATTT-TTTATAA
1 TATTTTTTTGGTATTTTTTATTT-TACATGTGTTTATTTATTTATAA
4707655 GTATTTTT
1 -TATTTTT
4707663 GTATGAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
45 16 0.37
46 27 0.63
ACGTcount: A:0.15, C:0.01, G:0.10, T:0.74
Consensus pattern (46 bp):
TATTTTTTTGGTATTTTTTATTTTACATGTGTTTATTTATTTATAA
Found at i:4707747 original size:59 final size:58
Alignment explanation
Indices: 4707683--4707875 Score: 223
Period size: 59 Copynumber: 3.3 Consensus size: 58
4707673 ATTTAAAAAA
*
4707683 ATAAAAAAATATATTTTTGAGGAAAAATTGAAAGTA-CTAATTTTTCTTAAAATAAAATT
1 ATAAAAAAA-ATATTTTTGAGAAAAAATTGAAAGTATC-AATTTTTCTTAAAATAAAATT
* * * * *
4707742 ATAAAAAAAAATATTTTTGATAAAAAATTAAAAGTATCAATCTTCCTTAAAATTAGAATT
1 AT-AAAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAA-TAAAATT
*
4707802 -TAAAAAAAAGTA-TTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATAAAATTT
1 ATAAAAAAAA-TATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATAAAA-TT
*
4707860 CTAAAATAAAA-ATTTT
1 ATAAAA-AAAATATTTT
4707876 CAAAAACATT
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
57 4 0.04
58 44 0.39
59 48 0.42
60 18 0.16
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (58 bp):
ATAAAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATAAAATT
Found at i:4707874 original size:15 final size:15
Alignment explanation
Indices: 4707842--4707870 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4707832 AGTATCAATT
4707842 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
4707857 TTTC-TAAAATAAAA
1 TTTCTTAAAATAAAA
4707871 ATTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTCTTAAAATAAAA
Found at i:4707875 original size:58 final size:56
Alignment explanation
Indices: 4707684--4707859 Score: 201
Period size: 58 Copynumber: 3.0 Consensus size: 56
4707674 TTTAAAAAAA
* *
4707684 TAAAAAAATATATTTTTGAGGAAAAATTGAAAGTA-CTAATTTTTCTTAAAATAAAATT
1 TAAAAAAA-ATA-TTTTAAGAAAAAATTGAAAGTATC-AATTTTTCTTAAAATAAAATT
* * * * * *
4707742 ATAAAAAAAAATATTTTTGATAAAAAATTAAAAGTATCAATCTTCCTTAAAATTAGAATT
1 -T-AAAAAAAATA-TTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAA-TAAAATT
4707802 TAAAAAAAAGTATTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATAAAATT
1 TAAAAAAAA-TATTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATAAAATT
4707859 T
1 T
4707860 CTAAAATAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
57 7 0.07
58 41 0.41
59 39 0.39
60 14 0.14
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (56 bp):
TAAAAAAAATATTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATAAAATT
Found at i:4713128 original size:23 final size:23
Alignment explanation
Indices: 4713096--4713141 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4713086 AAAGTTTCTT
*
4713096 GTAATTTTAGAATTTCTTTTAGA
1 GTAATGTTAGAATTTCTTTTAGA
*
4713119 GTAATGTTAGGATTTCTTTTAGA
1 GTAATGTTAGAATTTCTTTTAGA
4713142 CAATAGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.50
Consensus pattern (23 bp):
GTAATGTTAGAATTTCTTTTAGA
Found at i:4715418 original size:80 final size:79
Alignment explanation
Indices: 4715171--4715419 Score: 320
Period size: 79 Copynumber: 3.1 Consensus size: 79
4715161 GGAATCTTTT
* * * * *
4715171 GAATTTTTGAGTTCTCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATTGAATATGAAT-
1 GAATCTTTGAGTT-TCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATC
4715235 TTTCAAACTCAAATGA
65 TTT-AAACTCAAATGA
* *
4715251 GAATCTTTGAATTTCAAATGAGAATCTTTAAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCT
1 GAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCT
*
4715316 TCAAACTCAAATGA
66 TTAAACTCAAATGA
* * * * * *
4715330 GAATCTTTGAGTTTCGAATGAGAATCTTTGTGGTGTGAAACCCTAAGATCTGTCAAATGTGAGTC
1 GAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCC-AAAATTTGTCGAATGTGAATC
*
4715395 TTTAAACTCGAATGA
65 TTTAAACTCAAATGA
*
4715410 GAAGCTTTGA
1 GAATCTTTGA
4715420 AAATTTTGGA
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
79 96 0.65
80 52 0.35
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (79 bp):
GAATCTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCT
TTAAACTCAAATGA
Found at i:4715935 original size:130 final size:128
Alignment explanation
Indices: 4715700--4716029 Score: 364
Period size: 130 Copynumber: 2.5 Consensus size: 128
4715690 CGATGAGCAA
* * * * *
4715700 TTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGG-G-TAATTTATCTTTTCAAAGTTGTAG
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAG-AGGAGCT-TTTTAT-TTTTCAAAGTCGTTG
* * * * * *
4715763 TGCCTCTGTTTCAAGAAGTATTTATGTTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGAAGTTTT
63 AGCCTCTATTTCAAGAAGCATTTATGTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAGAAGCTTT
4715828 G
128 G
*
4715829 TTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTG
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGGAGC-TT-TTTATTTTTC-AAAGTCGTTG
*
4715894 AGCCTCTATTT-ATAG-AGCATTTATGTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAGTAGCTT
63 AGCCTCTATTTCA-AGAAGCATTTATGTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAGAAGCTT
4715957 TG
127 TG
* * * * * * *
4715959 TTTAGTTTTTCAAAGTCGTTAAGCTTATATTTAGAGGAGC-ATTTATGTTTCTCAAAGTCGTTAA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTTTAT-TTT-TCAAAGTCGTTGA
4716023 GCCTCTA
64 GCCTCTA
4716030 CTTAGAGGAG
Statistics
Matches: 172, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
127 5 0.03
128 23 0.13
129 34 0.20
130 85 0.49
131 25 0.15
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (128 bp):
TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTTTATTTTTCAAAGTCGTTGAGC
CTCTATTTCAAGAAGCATTTATGTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAGAAGCTTTG
Found at i:4715949 original size:86 final size:86
Alignment explanation
Indices: 4715829--4716044 Score: 285
Period size: 86 Copynumber: 2.5 Consensus size: 86
4715819 AGAAGTTTTG
* **
4715829 TTTAT-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTA-TTTTTCAAAAGTCGT
1 TTTATGTTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTGTTTAGTTTTTC-AAAGTCGT
* * *
4715892 TGAGCCTCTATTTATA-GAGCA
65 TAAGCCTATATTTAGAGGAGCA
*
4715913 TTTATGTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAGTAGCTTTGTTTAGTTTTTCAAAGTCGT
1 TTTATGTTTTT-CAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTGTTTAGTTTTTCAAAGTCGT
*
4715978 TAAGCTTATATTTAGAGGAGCA
65 TAAGCCTATATTTAGAGGAGCA
* * * *
4716000 TTTATGTTTCTCAAAGTCGTTAAGCCTCTACTTAGAGGAGGTTTG
1 TTTATGTTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTG
4716045 ATAAAAAAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 5 0.04
85 5 0.04
86 84 0.73
87 21 0.18
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (86 bp):
TTTATGTTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTGTTTAGTTTTTCAAAGTCGTT
AAGCCTATATTTAGAGGAGCA
Found at i:4715993 original size:44 final size:44
Alignment explanation
Indices: 4715783--4716044 Score: 259
Period size: 44 Copynumber: 6.0 Consensus size: 44
4715773 TCAAGAAGTA
* *
4715783 TTTATGTTTTTCTAAAGTCGTTGAGCCTCTGA-TTAGAGAAGTTTTG
1 TTTA-GTTTTTC-AAAGTCGTTGAGCCTCT-ATTTAGAGGAGCTTTG
* * *
4715829 TTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTAGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
* *
4715873 TTTA-TTTTTCAAAAGTCGTTGAGCCTCTATTTATA-GAGCATT-
1 TTTAGTTTTTC-AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
* * *
4715915 TAT-GTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAGTAGCTTTG
1 TTTAGTTTTT-CAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
* * * *
4715959 TTTAGTTTTTCAAAGTCGTTAAGCTTATATTTAGAGGAGCATT-
1 TTTAGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
* * * * *
4716002 TAT-GTTTCTCAAAGTCGTTAAGCCTCTACTTAGAGGAGGTTTG
1 TTTAGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
4716045 ATAAAAAAAA
Statistics
Matches: 180, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
42 62 0.34
43 20 0.11
44 82 0.46
45 12 0.07
46 4 0.02
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (44 bp):
TTTAGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
Found at i:4716035 original size:42 final size:42
Alignment explanation
Indices: 4715694--4716039 Score: 247
Period size: 42 Copynumber: 8.1 Consensus size: 42
4715684 GATTGTCGAT
* * *
4715694 GAGCAATTTAT-TTTTTCAAAGTTGTGGTGCCTCTATTTAGAAG
1 GAGC-ATTTATGTTTTTCAAAGTCGTTGAGCCTCTATTTAG-AG
* * * * * *
4715737 G-GTAATTTAT-CTTTTCAAAGTTGTAGTGCCTCTGTTTCA-AG
1 GAG-CATTTATGTTTTTCAAAGTCGTTGAGCCTCTATTT-AGAG
* *
4715778 AAGTATTTATGTTTTTCTAAAGTCGTTGAGCCTCTGA-TTAGAG
1 GAGCATTTATGTTTTTC-AAAGTCGTTGAGCCTCT-ATTTAGAG
* ** * *
4715821 AAGTTTTGTTTAT-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
1 GAG---CATTTATGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAG
* * * *
4715865 GAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTATTTATA-
1 GAGCATT-TATGTTTTTC-AAAGTCGTTGAGCCTCTATTTAGAG
*
4715908 GAGCATTTATGTTTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
1 GAGCATTTATGTTTTT-CAAAGTCGTTGAGCCTCTATTTAGAG
* * * * * *
4715951 TAGCTTTGTTTAGTTTTTCAAAGTCGTTAAGCTTATATTTAGAG
1 GAGCATT-TAT-GTTTTTCAAAGTCGTTGAGCCTCTATTTAGAG
* * *
4715995 GAGCATTTATGTTTCTCAAAGTCGTTAAGCCTCTACTTAGAG
1 GAGCATTTATGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAG
4716037 GAG
1 GAG
4716040 GTTTGATAAA
Statistics
Matches: 245, Mismatches: 40, Indels: 37
0.76 0.12 0.11
Matches are distributed among these distances:
41 10 0.04
42 100 0.41
43 43 0.18
44 74 0.30
45 12 0.05
46 6 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (42 bp):
GAGCATTTATGTTTTTCAAAGTCGTTGAGCCTCTATTTAGAG
Found at i:4717131 original size:56 final size:58
Alignment explanation
Indices: 4717047--4717273 Score: 230
Period size: 62 Copynumber: 3.8 Consensus size: 58
4717037 TTTGCATGAA
* * * * *
4717047 AAAATTAAAAAAAAAACATTTTTGAGGAAAAA-TTGAAAGTATTAATTTTTCTT-AAAAT
1 AAAATTATAAAAAAAA-GTATTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAATT
* *
4717105 AAAATTATTAAAAAAA-TATTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTGGAAATT
1 AAAATTATAAAAAAAAGTATTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAATT
* * *
4717162 AAAATTTAAAAAAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATT
1 AAAA-TTATAAAAAAAA-G--TATTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATT
* *
4717224 AGAATT-TAAAAAAAAAGTATTTTGAAAAAAAGTTGAAAGTATCAATTTTT
1 AAAATTAT-AAAAAAAAGTA-TTTGAGAAAAAGTTGAAAGTATCAATTTTT
4717274 TTTGTACAAA
Statistics
Matches: 142, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
55 12 0.08
56 18 0.13
57 8 0.06
58 25 0.18
59 28 0.20
60 1 0.01
61 10 0.07
62 34 0.24
63 6 0.04
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAATTATAAAAAAAAGTATTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATT
Found at i:4717196 original size:62 final size:59
Alignment explanation
Indices: 4717046--4717272 Score: 250
Period size: 59 Copynumber: 3.8 Consensus size: 59
4717036 TTTTGCATGA
* ** * * *
4717046 AAAAATTAAAAAAAAAACATTTTTGAGGAAAAA-TTGAAAGTATTAATTTTTCTT-AAAAT
1 AAAATTTAAAAAAAAAGTA-TTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTGAAATT
* *
4717105 AAAA-TTATTAAAAAAA-TA-TTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGGAAATT
1 AAAATTTA-AAAAAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-GAAATT
*
4717162 AAAATTTAAAAAAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATT
1 AAAATTT-AAAAAAAAA-G-TATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATT
* *
4717224 AGAATTTAAAAAAAAAGTATTTTGAAAAAAAGTTGAAAGTATCAATTTT
1 AAAATTTAAAAAAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAATTTT
4717273 TTTTGTACAA
Statistics
Matches: 146, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
55 8 0.05
56 21 0.14
57 8 0.05
58 13 0.09
59 42 0.29
60 1 0.01
61 10 0.07
62 40 0.27
63 3 0.02
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (59 bp):
AAAATTTAAAAAAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATT
Found at i:4722776 original size:52 final size:52
Alignment explanation
Indices: 4722693--4722796 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
4722683 TATAACCATA
4722693 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAACTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAACTCTTCTCTTGCAAGT
* * * * *
4722745 CAAACTTACCTATTAAGAAT-CCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTC-TCCTCTTAGAACTCTTCTCTTGCAAGT
4722797 ATTCTTGTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAACTCTTCTCTTGCAAGT
Found at i:4722840 original size:11 final size:11
Alignment explanation
Indices: 4722824--4722864 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
4722814 AATATCTGAT
*
4722824 AAATCTCAAAC
1 AAATCTCTAAC
4722835 AAATCTCTAAC
1 AAATCTCTAAC
4722846 AAATCTCTAAC
1 AAATCTCTAAC
4722857 AAATCTCT
1 AAATCTCT
4722865 TATGGGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATCTCTAAC
Found at i:4723160 original size:25 final size:25
Alignment explanation
Indices: 4723092--4723164 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
4723082 ATTTCAACCA
**
4723092 AGCTCTTCCCATTATCTCGAACTGTC
1 AGCTCTTCCCA-TATCTCGAACCATC
* *
4723118 AACTCCTTCCCATGTCTCGAACCATC
1 AGCT-CTTCCCATATCTCGAACCATC
*
4723144 AGCTCTTCCCACATCTCGAAC
1 AGCTCTTCCCATATCTCGAAC
4723165 ATTTGACTCT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 15 0.38
26 17 0.44
27 7 0.18
ACGTcount: A:0.22, C:0.40, G:0.10, T:0.29
Consensus pattern (25 bp):
AGCTCTTCCCATATCTCGAACCATC
Found at i:4723198 original size:24 final size:26
Alignment explanation
Indices: 4723092--4723198 Score: 73
Period size: 25 Copynumber: 4.2 Consensus size: 26
4723082 ATTTCAACCA
* *
4723092 AGCTCTTCCCATTATCTCGAAC-TGTC
1 AGCTCTTCCCA-CATCTCGAACATTTC
* **
4723118 AACTCCTTCCCATGTCTCGAACCA--TC
1 AGCT-CTTCCCACATCTCGAA-CATTTC
*
4723144 AGCTCTTCCCACATCTCGAACATTTG
1 AGCTCTTCCCACATCTCGAACATTTC
* *
4723170 A-CTCTTCTCACGT-TCGAAC-TTTC
1 AGCTCTTCCCACATCTCGAACATTTC
4723193 AGCTCT
1 AGCTCT
4723199 GATACCATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
23 4 0.06
24 12 0.18
25 24 0.36
26 18 0.27
27 8 0.12
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (26 bp):
AGCTCTTCCCACATCTCGAACATTTC
Found at i:4723782 original size:52 final size:52
Alignment explanation
Indices: 4723699--4723802 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
4723689 TATAACCATA
4723699 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGCAAGT
* * * *
4723751 CAAACTTACCTATTAAGAAT-CCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTC-TCCTCTTAGAATTCTTCTCTTGCAAGT
4723803 ATTCTTGTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 4 0.09
52 43 0.91
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:4723846 original size:11 final size:11
Alignment explanation
Indices: 4723830--4723870 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
4723820 AATATCTGAT
*
4723830 AAATCTCAAAC
1 AAATCTCTAAC
4723841 AAATCTCTAAC
1 AAATCTCTAAC
4723852 AAATCTCTAAC
1 AAATCTCTAAC
4723863 AAATCTCT
1 AAATCTCT
4723871 TATGGGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATCTCTAAC
Found at i:4728387 original size:18 final size:18
Alignment explanation
Indices: 4728333--4728388 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
4728323 TTAATTTAAT
*
4728333 TAAAATTTTAATAAAAATA
1 TAAAA-TTTAATAAAAAAA
* **
4728352 T-AAA-TTAATATATTAA
1 TAAAATTTAATAAAAAAA
4728368 TAAAATTTAATAAAAAAA
1 TAAAATTTAATAAAAAAA
4728386 TAA
1 TAA
4728389 GTAATATATA
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
16 9 0.32
17 3 0.11
18 15 0.54
19 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATTTAATAAAAAAA
Found at i:4730521 original size:24 final size:24
Alignment explanation
Indices: 4730491--4730566 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
4730481 GATATCATTC
* *
4730491 AAATATAATATTA-ATTATGCAAT
1 AAATATAATATTATATCATACAAT
4730514 AACATATAATATTATATCATACAAT
1 AA-ATATAATATTATATCATACAAT
* * *
4730539 AAATATAAAATCATACCATACAAT
1 AAATATAATATTATATCATACAAT
4730563 AAAT
1 AAAT
4730567 CATGTAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.04
24 34 0.74
25 10 0.22
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (24 bp):
AAATATAATATTATATCATACAAT
Found at i:4733023 original size:50 final size:50
Alignment explanation
Indices: 4732940--4733043 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
4732930 ATACCTAAAC
*
4732940 CTATAGAGACTTCATCTATTTATAAGCATACAAATTTGCCTATTAAGAAT
1 CTATAGAGACTTCACCTATTTATAAGCATACAAATTTGCCTATTAAGAAT
* *
4732990 CTATCAGAGATTTCACCTA-TTATAAGCATACAAATTTGTCTATTAAGAAT
1 CTAT-AGAGACTTCACCTATTTATAAGCATACAAATTTGCCTATTAAGAAT
4733040 CTAT
1 CTAT
4733044 TTTTTTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 38 0.76
51 12 0.24
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (50 bp):
CTATAGAGACTTCACCTATTTATAAGCATACAAATTTGCCTATTAAGAAT
Found at i:4733960 original size:6 final size:6
Alignment explanation
Indices: 4733864--4733961 Score: 97
Period size: 6 Copynumber: 16.3 Consensus size: 6
4733854 ATGACCAAAC
* * * * *
4733864 TAAAAC TAAAAA TAAAAT CAAAAT TAAAAT CAAAAT TAAAGT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * * * * *
4733912 TAAAAG TAAAAT CAAAAT TAAAAG CAAAAT CAAAAT CAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
4733960 TA
1 TA
4733962 GATTAAAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 76 1.00
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.23
Consensus pattern (6 bp):
TAAAAT
Found at i:4735106 original size:34 final size:34
Alignment explanation
Indices: 4735059--4735124 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
4735049 GGCATGTAAA
4735059 ATACTTCTAGCAATGTATTCTATGGCTTCACAGG
1 ATACTTCTAGCAATGTATTCTATGGCTTCACAGG
*
4735093 ATACTTCTGGCAATGTATTCTATGGCTTCACA
1 ATACTTCTAGCAATGTATTCTATGGCTTCACA
4735125 AGAATCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (34 bp):
ATACTTCTAGCAATGTATTCTATGGCTTCACAGG
Found at i:4740080 original size:237 final size:239
Alignment explanation
Indices: 4739631--4740102 Score: 831
Period size: 237 Copynumber: 2.0 Consensus size: 239
4739621 TCTTTTAATT
**
4739631 TTTTTTAAAATAATTTTGAAATATGCTTTAATTGTTTATCCTTATTCATTCAAGATTTATTTCTT
1 TTTTTTAAAATAATTTTGAAATATGCTTTAATTGTTTATCCTTATAAATTCAAGATTTATTTCTT
* *
4739696 CTCTTGTGTTGATGAATTGATGAACTTTATGTGCTTAAAAGATATATATTGATTCTTTGTTCATC
66 CTCTTGTGTTGATGAATTGATAAACTTTATGTGCTTAAAAGATATATATTGATTCTTAGTTCATC
4739761 TATGTTTTTGGTCAAGATATGTACTCATATGATGATTAGTTCAACTTGACCTTCATACTTGTGAT
131 TATGTTTTTGGTCAAGATATGTACTCATATGATGATTAGTTCAACTTGACCTTCATACTTGTGAT
* *
4739826 TTTAAATTATTTATTTCTTAATTTTTGAAATAGTTTTGTGTTTA
196 TTTAAATTATTTATTTCTTAATTTCTAAAATAGTTTTGTGTTTA
* *
4739870 TTTTTTAAAATAATTTTTAAATATGTTTTAATTGTTTATCCTTATAAATTCAAGATTTA-TTCTT
1 TTTTTTAAAATAATTTTGAAATATGCTTTAATTGTTTATCCTTATAAATTCAAGATTTATTTCTT
4739934 CTCTTGTGTTGATGAATTGATAAACTTTATGTGCTTAAAAGATATATATTGATTCTTAGTTCATC
66 CTCTTGTGTTGATGAATTGATAAACTTTATGTGCTTAAAAGATATATATTGATTCTTAGTTCATC
*
4739999 TATG-TTTTGGTCAAGATATGTGCTCATATGATGATTAGTTCAACTTGACCTTCATACTTGTGAT
131 TATGTTTTTGGTCAAGATATGTACTCATATGATGATTAGTTCAACTTGACCTTCATACTTGTGAT
* *
4740063 TTTAAATTGTTTATTTCTTAATTTCTAAAATATTTTTGTG
196 TTTAAATTATTTATTTCTTAATTTCTAAAATAGTTTTGTG
4740103 ATATGCTTGT
Statistics
Matches: 222, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
237 95 0.43
238 72 0.32
239 55 0.25
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (239 bp):
TTTTTTAAAATAATTTTGAAATATGCTTTAATTGTTTATCCTTATAAATTCAAGATTTATTTCTT
CTCTTGTGTTGATGAATTGATAAACTTTATGTGCTTAAAAGATATATATTGATTCTTAGTTCATC
TATGTTTTTGGTCAAGATATGTACTCATATGATGATTAGTTCAACTTGACCTTCATACTTGTGAT
TTTAAATTATTTATTTCTTAATTTCTAAAATAGTTTTGTGTTTA
Found at i:4742989 original size:88 final size:88
Alignment explanation
Indices: 4742895--4743069 Score: 298
Period size: 88 Copynumber: 2.0 Consensus size: 88
4742885 TTGATCAAGA
*
4742895 TTTTGAAAAAGATTTATTTAGTACATATTCCTTAGTTTTATATTTTTG-TACTAAATAAATAATA
1 TTTTGAAAAAGATTTATTTAGTACATATTCCTAAGTTTTATA-TTTTGATACTAAATAAATAATA
*
4742959 TGCTTTTCATAGTGTAAACAAACT
65 TACTTTTCATAGTGTAAACAAACT
*
4742983 TTTTGAAAAAGATTTATTTTGTACATATTCCTAAGTTTTATATTTTGATACTAAATAAATAATAT
1 TTTTGAAAAAGATTTATTTAGTACATATTCCTAAGTTTTATATTTTGATACTAAATAAATAATAT
*
4743048 ATTTTTCATAGTGTAAACAAAC
66 ACTTTTCATAGTGTAAACAAAC
4743070 CTTTCTTTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 5 0.06
88 77 0.94
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (88 bp):
TTTTGAAAAAGATTTATTTAGTACATATTCCTAAGTTTTATATTTTGATACTAAATAAATAATAT
ACTTTTCATAGTGTAAACAAACT
Found at i:4746730 original size:14 final size:14
Alignment explanation
Indices: 4746711--4746745 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
4746701 GCCACTCCCT
4746711 AAAAGCTTCTCTTC
1 AAAAGCTTCTCTTC
4746725 AAAAGC-T-TCTTC
1 AAAAGCTTCTCTTC
4746737 AAAAGCTTC
1 AAAAGCTTC
4746746 AAACTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.58
13 2 0.11
14 6 0.32
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (14 bp):
AAAAGCTTCTCTTC
Found at i:4747814 original size:7 final size:7
Alignment explanation
Indices: 4747802--4747828 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4747792 CTTATTAGCT
4747802 CAGTCAC
1 CAGTCAC
4747809 CAGTCAC
1 CAGTCAC
4747816 CAGTCAC
1 CAGTCAC
4747823 CAGTCA
1 CAGTCA
4747829 GGCGGTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (7 bp):
CAGTCAC
Found at i:4748725 original size:26 final size:28
Alignment explanation
Indices: 4748682--4748744 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
4748672 TTATGTTTTG
* **
4748682 ATCT-AAATTTTATCTTGATTTTTAATT
1 ATCTAAAATTTTATATTGATCATTAATT
*
4748709 -TTTAAAATTTTA-ATTGATCATTAATT
1 ATCTAAAATTTTATATTGATCATTAATT
4748735 ATCTAAAATT
1 ATCTAAAATT
4748745 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (28 bp):
ATCTAAAATTTTATATTGATCATTAATT
Found at i:4749479 original size:31 final size:30
Alignment explanation
Indices: 4749441--4749514 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
4749431 TCCATATCAT
* *
4749441 TTTAAAAATTAAGAAAAAAATTTTATATTGA
1 TTTAAAAATTAA-AAAAAAACTCTATATTGA
* *
4749472 TTTAAAAATTTAAATAAAAACTCTATATTGT
1 TTTAAAAA-TTAAAAAAAAACTCTATATTGA
4749503 TTTAAAATATTA
1 TTTAAAA-ATTA
4749515 TGTATGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 32 0.86
32 5 0.14
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
TTTAAAAATTAAAAAAAAACTCTATATTGA
Found at i:4749900 original size:20 final size:20
Alignment explanation
Indices: 4749855--4749901 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
4749845 AGATTCAACT
*
4749855 TAGATTTTTTAGATAGAAAA
1 TAGATTTTGTAGATAGAAAA
* *
4749875 TTGATTTTGTA-ATAGATTAA
1 TAGATTTTGTAGATAGA-AAA
4749895 TAGATTT
1 TAGATTT
4749902 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TAGATTTTGTAGATAGAAAA
Found at i:4749972 original size:31 final size:32
Alignment explanation
Indices: 4749902--4749974 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
4749892 TAATAGATTT
*
4749902 ATTTTTTAAAATGACATGAAAATTTTCACTTA
1 ATTTTTTAAAACGACATGAAAATTTTCACTTA
* * *
4749934 ATATTTTAAAACGATATG-AAGTTCTT-ACTTA
1 ATTTTTTAAAACGACATGAAAATT-TTCACTTA
4749965 ATTTTTTAAA
1 ATTTTTTAAA
4749975 TTGGTAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 18 0.51
32 17 0.49
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (32 bp):
ATTTTTTAAAACGACATGAAAATTTTCACTTA
Found at i:4750954 original size:13 final size:13
Alignment explanation
Indices: 4750938--4750963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4750928 CACATAGTTG
4750938 CAACAAAAATCTT
1 CAACAAAAATCTT
4750951 CAACAAAAATCTT
1 CAACAAAAATCTT
4750964 TGGAACAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
CAACAAAAATCTT
Found at i:4757470 original size:58 final size:58
Alignment explanation
Indices: 4757330--4757442 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 58
4757320 AAAAAACCTT
* *
4757330 TTTTAGAAAA-TTATTTAAAAAAAAATTTGATACTTTCAACTTTTCCTCAAAAATAGA
1 TTTTAGAAAACTTATTTAAAGAAAAATTTGATACTGTCAACTTTTCCTCAAAAATAGA
*
4757387 TTTTAGAAAACTTATTTTCAAGAAAAA-TTGATACTGTCAACTTTTCCTCAAAAATA
1 TTTTAGAAAACTTA-TTTAAAGAAAAATTTGATACTGTCAACTTTTCCTCAAAAATA
4757443 TTTTTTTTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 10 0.20
58 31 0.61
59 10 0.20
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (58 bp):
TTTTAGAAAACTTATTTAAAGAAAAATTTGATACTGTCAACTTTTCCTCAAAAATAGA
Found at i:4757490 original size:5 final size:5
Alignment explanation
Indices: 4757480--4757529 Score: 73
Period size: 5 Copynumber: 9.6 Consensus size: 5
4757470 ATCATTTAAA
*
4757480 AAAAT AAAAT AAAAT AAAGT AAAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
4757530 TAATACTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 32 0.76
6 10 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4757509 original size:27 final size:28
Alignment explanation
Indices: 4757481--4757534 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
4757471 TCATTTAAAA
*
4757481 AAATAAAATAAAATAAAGTAAA-AATAA
1 AAATAAAATAAAATAAAATAAATAATAA
4757508 AAATAAAATAAAATAAAATAAATAATA
1 AAATAAAATAAAATAAAATAAATAATA
4757535 CTAATAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (28 bp):
AAATAAAATAAAATAAAATAAATAATAA
Found at i:4757534 original size:22 final size:22
Alignment explanation
Indices: 4757479--4757534 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
4757469 AATCATTTAA
*
4757479 AAAAAT-AAAATAAAATAAAGT
1 AAAAATAAAAATAAAATAAAAT
4757500 AAAAATAAAAATAAAATAAAAT
1 AAAAATAAAAATAAAATAAAAT
4757522 -AAAATAAATAATA
1 AAAAATAAA-AATA
4757535 CTAATAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAAATAAAAATAAAATAAAAT
Found at i:4757577 original size:6 final size:6
Alignment explanation
Indices: 4757482--4757585 Score: 62
Period size: 6 Copynumber: 18.3 Consensus size: 6
4757472 CATTTAAAAA
* * *
4757482 AATAA- AATAA- AATAA- AGTAAA AATAAA AATAA- AATAA- AATAA-
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* ** * *
4757524 AATAAAT AATACT AATAAT TCTAAT -CTAAT AAATAAT AATGA- AATAAT
1 AAT-AAT AATAAT AATAAT AATAAT AATAAT -AATAAT AATAAT AATAAT
4757572 AATAAT AATAAT AA
1 AATAAT AATAAT AA
4757586 AAACTTTTGG
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
5 36 0.43
6 41 0.49
7 7 0.08
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (6 bp):
AATAAT
Found at i:4757580 original size:27 final size:26
Alignment explanation
Indices: 4757486--4757582 Score: 60
Period size: 27 Copynumber: 3.7 Consensus size: 26
4757476 TAAAAAAATA
* *
4757486 AAATAAAATAAAGTAA-AAATAAAAAT
1 AAATAAAAT-AACTAATAAATAATAAT
*
4757512 AAAATAAAATAA--AATAAATAATACT
1 -AAATAAAATAACTAATAAATAATAAT
**
4757537 -AATAATTCTAATCTAATAAATAATAAT
1 AAATAA-AATAA-CTAATAAATAATAAT
4757564 GAAATAATAATAA-TAATAA
1 -AAATAA-AATAACTAATAA
4757583 TAAAAACTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
23 5 0.09
24 5 0.09
25 8 0.14
26 2 0.04
27 27 0.48
29 9 0.16
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (26 bp):
AAATAAAATAACTAATAAATAATAAT
Found at i:4757639 original size:21 final size:22
Alignment explanation
Indices: 4757596--4757648 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
4757586 AAACTTTTGG
*
4757596 AACGGCTCGGCTCAACTAGG-A
1 AACGGCTCGGCTCAAATAGGAA
4757617 AACGGCTCGGCTCAAGATA-GAA
1 AACGGCTCGGCTCAA-ATAGGAA
4757639 AGACGGCTCG
1 A-ACGGCTCG
4757649 AAGATGCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 16 0.57
22 4 0.14
23 8 0.29
ACGTcount: A:0.30, C:0.26, G:0.30, T:0.13
Consensus pattern (22 bp):
AACGGCTCGGCTCAAATAGGAA
Found at i:4757660 original size:13 final size:14
Alignment explanation
Indices: 4757642--4757674 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4757632 GATAGAAAGA
4757642 CGGCTCGAAGATG-
1 CGGCTCGAAGATGT
*
4757655 CGGCTCGAGGATGT
1 CGGCTCGAAGATGT
4757669 CGGCTC
1 CGGCTC
4757675 TACTCGGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.15, C:0.27, G:0.39, T:0.18
Consensus pattern (14 bp):
CGGCTCGAAGATGT
Found at i:4758461 original size:24 final size:24
Alignment explanation
Indices: 4758434--4758524 Score: 110
Period size: 24 Copynumber: 3.5 Consensus size: 24
4758424 AATAAAATAA
*
4758434 AATAAAATATATGAATAGATAAAT
1 AATAAAATATATTAATAGATAAAT
4758458 AATAAAAATATATATATTAATAGATAAAT
1 AAT---AA-A-ATATATTAATAGATAAAT
4758487 AATAAAATATATTAATAGATAAAT
1 AATAAAATATATTAATAGATAAAT
*
4758511 AATTAAAAAATATT
1 AA-TAAAATATATT
4758525 TATATATTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
24 23 0.39
25 11 0.19
26 2 0.03
27 2 0.03
28 1 0.02
29 20 0.34
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
AATAAAATATATTAATAGATAAAT
Found at i:4758492 original size:53 final size:55
Alignment explanation
Indices: 4758434--4758580 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 55
4758424 AATAAAATAA
* * *
4758434 AATAAAATATATGAATAGATAAATAATAAAAATA-TATATATTAATAGATA-AAT
1 AATAAAATATATAAATAGATAAATAATAAAAATATTATATATTAACAAATAGAAT
* *
4758487 AATAAAATATATTAATAGATAAATAATTAAAAAATATTTATATATTAGCAAATAGTAAT
1 AATAAAATATATAAATAGATAAATAA-T-AAAAATA-TTATATATTAACAAATAG-AAT
* * *
4758546 AGTAATAATAAATAAATAAATAAATAATAAAAATA
1 AATAA-AATATATAAATAGATAAATAATAAAAATA
4758581 CAAATACAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
53 25 0.32
54 1 0.01
55 7 0.09
57 13 0.16
58 7 0.09
59 8 0.10
60 18 0.23
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.32
Consensus pattern (55 bp):
AATAAAATATATAAATAGATAAATAATAAAAATATTATATATTAACAAATAGAAT
Found at i:4758585 original size:19 final size:19
Alignment explanation
Indices: 4758549--4758586 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4758539 TAGTAATAGT
*
4758549 AATAATAAATAAATAAATA
1 AATAATAAATAAACAAATA
4758568 AATAATAAA-AATACAAATA
1 AATAATAAATAA-ACAAATA
4758587 CAAATGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAAATAAACAAATA
Found at i:4760546 original size:2 final size:2
Alignment explanation
Indices: 4760539--4760580 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
4760529 AAAACCAAAC
*
4760539 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
4760581 TAGGTCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4761242 original size:16 final size:16
Alignment explanation
Indices: 4761221--4761251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4761211 ACATTTCATG
*
4761221 TACTTAATTTTAAATT
1 TACTTAATTTAAAATT
4761237 TACTTAATTTAAAAT
1 TACTTAATTTAAAAT
4761252 CTCGACACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TACTTAATTTAAAATT
Found at i:4768709 original size:15 final size:16
Alignment explanation
Indices: 4768675--4768715 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
4768665 ATTCAGAGAC
*
4768675 TTTTTTATACTTATGCT
1 TTTTTTTTACTTAT-CT
4768692 TTTTTTTTACTTAT-T
1 TTTTTTTTACTTATCT
4768707 TTTTTTTTA
1 TTTTTTTTA
4768716 TTGCTTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
17 13 0.57
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTTTTTACTTATCT
Found at i:4768940 original size:26 final size:25
Alignment explanation
Indices: 4768894--4768956 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 25
4768884 CAATATAACA
4768894 ATTAAAATATTGAAAATTATTTA-T
1 ATTAAAATATTGAAAATTATTTAGT
4768918 GATTAAAATACATT-AAAATTATTTAGT
1 -ATTAAAAT--ATTGAAAATTATTTAGT
4768945 ATTAAAACTATT
1 ATTAAAA-TATT
4768957 AATATTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
25 11 0.32
26 18 0.53
27 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (25 bp):
ATTAAAATATTGAAAATTATTTAGT
Found at i:4768963 original size:25 final size:24
Alignment explanation
Indices: 4768894--4768963 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
4768884 CAATATAACA
4768894 ATTAAAATATTGAAAATTATTTATG
1 ATTAAAATATT-AAAATTATTTATG
4768919 ATTAAAATACATTAAAATTATTTA-G
1 ATTAAAAT--ATTAAAATTATTTATG
*
4768944 TATTAAAACTATTAATATTA
1 -ATTAAAA-TATTAAAATTA
4768964 AAAAAGTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 18 0.45
26 18 0.45
27 4 0.10
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTAAAATATTAAAATTATTTATG
Found at i:4768964 original size:15 final size:14
Alignment explanation
Indices: 4768929--4769013 Score: 73
Period size: 16 Copynumber: 5.6 Consensus size: 14
4768919 ATTAAAATAC
*
4768929 ATTAAAATTATTTAGT
1 ATTAAAA-TA-TTAAT
4768945 ATTAAAACTATTAAT
1 ATTAAAA-TATTAAT
*
4768960 ATTAAAAAAGTTATAT
1 ATTAAAATA-TTA-AT
*
4768976 TTTAATAATATATAAT
1 ATTAA-AATAT-TAAT
4768992 ATTAAAATATT-AT
1 ATTAAAATATTAAT
4769005 ATTAAAATA
1 ATTAAAATA
4769014 AAGAGGATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
13 11 0.19
14 2 0.03
15 19 0.32
16 22 0.37
17 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTAAAATATTAAT
Found at i:4769421 original size:26 final size:28
Alignment explanation
Indices: 4769391--4769463 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
4769381 AAATATTATT
*
4769391 TAATATAGTATTATTTATTATTAAAATAA
1 TAATATAATA-TATTTATTATTAAAATAA
*
4769420 TAATATAATACTATTTATTATTGAAAT-A
1 TAATATAATA-TATTTATTATTAAAATAA
* *
4769448 T-TTAAAATATATTTAT
1 TAATATAATATATTTAT
4769464 GTTTAATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.18
27 6 0.15
28 2 0.05
29 24 0.62
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
TAATATAATATATTTATTATTAAAATAA
Found at i:4769458 original size:32 final size:29
Alignment explanation
Indices: 4769391--4769447 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4769381 AAATATTATT
* *
4769391 TAATATAGTATTATTTATTATTAAAATAA
1 TAATATAATACTATTTATTATTAAAATAA
*
4769420 TAATATAATACTATTTATTATTGAAATA
1 TAATATAATACTATTTATTATTAAAATA
4769448 TTTAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (29 bp):
TAATATAATACTATTTATTATTAAAATAA
Found at i:4769974 original size:14 final size:14
Alignment explanation
Indices: 4769955--4769983 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4769945 AGATACTTTT
4769955 AAAATATTTTTATA
1 AAAATATTTTTATA
4769969 AAAATATTTTTATA
1 AAAATATTTTTATA
4769983 A
1 A
4769984 GTTACTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATTTTTATA
Found at i:4778366 original size:42 final size:42
Alignment explanation
Indices: 4778301--4778383 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
4778291 AAATAGACGC
*** *
4778301 CTTAATTGATTTGGTTTTATAATTGATAAAACCTATCAATTT
1 CTTAATTGATTTGGAAATATAATTGATAAAACATATCAATTT
*
4778343 CTTAATTGATTTGGAAATCTAATTGATAAAACATATCAATT
1 CTTAATTGATTTGGAAATATAATTGATAAAACATATCAATT
4778384 GCAGCATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (42 bp):
CTTAATTGATTTGGAAATATAATTGATAAAACATATCAATTT
Found at i:4778588 original size:64 final size:65
Alignment explanation
Indices: 4778343--4778588 Score: 219
Period size: 65 Copynumber: 3.8 Consensus size: 65
4778333 CTATCAATTT
*** * * *** * *
4778343 CTTAATTGATTTGGAAATCTAATTGAT-AAAACATATCAATTGCAGCATTTGGAAAAGTTGAATA
1 CTTAATTGATTTGGTTTTATAATTGATAAAAAC-TCTCAATTATGGCATTTGGAAAAGATGAACA
4778407 C
65 C
* * * ***
4778408 CTTATTTGATTTGGTTTTATAATTGATAAAAACTCTTAATTATGGCATTTTGTTTAGATGAACAC
1 CTTAATTGATTTGGTTTTATAATTGATAAAAACTCTCAATTATGGCATTTGGAAAAGATGAACAC
** ** * *
4778473 CTTAATTGATTTGGTTTTATAATTGATAAAATGTCTCAATTATGGTGTTTGGAACAGATGAACGC
1 CTTAATTGATTTGGTTTTATAATTGATAAAAACTCTCAATTATGGCATTTGGAAAAGATGAACAC
* * * *
4778538 CTTAATTGA-TAGGTTATATAATTGA-AGAAACCTCGCAATTATGGCATTTGG
1 CTTAATTGATTTGGTTTTATAATTGATA-AAAACTCTCAATTATGGCATTTGG
4778589 TTAATATAAA
Statistics
Matches: 145, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
63 1 0.01
64 33 0.23
65 106 0.73
66 5 0.03
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (65 bp):
CTTAATTGATTTGGTTTTATAATTGATAAAAACTCTCAATTATGGCATTTGGAAAAGATGAACAC
Found at i:4778601 original size:64 final size:65
Alignment explanation
Indices: 4778407--4778609 Score: 196
Period size: 65 Copynumber: 3.1 Consensus size: 65
4778397 AAGTTGAATA
* * * * ** * * *
4778407 CCTTATTTGATTTGGTTTTATAATTGATAAAAACTCTTAATTATGGCATTTTGTTTAGATGAACA
1 CCTTAATTGATTAGGTTATATAATTGATAAAACCTCGCAATTATGGCATTTGGTTAAGATGAACG
* * ** * ** *
4778472 CCTTAATTGATTTGGTTTTATAATTGATAAAATGTCTCAATTATGGTGTTTGG-AACAGATGAAC
1 CCTTAATTGATTAGGTTATATAATTGATAAAACCTCGCAATTATGGCATTTGGTTA-AGATGAAC
4778536 G
65 G
* *
4778537 CCTTAATTGA-TAGGTTATATAATTGA-AGAAACCTCGCAATTATGGCATTTGGTTAATATAAAC
1 CCTTAATTGATTAGGTTATATAATTGATA-AAACCTCGCAATTATGGCATTTGGTTAAGATGAAC
4778600 G
65 G
4778601 CCTTAATTG
1 CCTTAATTG
4778610 CTTACCAAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 49 0.43
65 65 0.57
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (65 bp):
CCTTAATTGATTAGGTTATATAATTGATAAAACCTCGCAATTATGGCATTTGGTTAAGATGAACG
Found at i:4781000 original size:13 final size:13
Alignment explanation
Indices: 4780984--4781008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4780974 ACAATCTTTT
4780984 AAAATATTTTTCC
1 AAAATATTTTTCC
4780997 AAAATATTTTTC
1 AAAATATTTTTC
4781009 AAATCAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATTTTTCC
Found at i:4783605 original size:18 final size:18
Alignment explanation
Indices: 4783574--4783608 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4783564 TACTGTTTTT
* *
4783574 TTTTTTTTTCCTGCACTG
1 TTTTTCTTTACTGCACTG
4783592 TTTTTCTTTACTGCACT
1 TTTTTCTTTACTGCACT
4783609 TACTTATCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.23, G:0.09, T:0.60
Consensus pattern (18 bp):
TTTTTCTTTACTGCACTG
Found at i:4783760 original size:16 final size:18
Alignment explanation
Indices: 4783731--4783764 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4783721 TTACATAATT
4783731 CTGCTTTAGTTTAATTTA
1 CTGCTTTAGTTTAATTTA
4783749 CTGCTTT-G-TTAATTTA
1 CTGCTTTAGTTTAATTTA
4783765 AGTGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (18 bp):
CTGCTTTAGTTTAATTTA
Found at i:4784299 original size:3 final size:3
Alignment explanation
Indices: 4784291--4784325 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4784281 ATGGTATTGC
*
4784291 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4784326 CATCATCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4784326 original size:12 final size:12
Alignment explanation
Indices: 4784290--4784328 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
4784280 TATGGTATTG
4784290 CATTATTATTAT
1 CATTATTATTAT
*
4784302 TATTATTATTAT
1 CATTATTATTAT
4784314 CATTATTATTAT
1 CATTATTATTAT
4784326 CAT
1 CAT
4784329 CATCATCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:4784330 original size:3 final size:3
Alignment explanation
Indices: 4784324--4784349 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4784314 CATTATTATT
4784324 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
4784350 TTCTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:4784881 original size:31 final size:32
Alignment explanation
Indices: 4784846--4784906 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
4784836 TAGGTTTTGG
4784846 ATGAATTTTTCGACGAAGTATGAA-TTTTTCA
1 ATGAATTTTTCGACGAAGTATGAACTTTTTCA
* **
4784877 ATGAATTTTTTGGTGAAGTATGAACTTTTT
1 ATGAATTTTTCGACGAAGTATGAACTTTTT
4784907 GGTGGGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.46
Consensus pattern (32 bp):
ATGAATTTTTCGACGAAGTATGAACTTTTTCA
Found at i:4785445 original size:16 final size:18
Alignment explanation
Indices: 4785414--4785450 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
4785404 TAAAATAATA
*
4785414 AAAAATCCTTTTC-AAAT
1 AAAAATCCTTTACAAAAT
4785431 AAAAATCC-TTACAAAAT
1 AAAAATCCTTTACAAAAT
4785448 AAA
1 AAA
4785451 TTCATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATCCTTTACAAAAT
Found at i:4786165 original size:37 final size:37
Alignment explanation
Indices: 4786121--4786201 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
4786111 ATAAATTTAA
*
4786121 AATTATTT-TATTCCATTTTCATTGCT-TATATTTGCTT
1 AATTATTTGTATTCC-TTTTCATTG-TGTATACTTGCTT
* *
4786158 TATTATTTGTTTTCCTTTTCATTGTGTATACTTGCTT
1 AATTATTTGTATTCCTTTTCATTGTGTATACTTGCTT
4786195 AATTATT
1 AATTATT
4786202 CATTTGTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 1 0.03
37 32 0.84
38 5 0.13
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (37 bp):
AATTATTTGTATTCCTTTTCATTGTGTATACTTGCTT
Found at i:4786242 original size:45 final size:39
Alignment explanation
Indices: 4786122--4786243 Score: 99
Period size: 37 Copynumber: 3.0 Consensus size: 39
4786112 TAAATTTAAA
* *
4786122 ATTATTT-TATTCCATTTTCATTGCTTATATTTGCT--TT
1 ATTATTTGTTTTCC-TTTTCATTGCTTATATTTGTTAATT
*
4786159 ATTATTTGTTTTCCTTTTCATTG-TGTATACTTGCTTAATT
1 ATTATTTGTTTTCCTTTTCATTGCT-TATATTTG-TTAATT
*
4786199 ATTCATTTGTCTTTCTTTTGATTCATTGCTTATATTTGTTTAATT
1 ATT-ATTTGT-TTTC-CTT--TTCATTGCTTATATTTG-TTAATT
4786244 GTTTATTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
36 1 0.01
37 23 0.34
38 6 0.09
40 5 0.07
41 6 0.09
42 4 0.06
43 2 0.03
45 20 0.29
46 1 0.01
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.61
Consensus pattern (39 bp):
ATTATTTGTTTTCCTTTTCATTGCTTATATTTGTTAATT
Found at i:4790765 original size:119 final size:118
Alignment explanation
Indices: 4790605--4790986 Score: 426
Period size: 119 Copynumber: 3.2 Consensus size: 118
4790595 ATTTTATCCT
* * * * *
4790605 GGTCATTTATATTTTATCTCGACTCGACCTTAGTCACTTCATTTTGACTCATGGTTTTGTTTCGG
1 GGTCATTTAT-TTTGACCTCGACTTGACCTTGGTCACTTCATTTTGACTCATGGTTTTATTTCGG
*** *
4790670 TCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCGTGGTTTTGCCCC
65 TCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCGTGGTTTCATCTC
* * * * * * *
4790724 GATCATTTATTTTCGACCTCGACTTGGCCTTGGTCATTTCATTTTGACTCATGATTTCATCTCGA
1 GGTCATTTATTTT-GACCTCGACTTGACCTTGGTCACTTCATTTTGACTCATGGTTTTATTTCGG
* *
4790789 TCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCATTGTTTCATCTC
65 TCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCGTGGTTTCATCTC
* * * * * *
4790843 GGTCATTTATTTTTGACCTCGGC-TCAACTTGGGTTACTTCATTTTGACTCATGGTTTCA-TCCT
1 GGTCATTTA-TTTTGACCTCGACTTGACCTT-GGTCACTTCATTTTGACTCATGGTTTTATTTC-
* * * * * * *
4790906 AGTCACTCGATCTTGGCTCAGTCCAGATTATTTCTTATGATTAGTGGTTTCATCTT
63 GGTCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCGTGGTTTCATCTC
4790962 GGTCATTTATTTTGACCTCGACTTG
1 GGTCATTTATTTTGACCTCGACTTG
4790987 GTCTTGATCG
Statistics
Matches: 218, Mismatches: 40, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
118 20 0.09
119 194 0.89
120 4 0.02
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (118 bp):
GGTCATTTATTTTGACCTCGACTTGACCTTGGTCACTTCATTTTGACTCATGGTTTTATTTCGGT
CACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCGTGGTTTCATCTC
Found at i:4791024 original size:119 final size:118
Alignment explanation
Indices: 4790605--4791029 Score: 410
Period size: 119 Copynumber: 3.6 Consensus size: 118
4790595 ATTTTATCCT
* * * * * ** *
4790605 GGTCATTTATATTTTATCTCGAC-TCGACCTTAGTCACTTCATTTTGACTCATGGTTTTGT-TTC
1 GGTCATTTAT-TTTGACCTCGACTTGGA-CTTGGTCACTTCATTTTGACTCATGATTTCATCCT-
* * * *** *
4790668 GGTCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCGTGGTTTTGCCCC
63 AGTCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGATTAGTGGTTTCATCTC
* * * *
4790724 GATCATTTATTTTCGACCTCGACTTGGCCTTGGTCATTTCATTTTGACTCATGATTTCAT-CTCG
1 GGTCATTTATTTT-GACCTCGACTTGGACTTGGTCACTTCATTTTGACTCATGATTTCATCCTAG
* *
4790788 ATCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCA-TTGTTTCATCTC
65 -TCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGA-TTAGTGGTTTCATCTC
* ** * *
4790843 GGTCATTTATTTTTGACCTCGGC-TCAACTTGGGTTACTTCATTTTGACTCATGGTTTCATCCTA
1 GGTCATTTA-TTTTGACCTCGACTTGGACTT-GGTCACTTCATTTTGACTCATGATTTCATCCTA
* * * *
4790907 GTCACTCGATCTTGGCTCAGTCCAGATTATTTCTTATGATTAGTGGTTTCATCTT
64 GTCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGATTAGTGGTTTCATCTC
* * * * * *
4790962 GGTCATTTATTTTGACCTCGACTTGGTCTTGATCGCTTCATTCTTGCCTCAAGATTTGATCCTAG
1 GGTCATTTATTTTGACCTCGACTTGGACTTGGTCACTTCATT-TTGACTCATGATTTCATCCTAG
4791027 TCA
65 TCA
4791030 TTTATTTTTG
Statistics
Matches: 250, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
118 31 0.12
119 210 0.84
120 9 0.04
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (118 bp):
GGTCATTTATTTTGACCTCGACTTGGACTTGGTCACTTCATTTTGACTCATGATTTCATCCTAGT
CACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGATTAGTGGTTTCATCTC
Found at i:4791344 original size:9 final size:8
Alignment explanation
Indices: 4791323--4791353 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4791313 CATCATTTTT
4791323 ATTTTTCA
1 ATTTTTCA
*
4791331 CTTTTTCA
1 ATTTTTCA
4791339 ATTTTTCA
1 ATTTTTCA
4791347 ATTTTTC
1 ATTTTTC
4791354 CTTCCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTTCA
Found at i:4791859 original size:31 final size:31
Alignment explanation
Indices: 4791821--4791908 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
4791811 TAGGTTTTGG
*
4791821 ATGAATTTTTCAATGAATTTTCTAGCGAAGT
1 ATGAATTTTTCAATGAATTTTCTAGCAAAGT
*
4791852 ATGAATTTTTCAATGAATTTTTTAGCAAAGT
1 ATGAATTTTTCAATGAATTTTCTAGCAAAGT
* * *
4791883 ATGAACTTTTCAGTGGGATTTTCTAG
1 ATGAATTTTTCAAT-GAATTTTCTAG
4791909 AAACCAACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
31 41 0.82
32 9 0.18
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (31 bp):
ATGAATTTTTCAATGAATTTTCTAGCAAAGT
Found at i:4792164 original size:5 final size:5
Alignment explanation
Indices: 4792156--4792188 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4792146 TTCATTTTGT
*
4792156 TTTTA TTTT- TTTTA TTTTA TTTGA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4792189 TAACCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:4792173 original size:15 final size:16
Alignment explanation
Indices: 4792149--4792190 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
4792139 TCCTTTTTTC
*
4792149 ATTTTGTTTTTATTT-
1 ATTTTATTTTTATTTG
*
4792164 TTTTTA-TTTTATTTG
1 ATTTTATTTTTATTTG
4792179 ATTTTATTTTTA
1 ATTTTATTTTTA
4792191 ACCCATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.36
15 9 0.41
16 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (16 bp):
ATTTTATTTTTATTTG
Found at i:4796625 original size:143 final size:143
Alignment explanation
Indices: 4796354--4796654 Score: 306
Period size: 143 Copynumber: 2.1 Consensus size: 143
4796344 TTAAATTACG
* * * * *
4796354 AAAATGCCTTTAAAAGGTATTTTGATAATTTCAACCTTTTCAAGGTGCAATTAGGGTTTTCAATG
1 AAAATACC-TTAAAAGGCATTTTGATAATCTCAACCTTTTCAAGGTGCAACTAGGATTTTCAATG
* * ** ***
4796419 CATTAAAATTTGGTAAATAATATCAAAACATGATCTAGGGCTTTTTGTAAAAAACCAAACTTGAG
65 CATCAAAATTTGGTAAATAATATCAAAACATGATCGAAAGCTTTTCACAAAAAACCAAACTTGAG
*
4796484 AAAGTCGAATTATA
130 AAAGTCAAATTATA
4796498 AAAATAACCTTAAAAGGCATTTTGATAATCT-AACC-TTTCTAAGGTGCAACTAGGATTTTCAAT
1 AAAAT-ACCTTAAAAGGCATTTTGATAATCTCAACCTTTTC-AAGGTGCAACTAGGATTTTCAAT
* * ** **
4796561 GTATCAAAATTCAT-G-AAATAATATCAAAATATGATCGAAAG-TTCTTCACAAAAAATTATCCT
64 GCATCAAAATT--TGGTAAATAATATCAAAACATGATCGAAAGCTT-TTCACAAAAAACCAAACT
* * *
4796623 TGAGAAGGTTAAATTATG
126 TGAGAAAGTCAAATTATA
4796641 AAAATACCTCTAAA
1 AAAATACCT-TAAA
4796655 CCCTAAAGAG
Statistics
Matches: 129, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
142 10 0.08
143 90 0.70
144 26 0.20
145 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (143 bp):
AAAATACCTTAAAAGGCATTTTGATAATCTCAACCTTTTCAAGGTGCAACTAGGATTTTCAATGC
ATCAAAATTTGGTAAATAATATCAAAACATGATCGAAAGCTTTTCACAAAAAACCAAACTTGAGA
AAGTCAAATTATA
Found at i:4802094 original size:21 final size:21
Alignment explanation
Indices: 4802070--4802122 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4802060 CTGTAAGTTG
* *
4802070 TTGTTGTTGCTCATTAAGCCA
1 TTGTTGTTGCTCATCAAGCAA
* * *
4802091 TTGTTCTTACTCATCAAGTAA
1 TTGTTGTTGCTCATCAAGCAA
4802112 TTGTTGTTGCT
1 TTGTTGTTGCT
4802123 ACTCTATTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (21 bp):
TTGTTGTTGCTCATCAAGCAA
Found at i:4806169 original size:62 final size:63
Alignment explanation
Indices: 4806070--4806203 Score: 175
Period size: 62 Copynumber: 2.1 Consensus size: 63
4806060 AGTGACAAAA
* * * *
4806070 AAATTCGTCAGTTAAAAAATTTGCATAAAAAAATTACACATTACTGATGAAAATTTCC-TTGCT
1 AAATTCATCAGTTAAAAAATTTACATAAAAAAATTACACATTACCGATGAAAA-TTCCATTACT
*
4806133 AAATTCATCAG-TAAAAAATTTTACA-AAAAAAATTACACGTTACCGATGAAAATTCCATTACT
1 AAATTCATCAGTTAAAAAA-TTTACATAAAAAAATTACACATTACCGATGAAAATTCCATTACT
*
4806195 AAATCCATC
1 AAATTCATC
4806204 GATAAAACAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
61 4 0.06
62 44 0.70
63 15 0.24
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (63 bp):
AAATTCATCAGTTAAAAAATTTACATAAAAAAATTACACATTACCGATGAAAATTCCATTACT
Found at i:4807766 original size:19 final size:19
Alignment explanation
Indices: 4807742--4807784 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
4807732 TAAGTTATAT
4807742 GAGTTGGGTCTCATATGGG
1 GAGTTGGGTCTCATATGGG
4807761 GAGTTGGGTCTCATATGGG
1 GAGTTGGGTCTCATATGGG
4807780 GAGTT
1 GAGTT
4807785 AGAAGTAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.09, G:0.42, T:0.33
Consensus pattern (19 bp):
GAGTTGGGTCTCATATGGG
Found at i:4808850 original size:5 final size:5
Alignment explanation
Indices: 4808840--4808878 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
4808830 TAATATTTAT
* * *
4808840 AAAGG AAAGG AAAGG AAAGG AAAGA AAAGA AAAAG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
4808879 TTTTTTAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:4810324 original size:7 final size:7
Alignment explanation
Indices: 4810312--4810373 Score: 56
Period size: 7 Copynumber: 8.6 Consensus size: 7
4810302 TATTTCTACT
4810312 TTTTTTC
1 TTTTTTC
4810319 TTTTTTC
1 TTTTTTC
4810326 -TTTTTC
1 TTTTTTC
*
4810332 TATTTTC
1 TTTTTTC
4810339 ATTTTCCTTC
1 -TTTT--TTC
*
4810349 TTTTCTC
1 TTTTTTC
4810356 TTTTTATC
1 TTTTT-TC
4810364 -TTTTTC
1 TTTTTTC
4810370 TTTT
1 TTTT
4810374 CTTTATTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
6 8 0.18
7 25 0.56
8 5 0.11
9 4 0.09
10 3 0.07
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:4810352 original size:22 final size:21
Alignment explanation
Indices: 4810320--4810384 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 21
4810310 CTTTTTTTCT
4810320 TTTTTCTTTTTCTATTTTCAT-
1 TTTTTC-TTTTCTATTTTCATC
* *
4810341 TTTCCTTCTTTTCTCTTTTTATC
1 TTT--TTCTTTTCTATTTTCATC
4810364 TTTTTCTTTTCTTTATTTTCA
1 TTTTTCTTTTC--TATTTTCA
4810385 AATTCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 11 0.31
22 12 0.34
23 12 0.34
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTTCTATTTTCATC
Found at i:4811325 original size:16 final size:16
Alignment explanation
Indices: 4811304--4811344 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
4811294 GTGAGAATGG
4811304 TTTCCTAAAGAAAACT
1 TTTCCTAAAGAAAACT
4811320 TTTCCTAAAGAAAACT
1 TTTCCTAAAGAAAACT
4811336 TTTCCTAAA
1 TTTCCTAAA
4811345 TGGTTTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (16 bp):
TTTCCTAAAGAAAACT
Found at i:4812470 original size:15 final size:15
Alignment explanation
Indices: 4812447--4812479 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4812437 GTGTACCAAA
*
4812447 TTTAGGGTTTGGGAT
1 TTTAAGGTTTGGGAT
4812462 TTTAAGGTTTGGGAT
1 TTTAAGGTTTGGGAT
4812477 TTT
1 TTT
4812480 GGATTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (15 bp):
TTTAAGGTTTGGGAT
Found at i:4812548 original size:30 final size:29
Alignment explanation
Indices: 4812512--4812697 Score: 121
Period size: 30 Copynumber: 6.4 Consensus size: 29
4812502 AGTTTCAGGC
* *
4812512 TTTGGAGCATTTAGGGTTTCGATTTTAGGG
1 TTTGGAG-GTTTAGGGTTTCGATTTTAAGG
* * *
4812542 TTTGGA-GTTTATGGTTGTAG-TTCT-AGAG
1 TTTGGAGGTTTAGGGTT-TCGATTTTAAG-G
* *
4812570 TTT-GAGGTTATAGGGTTTTGATTTTAAAG
1 TTTGGAGGTT-TAGGGTTTCGATTTTAAGG
* * * *
4812599 TTTAGAGGGTTTAAGGTTTTGATTTTAGGG
1 TTTGGA-GGTTTAGGGTTTCGATTTTAAGG
* * * * * *
4812629 TTCGAAGTTTTAGGTTTTCGACTCTAAGG
1 TTTGGAGGTTTAGGGTTTCGATTTTAAGG
*
4812658 TTTTGAGGGTTTAGGGTTTCGATTTTAAGG
1 TTTGGA-GGTTTAGGGTTTCGATTTTAAGG
4812688 TTT-GAGGTTT
1 TTTGGAGGTTT
4812698 TCAATTTTAG
Statistics
Matches: 118, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
27 3 0.03
28 25 0.21
29 36 0.31
30 50 0.42
31 4 0.03
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (29 bp):
TTTGGAGGTTTAGGGTTTCGATTTTAAGG
Found at i:4812900 original size:3 final size:3
Alignment explanation
Indices: 4812892--4812970 Score: 106
Period size: 3 Copynumber: 26.3 Consensus size: 3
4812882 TTATGAAAAT
* * **
4812892 TTA TTA TTA TTA TCA AT- TTA TTA TTA CCCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
4812937 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4812971 CCCTTTTTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.97
4 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4813138 original size:21 final size:21
Alignment explanation
Indices: 4813098--4813138 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4813088 TACTCAATTT
* *
4813098 TTATTATTTTTTAGATCATTA
1 TTATTATTTTTTAAAGCATTA
4813119 TTATTATTTTTTAAAGCATT
1 TTATTATTTTTTAAAGCATT
4813139 TTTAGCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATTATTTTTTAAAGCATTA
Found at i:4814820 original size:111 final size:111
Alignment explanation
Indices: 4814693--4814907 Score: 258
Period size: 111 Copynumber: 1.9 Consensus size: 111
4814683 GACCGGAATG
* * * *
4814693 ACACCGTGAGTCAAAAAATAA-AGAATCGA-CCGGGACAACATCGCGAGTCAAAAAGTAAGAAAA
1 ACACCGTAAGTCAAAAAATAAGAAAAT-GATCC-AGACAACATCACGAGTCAAAAAGTAA-AAAA
* * *
4814756 -CTA-CTGGGACAACACCGCAAGTCGAGAAGTAAAGAATCGATCGGAACA
63 TCGATC-GAGACAACACCGCAAGTCGAAAAGTAAAGAATCGATCGGAACA
* * * *
4814804 ACACCGTAAGTCAAAAAATAAGAAAATGATTCAGATAACATCACGAGTCGATAAGTAAAAAATCG
1 ACACCGTAAGTCAAAAAATAAGAAAATGATCCAGACAACATCACGAGTCAAAAAGTAAAAAATCG
*
4814869 ATCGAGACAACACCGCGAGTCGAAAAGTAAAGAATCGAT
66 ATCGAGACAACACCGCAAGTCGAAAAGTAAAGAATCGAT
4814908 AAGGATAACA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
110 4 0.05
111 78 0.89
112 6 0.07
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (111 bp):
ACACCGTAAGTCAAAAAATAAGAAAATGATCCAGACAACATCACGAGTCAAAAAGTAAAAAATCG
ATCGAGACAACACCGCAAGTCGAAAAGTAAAGAATCGATCGGAACA
Found at i:4814915 original size:74 final size:74
Alignment explanation
Indices: 4814711--4815058 Score: 206
Period size: 74 Copynumber: 4.6 Consensus size: 74
4814701 AGTCAAAAAA
* * * * * * * * * * * *
4814711 TAAAGAATCGACCGGGACAACATCGCGAGTCAAAAAGT-AAGAAAACTACTGGGACAACACCGCA
1 TAAAAAATCGATCGAGACAACACCGCAAGTCGAAAAGTAAAG-AATCGACTAGGATAACACCACG
*
4814775 AGTCGAGAAG
65 AGTCGATAAG
* * * * * * *
4814785 TAAAGAATCGATCG-GAACAACACCGTAAGTCAAAAAATAAGAAAAT-GATTCA-GATAACATCA
1 TAAAAAATCGATCGAG-ACAACACCGCAAGTCGAAAAGTAA-AGAATCGACT-AGGATAACACCA
4814847 CGAGTCGATAAG
63 CGAGTCGATAAG
*
4814859 TAAAAAATCGATCGAGACAACACCGCGAGTCGAAAAGTAAAGAATCGA-TAAGGATAACACCACA
1 TAAAAAATCGATCGAGACAACACCGCAAGTCGAAAAGTAAAGAATCGACT-AGGAT---A--ACA
* *
4814923 CCACCAATCGATAAG
60 CCACGAGTCGATAAG
* * * ** * * *
4814938 TAAAGAATCAATCGAGACAACATCGTGAGTCGATAAGTAAAGAATCGACT-GGAACAACACCGCG
1 TAAAAAATCGATCGAGACAACACCGCAAGTCGAAAAGTAAAGAATCGACTAGG-ATAACACCACG
*
4815002 AGTCGAAAAG
65 AGTCGATAAG
* * * * *
4815012 TAAAAAATCGA-CTAAGATAATATCGCAAGTCGATAAGTAAAGAATCG
1 TAAAAAATCGATC-GAGACAACACCGCAAGTCGAAAAGTAAAGAATCG
4815059 GTCGAGACGA
Statistics
Matches: 217, Mismatches: 42, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
73 8 0.04
74 140 0.65
75 4 0.02
76 2 0.01
77 1 0.00
78 2 0.01
79 59 0.27
80 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (74 bp):
TAAAAAATCGATCGAGACAACACCGCAAGTCGAAAAGTAAAGAATCGACTAGGATAACACCACGA
GTCGATAAG
Found at i:4814997 original size:79 final size:78
Alignment explanation
Indices: 4814851--4814998 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 78
4814841 ACATCACGAG
* *
4814851 TCGATAAGTAAAAAATCGATCGAGACAACACCGCGAGTCGAAAAGTAAAGAATCGATAAGGATAA
1 TCGATAAGTAAAAAATCAATCGAGACAACACCGCGAGTCGAAAAGTAAAGAATCGAT-AGGACAA
4814916 CACCACACCACCAA
65 CACCACACCACCAA
* * * *
4814930 TCGATAAGTAAAGAATCAATCGAGACAACATCGTGAGTCGATAAGTAAAGAATCGACT-GGAACA
1 TCGATAAGTAAAAAATCAATCGAGACAACACCGCGAGTCGAAAAGTAAAGAATCGA-TAGG-ACA
4814994 ACACC
64 ACACC
4814999 GCGAGTCGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.03
79 58 0.95
80 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (78 bp):
TCGATAAGTAAAAAATCAATCGAGACAACACCGCGAGTCGAAAAGTAAAGAATCGATAGGACAAC
ACCACACCACCAA
Found at i:4815024 original size:37 final size:36
Alignment explanation
Indices: 4814693--4815022 Score: 196
Period size: 37 Copynumber: 8.8 Consensus size: 36
4814683 GACCGGAATG
* * * * *
4814693 ACACCGTGAGTCAAAAAATAAAGAATCGACCGGGACA
1 ACACCGCGAGTCGAAAAGTAAAGAATCGA-TGGAACA
* * * * *
4814730 ACATCGCGAGTCAAAAAGT-AAGAAAACTACTGGGACA
1 ACACCGCGAGTCGAAAAGTAAAG-AATCGA-TGGAACA
* *
4814767 ACACCGCAAGTCGAGAAGTAAAGAATCGATCGGAACA
1 ACACCGCGAGTCGAAAAGTAAAGAATCGAT-GGAACA
** * * * ** *
4814804 ACACCGTAAGTCAAAAAATAAGAAAAT-GATTCAGATA
1 ACACCGCGAGTCGAAAAGTAA-AGAATCGATGGA-ACA
* * * * *
4814841 ACATCACGAGTCGATAAGTAAAAAATCGATCGAGACA
1 ACACCGCGAGTCGAAAAGTAAAGAATCGATGGA-ACA
4814878 ACACCGCGAGTCGAAAAGTAAAGAATCGATAAGGATAACA
1 ACACCGCGAGTCGAAAAGTAAAGAATCGAT--GG--AACA
* * * * * *
4814918 CCACACCACCAATCGATAAGTAAAGAATCAATCGAGACA
1 --ACACCGCGAGTCGAAAAGTAAAGAATCGATGGA-ACA
* * *
4814957 ACATCGTGAGTCGATAAGTAAAGAATCGACTGGAACA
1 ACACCGCGAGTCGAAAAGTAAAGAATCGA-TGGAACA
*
4814994 ACACCGCGAGTCGAAAAGTAAAAAATCGA
1 ACACCGCGAGTCGAAAAGTAAAGAATCGA
4815023 CTAAGATAAT
Statistics
Matches: 226, Mismatches: 53, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
36 10 0.04
37 171 0.76
38 11 0.05
39 4 0.02
40 4 0.02
41 1 0.00
42 25 0.11
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (36 bp):
ACACCGCGAGTCGAAAAGTAAAGAATCGATGGAACA
Found at i:4816634 original size:19 final size:19
Alignment explanation
Indices: 4816606--4816654 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
4816596 TAGAAAAAAC
*
4816606 AATACCAAAAATAATACAA
1 AATACAAAAAATAATACAA
*
4816625 AATACAAAAAA-AATGCAA
1 AATACAAAAAATAATACAA
*
4816643 AACA-AAAAAATA
1 AATACAAAAAATA
4816655 TAAAAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 10 0.38
ACGTcount: A:0.73, C:0.12, G:0.02, T:0.12
Consensus pattern (19 bp):
AATACAAAAAATAATACAA
Found at i:4816663 original size:19 final size:20
Alignment explanation
Indices: 4816641--4816682 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4816631 AAAAAAATGC
4816641 AAAACAA-AAAAATATA-AAA
1 AAAACAACAAAAA-ATAGAAA
*
4816660 AAAAGAACAAAAAATAGAAA
1 AAAACAACAAAAAATAGAAA
4816680 AAA
1 AAA
4816683 TCAAGGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAACAACAAAAAATAGAAA
Found at i:4817517 original size:22 final size:22
Alignment explanation
Indices: 4817492--4817544 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
4817482 CTCAAGGGCT
* *
4817492 CTGAACCGCTCCTTGGACTGGC
1 CTGAACCGCTCCTTGGACCGAC
4817514 CTGAACCGCTCCTTGGACCGAC
1 CTGAACCGCTCCTTGGACCGAC
4817536 CTGAACCGC
1 CTGAACCGC
4817545 GCCTCAGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.40, G:0.25, T:0.19
Consensus pattern (22 bp):
CTGAACCGCTCCTTGGACCGAC
Found at i:4817712 original size:17 final size:16
Alignment explanation
Indices: 4817669--4817713 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
4817659 AATTTTCTAA
* *
4817669 ATTTTTTTATATTATT
1 ATTTTTTTATTTTAGT
4817685 ATTTTTGTTATTTTGAGT
1 ATTTTT-TTATTTT-AGT
4817703 ATTTTTTTATT
1 ATTTTTTTATT
4817714 ATTCTTGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 8 0.32
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
ATTTTTTTATTTTAGT
Found at i:4818118 original size:31 final size:31
Alignment explanation
Indices: 4818080--4818207 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
4818070 CATTAATTCT
*
4818080 TAATTTCCAAAATCCTAAAGTCCAAAACGCC
1 TAATTTCCAAAATCCTAAAGTCCAAAACCCC
4818111 TAATTTCCAAAATCCTAAAGTCCAAAACCCC
1 TAATTTCCAAAATCCTAAAGTCCAAAACCCC
**
4818142 TAAAATCCAAAATCCTTTAAA-TCC-AAACCCC
1 TAATTTCCAAAATCC--TAAAGTCCAAAACCCC
** * * *
4818173 TAAAATCCAAAACCTCTAAAATCCGAAACCCC
1 TAATTTCCAAAATC-CTAAAGTCCAAAACCCC
4818205 TAA
1 TAA
4818208 AATCCAAACC
Statistics
Matches: 88, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
30 4 0.05
31 66 0.75
32 14 0.16
33 4 0.05
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (31 bp):
TAATTTCCAAAATCCTAAAGTCCAAAACCCC
Found at i:4818153 original size:47 final size:45
Alignment explanation
Indices: 4818085--4818230 Score: 125
Period size: 47 Copynumber: 3.1 Consensus size: 45
4818075 ATTCTTAATT
* * * * *
4818085 TCCAAAA-TCCTAAAGTCCAAAACGCCTAATTTCCAAAATCCTAAAG
1 TCCAAAACCCCTAAAATCCAAAAC-CCTAA-ATCCAAAACCCTAAAA
* *
4818131 TCCAAAACCCCTAAAATCCAAAATCCTTTAAATCCAAACCCCTAAAA
1 TCCAAAACCCCTAAAATCCAAAA-CC-CTAAATCCAAAACCCTAAAA
* *
4818178 TCCAAAACCTCTAAAATCCGAAACCCCTAAAATCC-AAACCCTTAAAA
1 TCCAAAACCCCTAAAATCC-AAAACCCT-AAATCCAAAACCC-TAAAA
*
4818225 TTCAAA
1 TCCAAA
4818231 CCTTTAAATC
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
46 13 0.16
47 62 0.76
48 7 0.09
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.20
Consensus pattern (45 bp):
TCCAAAACCCCTAAAATCCAAAACCCTAAATCCAAAACCCTAAAA
Found at i:4818185 original size:16 final size:16
Alignment explanation
Indices: 4818093--4818230 Score: 138
Period size: 16 Copynumber: 8.8 Consensus size: 16
4818083 TTTCCAAAAT
* *
4818093 CCTAAAGTCCAAAACG
1 CCTAAAATCCAAAACC
** *
4818109 CCTAATTTCCAAAA-T
1 CCTAAAATCCAAAACC
*
4818124 CCTAAAGTCCAAAACC
1 CCTAAAATCCAAAACC
*
4818140 CCTAAAATCCAAAATC
1 CCTAAAATCCAAAACC
* *
4818156 CTTTAAATCC-AAACC
1 CCTAAAATCCAAAACC
4818171 CCTAAAATCCAAAACC
1 CCTAAAATCCAAAACC
* *
4818187 TCTAAAATCCGAAACC
1 CCTAAAATCCAAAACC
4818203 CCTAAAATCC-AAACC
1 CCTAAAATCCAAAACC
* *
4818218 CTTAAAATTCAAA
1 CCTAAAATCCAAA
4818231 CCTTTAAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
15 37 0.37
16 64 0.63
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.20
Consensus pattern (16 bp):
CCTAAAATCCAAAACC
Found at i:4818217 original size:31 final size:31
Alignment explanation
Indices: 4818085--4818232 Score: 142
Period size: 31 Copynumber: 4.8 Consensus size: 31
4818075 ATTCTTAATT
* * * **
4818085 TCCAAAATC-CTAAAGTCCAAAACGCCTAATT
1 TCCAAAACCTCTAAAATCC-AAACCCCTAAAA
* *
4818116 TCCAAAATC-CTAAAGTCCAAAACCCCTAAAA
1 TCCAAAACCTCTAAAATCC-AAACCCCTAAAA
*
4818147 TCCAAAATCCT-TTAAATCCAAACCCCTAAAA
1 TCCAAAA-CCTCTAAAATCCAAACCCCTAAAA
4818178 TCCAAAACCTCTAAAATCCGAAACCCCTAAAA
1 TCCAAAACCTCTAAAATCC-AAACCCCTAAAA
* *
4818210 TCCAAACCCT-TAAAATTCAAACC
1 TCCAAAACCTCTAAAATCCAAACC
4818233 TTTAAATCAA
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
30 8 0.08
31 68 0.65
32 28 0.27
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (31 bp):
TCCAAAACCTCTAAAATCCAAACCCCTAAAA
Found at i:4818234 original size:14 final size:15
Alignment explanation
Indices: 4818135--4818247 Score: 111
Period size: 15 Copynumber: 7.4 Consensus size: 15
4818125 CTAAAGTCCA
*
4818135 AAACCCCTAAAATCC
1 AAACCCTTAAAATCC
* *
4818150 AAAATCCTTTAAATCC
1 -AAACCCTTAAAATCC
*
4818166 AAACCCCTAAAATCC
1 AAACCCTTAAAATCC
*
4818181 AAAACCTCTAAAATCC
1 AAACCCT-TAAAATCC
*
4818197 GAAACCCCTAAAATCC
1 -AAACCCTTAAAATCC
*
4818213 AAACCCTTAAAATTC
1 AAACCCTTAAAATCC
* *
4818228 AAA-CCTTTAAATCA
1 AAACCCTTAAAATCC
4818242 AAACCC
1 AAACCC
4818248 CAAACCTCAA
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
14 11 0.14
15 35 0.44
16 28 0.35
17 5 0.06
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (15 bp):
AAACCCTTAAAATCC
Found at i:4819953 original size:33 final size:33
Alignment explanation
Indices: 4819771--4819956 Score: 189
Period size: 33 Copynumber: 5.7 Consensus size: 33
4819761 TTGTGGGGCC
* * *
4819771 AGATAAATTGGGCTTAAAT-TTCATTGAATGCC
1 AGATAAACTGGGCTTAAATCTTCATTGAAGGCT
* * * *
4819803 AGCTAAACTGGGCTTAAAACCTCATTTG-GGGCT
1 AGATAAACTGGGCTTAAATCTTCA-TTGAAGGCT
* * *
4819836 AGATAAGCTGGGTTTAAAACTTCATT-AATGGCT
1 AGATAAACTGGGCTTAAATCTTCATTGAA-GGCT
* * *
4819869 AGATAAACTAGGCTTAAAACTTCATTGATGGCT
1 AGATAAACTGGGCTTAAATCTTCATTGAAGGCT
*
4819902 AGATAAACTGGGCTTAAATCTTCTTTGAAGGCT
1 AGATAAACTGGGCTTAAATCTTCATTGAAGGCT
* *
4819935 AAATAAACTGGGCATAAATCTT
1 AGATAAACTGGGCTTAAATCTT
4819957 ATGTAGATTT
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
32 18 0.14
33 105 0.83
34 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (33 bp):
AGATAAACTGGGCTTAAATCTTCATTGAAGGCT
Found at i:4820015 original size:9 final size:9
Alignment explanation
Indices: 4820001--4820026 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4819991 TTCTATTAGA
4820001 AATGAAAAG
1 AATGAAAAG
4820010 AATGAAAAG
1 AATGAAAAG
4820019 AATGAAAA
1 AATGAAAA
4820027 ATCTCTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (9 bp):
AATGAAAAG
Found at i:4820098 original size:18 final size:20
Alignment explanation
Indices: 4820061--4820100 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4820051 TTAGTACCCC
4820061 AAAGATTCCTACTAATTTAA
1 AAAGATTCCTACTAATTTAA
4820081 AAAGATTCC-ACT-ATTTAA
1 AAAGATTCCTACTAATTTAA
4820099 AA
1 AA
4820101 GTGATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAGATTCCTACTAATTTAA
Found at i:4820163 original size:22 final size:23
Alignment explanation
Indices: 4820129--4820175 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4820119 ACTTTTTCAA
*
4820129 CTAATCCAGGCTTA-TGTGCCAG
1 CTAATCCAAGCTTATTGTGCCAG
*
4820151 CTAATCTAAGCTTATTGTGCCAG
1 CTAATCCAAGCTTATTGTGCCAG
4820174 CT
1 CT
4820176 GAACTGGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (23 bp):
CTAATCCAAGCTTATTGTGCCAG
Found at i:4820186 original size:23 final size:23
Alignment explanation
Indices: 4820129--4820188 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
4820119 ACTTTTTCAA
*
4820129 CTAATCCAGGCTTA-TGTGCCAG
1 CTAATCTAGGCTTATTGTGCCAG
*
4820151 CTAATCTAAGCTTATTGTGCCAG
1 CTAATCTAGGCTTATTGTGCCAG
*
4820174 CTGAA-CTGGGCTTAT
1 CT-AATCTAGGCTTAT
4820189 ACCTTATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 12 0.38
23 18 0.56
24 2 0.06
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (23 bp):
CTAATCTAGGCTTATTGTGCCAG
Found at i:4821196 original size:33 final size:33
Alignment explanation
Indices: 4821151--4821230 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
4821141 GGTATATTCC
*
4821151 CTTTTATGCTTTCCATCCATTCATTTTTTTTTT
1 CTTTTATTCTTTCCATCCATTCATTTTTTTTTT
** * * *
4821184 CTTTTATTCTTTCTTTTCTTTCTTTTTTTTTTT
1 CTTTTATTCTTTCCATCCATTCATTTTTTTTTT
*
4821217 TTTTGTATTCTTTC
1 CTTT-TATTCTTTC
4821231 ACTGAGTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (33 bp):
CTTTTATTCTTTCCATCCATTCATTTTTTTTTT
Done.