Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 193 of 343
Found at i:64018225 original size:12 final size:12
Alignment explanation
Indices: 64018205--64018234 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
64018195 TTAGTAAACC
*
64018205 TTTTCTTTTCCT
1 TTTTTTTTTCCT
64018217 TTTTTTTTTCCT
1 TTTTTTTTTCCT
64018229 TTTTTT
1 TTTTTT
64018235 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTCCT
Found at i:64020647 original size:46 final size:46
Alignment explanation
Indices: 64020595--64020686 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
64020585 TGGATAGAAA
64020595 AATTATACTTATTTGATATATAAGTCAGATTTGAGTTTTAAAAGTT
1 AATTATACTTATTTGATATATAAGTCAGATTTGAGTTTTAAAAGTT
64020641 AATTATACTTATTTGATATATAAGTCAGATTTGAGTTTTAAAAGTT
1 AATTATACTTATTTGATATATAAGTCAGATTTGAGTTTTAAAAGTT
64020687 TGTAATATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (46 bp):
AATTATACTTATTTGATATATAAGTCAGATTTGAGTTTTAAAAGTT
Found at i:64025568 original size:74 final size:75
Alignment explanation
Indices: 64025485--64025636 Score: 195
Period size: 75 Copynumber: 2.0 Consensus size: 75
64025475 CAGTTGTCTC
* * * *
64025485 ATAATTTTTTTG-TGTCATG-GGAATCAAGTTGACAACATGTT-GCAA-TGTGTTGATTGCTTTT
1 ATAA-TTTTTTGATGTCATGTGAAAT-AAGTTGACAACATGTTCGCAACT-TGTTGACTACTTCT
64025546 ATAAGGATTTTGT
63 ATAAGGATTTTGT
* *
64025559 ATAATTTTTTGATGTCATGTGAAATAGGTTGACAACATGTTCGCAACTTGTTGACTACTTCTATT
1 ATAATTTTTTGATGTCATGTGAAATAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTATA
64025624 AGGATTTTGT
66 AGGATTTTGT
64025634 ATA
1 ATA
64025637 TAAATTACTA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
73 7 0.10
74 26 0.38
75 34 0.50
76 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (75 bp):
ATAATTTTTTGATGTCATGTGAAATAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTATA
AGGATTTTGT
Found at i:64025922 original size:35 final size:35
Alignment explanation
Indices: 64025830--64025925 Score: 110
Period size: 35 Copynumber: 2.7 Consensus size: 35
64025820 GACAAAGATC
64025830 TATCCCAAC-TTTTTTAAGTTTGCCTTAGACGGGTT
1 TATCCCAACATTTTTTAAG-TTGCCTTAGACGGGTT
* *
64025865 TA-CCCTAACCA--TTTTAAGGTTGCTTTAGATGGGTT
1 TATCCC-AA-CATTTTTTAA-GTTGCCTTAGACGGGTT
64025900 TATCCCAACATTTTTTAAGTTGCCTT
1 TATCCCAACATTTTTTAAGTTGCCTT
64025926 GGAAAAGGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
34 5 0.10
35 35 0.69
36 11 0.22
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (35 bp):
TATCCCAACATTTTTTAAGTTGCCTTAGACGGGTT
Found at i:64025958 original size:36 final size:35
Alignment explanation
Indices: 64025911--64026470 Score: 137
Period size: 35 Copynumber: 15.4 Consensus size: 35
64025901 ATCCCAACAT
64025911 TTTTTAA-GTTGCCTTGGAAAAGGTCTATCGCAACC
1 TTTTTAAGGTTGCCTT-GAAAAGGTCTATCGCAACC
* * **
64025946 TTTTTAGGGTTG-C-TGTAAACGGGTCTATCGCAAAA
1 TTTTTAAGGTTGCCTTG-AAA-AGGTCTATCGCAACC
* * * * *
64025981 TTTTTAACGTTGTCCTAG-ACAGGTCAATCGCAACA
1 TTTTTAAGGTTG-CCTTGAAAAGGTCTATCGCAACC
* * * *
64026016 TTTTCTAAAAGTTTCCTTAAACAAGATCTATCGCAACC
1 TTTT-T-AAGGTTGCCTTGAA-AAGGTCTATCGCAACC
* * * * *
64026054 TTTTTAGGGTTACCTT-AAACGAATCTATCACTAACC
1 TTTTTAAGGTTGCCTTGAAAAG-GTCTATCGC-AACC
* *
64026090 TTTTTAAGGTTGCTTTAGACAA-GTCTATC-CAACC
1 TTTTTAAGGTTGCCTT-GAAAAGGTCTATCGCAACC
* * * * *
64026124 TTTTTTTAAGGTTGCCATAGACAAGGTCTATTGTAACA
1 --TTTTTAAGGTTGCC-TTGAAAAGGTCTATCGCAACC
* * * *
64026162 TTTTTAAAATGTTGTCGT-AAACAGGTCTATCGCAACTT
1 TTTTT--AAGGTTGCCTTGAAA-AGGTCTATCGCAAC-C
* * * * * * *
64026200 TTTTTCAAGGTTGCCGTAAACAAGATATACCACAACT
1 TTTTT-AAGGTTGCCTTGAA-AAGGTCTATCGCAACC
* ** **
64026237 TTTTTAAAAGGTTGCCGTAGATAAA-GTCTATAACAATT
1 TTTTT--AAGGTTGCC-TTGA-AAAGGTCTATCGCAACC
* * * *
64026275 TTTATTAAGGGTTGCCGTAAACAAGG-CTTTTCGCAACT
1 TTT-TTAA-GGTTGCCTTGAA-AAGGTC-TATCGCAACC
* *
64026313 TTTTTAAGGTTGCC--GAAAACGAATCTATAC-CAATC
1 TTTTTAAGGTTGCCTTGAAAA-G-GTCTAT-CGCAACC
* *
64026348 TTTTTAACGTTG-CTCT-AAACGAGTCTATCGCAACC
1 TTTTTAAGGTTGCCT-TGAAAAG-GTCTATCGCAACC
* * *
64026383 ATTTTTAACAGTTGTCTT-AAATTGGTCTATCGCAACC
1 -TTTTTAA-GGTTGCCTTGAAA-AGGTCTATCGCAACC
* * * ** *
64026420 CTTTTATGATTGTATT-AAATGGGTCTATCGCAACC
1 TTTTTAAGGTTGCCTTGAAA-AGGTCTATCGCAACC
64026455 TTTTTCAAAGGTTGCC
1 TTTTT--AAGGTTGCC
64026471 CTTAACTAGG
Statistics
Matches: 390, Mismatches: 88, Indels: 92
0.68 0.15 0.16
Matches are distributed among these distances:
33 3 0.01
34 15 0.04
35 111 0.28
36 90 0.23
37 78 0.20
38 86 0.22
39 6 0.02
40 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (35 bp):
TTTTTAAGGTTGCCTTGAAAAGGTCTATCGCAACC
Found at i:64026167 original size:108 final size:107
Alignment explanation
Indices: 64025869--64026154 Score: 274
Period size: 108 Copynumber: 2.7 Consensus size: 107
64025859 CGGGTTTACC
* ** * * * *
64025869 CTAACCATTTTAAGGTTGCTTTAGATGGGTTTATCCCAA-CATTTTTTAAGTTGCCTTGGAAAAG
1 CTAACCTTTTTAAGGTTGCTTTAGACAGGTCTAT-CCAACCTTTTTTTAAGTTGCCTTAGACAAG
* ** *
64025933 GTCTATCGCAACCTTTTTAGGGTTGCTGTAAACGGGTCTATCG
65 GTCTATCGCAACCTTTTTAGGGTTCCTGTAAACGAATCTATCA
** * * * * ** * *
64025976 C-AAAATTTTTAACGTTG-TCCTAGACAGGTCAATCGCAACATTTTCTAAAAGTTTCCTTAAACA
1 CTAACCTTTTTAAGGTTGCT-TTAGACAGGTCTATC-CAACCTTTT-TTTAAGTTGCCTTAGACA
*
64026039 AGATCTATCGCAACCTTTTTAGGGTTACCT-TAAACGAATCTATCA
63 AGGTCTATCGCAACCTTTTTAGGGTT-CCTGTAAACGAATCTATCA
* *
64026084 CTAACCTTTTTAAGGTTGCTTTAGACAAGTCTATCCAACCTTTTTTTAAGGTTGCCATAGACAAG
1 CTAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCAACCTTTTTTTAA-GTTGCCTTAGACAAG
64026149 GTCTAT
65 GTCTAT
64026155 TGTAACATTT
Statistics
Matches: 136, Mismatches: 35, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
105 2 0.01
106 24 0.18
107 7 0.05
108 75 0.55
109 27 0.20
110 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (107 bp):
CTAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCAACCTTTTTTTAAGTTGCCTTAGACAAGG
TCTATCGCAACCTTTTTAGGGTTCCTGTAAACGAATCTATCA
Found at i:64026203 original size:37 final size:38
Alignment explanation
Indices: 64025930--64026332 Score: 184
Period size: 38 Copynumber: 11.0 Consensus size: 38
64025920 TGCCTTGGAA
* * *
64025930 AAGGTCTATCGCAACCTTTTT--AGGGTTGCTGTAAAC
1 AAGGTCTATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
* ** * *
64025966 -GGGTCTATCGCAAAATTTTT--AACGTTGTCC-TAGAC
1 AAGGTCTATCGCAACTTTTTTAAAAGGTTG-CCGTAAAC
* * * *
64026001 -AGGTCAATCGCAACATTTTCTAAAA-GTTTCCTTAAAC
1 AAGGTCTATCGCAAC-TTTTTTAAAAGGTTGCCGTAAAC
* * * * *
64026038 AAGATCTATCGCAACCTTTTT--AGGGTTACCTTAAAC
1 AAGGTCTATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
* * ** *
64026074 GAA--TCTATCACTAACCTTTTT--AAGGTTGCTTTAGAC
1 -AAGGTCTATCGC-AACTTTTTTAAAAGGTTGCCGTAAAC
* * *
64026110 AA-GTCTATC-CAACCTTTTTT-TAAGGTTGCCATAGAC
1 AAGGTCTATCGCAA-CTTTTTTAAAAGGTTGCCGTAAAC
* * * * *
64026146 AAGGTCTATTGTAACATTTTTAAAATGTTGTCGTAAAC
1 AAGGTCTATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
**
64026184 -AGGTCTATCGCAACTTTTTTTCAAGGTTGCCGTAAAC
1 AAGGTCTATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
* * * * * *
64026221 AAGATATACCACAACTTTTTTAAAAGGTTGCCGTAGAT
1 AAGGTCTATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
* ** * *
64026259 AAAGTCTATAACAA-TTTTTATTAAGGGTTGCCGTAAAC
1 AAGGTCTATCGCAACTTTTT-TAAAAGGTTGCCGTAAAC
* *
64026297 AAGG-CTTTTCGCAACTTTTTT--AAGGTTGCCGAAAAC
1 AAGGTC-TATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
64026333 GAATCTATAC
Statistics
Matches: 282, Mismatches: 66, Indels: 38
0.73 0.17 0.10
Matches are distributed among these distances:
34 2 0.01
35 54 0.19
36 72 0.26
37 61 0.22
38 88 0.31
39 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (38 bp):
AAGGTCTATCGCAACTTTTTTAAAAGGTTGCCGTAAAC
Found at i:64027131 original size:14 final size:15
Alignment explanation
Indices: 64027098--64027135 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
64027088 AGGGATGAAC
*
64027098 ATAAAAATATACGAA
1 ATAAAAATATACAAA
*
64027113 TTAAAAATATA-AAA
1 ATAAAAATATACAAA
64027127 ATAAAAATA
1 ATAAAAATA
64027136 GAAATAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAAAAATATACAAA
Found at i:64029973 original size:19 final size:19
Alignment explanation
Indices: 64029949--64030022 Score: 98
Period size: 19 Copynumber: 3.9 Consensus size: 19
64029939 AATCATATCT
64029949 TCTAAGATTGCTTATCATA
1 TCTAAGATTGCTTATCATA
*
64029968 TCTAAGATTGC-AATCATA
1 TCTAAGATTGCTTATCATA
*
64029986 TCTAAGATTACATT-TCATA
1 TCTAAGATTGC-TTATCATA
*
64030005 TCTAAGATTGCATATCAT
1 TCTAAGATTGCTTATCAT
64030023 TGAAGATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
18 17 0.36
19 30 0.64
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCTTATCATA
Found at i:64030004 original size:37 final size:38
Alignment explanation
Indices: 64029942--64030022 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 38
64029932 ATTACAAAAT
*
64029942 CATATC-T-TCTAAGATTGCTTATCATATCTAAGATTG
1 CATATCATATCTAAGATTACTTATCATATCTAAGATTG
64029978 CA-ATCATATCTAAGATTACATT-TCATATCTAAGATTG
1 CATATCATATCTAAGATTAC-TTATCATATCTAAGATTG
64030015 CATATCAT
1 CATATCAT
64030023 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 3 0.08
36 3 0.08
37 27 0.68
38 7 0.17
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (38 bp):
CATATCATATCTAAGATTACTTATCATATCTAAGATTG
Found at i:64030039 original size:37 final size:37
Alignment explanation
Indices: 64029963--64030042 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
64029953 AGATTGCTTA
*
64029963 TCATATCTAAGATTGCAATCATATCTAAGATTACATT
1 TCATATCTAAGATTGCAATCATATCGAAGATTACATT
*
64030000 TCATATCTAAGATTGCATATCAT-T-GAAGATTATATTT
1 TCATATCTAAGATTGCA-ATCATATCGAAGATTACA-TT
64030037 TCATAT
1 TCATAT
64030043 GAGTCAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 8 0.21
37 26 0.67
38 5 0.13
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (37 bp):
TCATATCTAAGATTGCAATCATATCGAAGATTACATT
Found at i:64031830 original size:8 final size:9
Alignment explanation
Indices: 64031802--64031827 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
64031792 AGGTCCTTTA
64031802 AAAATTTTT
1 AAAATTTTT
64031811 AAAATTTTT
1 AAAATTTTT
64031820 AAAATTTT
1 AAAATTTT
64031828 AAATTAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AAAATTTTT
Found at i:64032475 original size:31 final size:31
Alignment explanation
Indices: 64032440--64032513 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
64032430 CAGTAAAGTA
* *
64032440 ACTAAAATTAACAATTTATCTAATGGAAATG
1 ACTAAAATTAACAACTTATCTAACGGAAATG
* * * *
64032471 ACTAAAATTGATAACTTCTCTAACGGGAATG
1 ACTAAAATTAACAACTTATCTAACGGAAATG
64032502 ACTAAAA-TAACA
1 ACTAAAATTAACA
64032514 TTTTTTTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (31 bp):
ACTAAAATTAACAACTTATCTAACGGAAATG
Found at i:64034567 original size:7 final size:6
Alignment explanation
Indices: 64034526--64034566 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
64034516 ATAATTTAAT
*
64034526 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
64034567 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:64034567 original size:20 final size:20
Alignment explanation
Indices: 64034529--64034568 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
64034519 ATTTAATAAA
**
64034529 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
64034549 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
64034569 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:64034604 original size:9 final size:9
Alignment explanation
Indices: 64034586--64034689 Score: 100
Period size: 9 Copynumber: 11.6 Consensus size: 9
64034576 TTTATACAAA
*
64034586 TAATTTGGT
1 TAATTCGGT
64034595 TAATTCGGT
1 TAATTCGGT
* *
64034604 TAATTTGGG
1 TAATTCGGT
* *
64034613 TAATTTGGG
1 TAATTCGGT
64034622 TAATTCGGT
1 TAATTCGGT
**
64034631 TAATTCGAC
1 TAATTCGGT
**
64034640 TAATTCGAC
1 TAATTCGGT
64034649 TAATTCGGT
1 TAATTCGGT
*
64034658 TAATTCGAT
1 TAATTCGGT
*
64034667 TAATTCAGT
1 TAATTCGGT
*
64034676 TAATTCGAT
1 TAATTCGGT
64034685 TAATT
1 TAATT
64034690 TTATACTTAT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 81 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:64035762 original size:179 final size:179
Alignment explanation
Indices: 64035456--64035789 Score: 605
Period size: 179 Copynumber: 1.9 Consensus size: 179
64035446 GAACTAGAAA
64035456 TCAATAGAAATCAACAAAATTGTTATTTCAGAAAATAGATTTAATATTCAGAGAATAAAACTCTC
1 TCAATAGAAATCAACAAAATTGTTATTTCAGAAAATAGATTTAATATTCAGAGAATAAAACTCTC
*
64035521 ACTATTTTTTAGTAGAATAACAATATCTTAATGTTGTGTATTTTACCCTACTAGTAACATCTATT
66 ACTATTTTTTAGTAGAATAACAATATCTTAAAGTTGTGTATTTTACCCTACTAGTAACATCTATT
64035586 TATAGGGAGAACAAGTAAAGTCTTTTAGAGTGAAAACAAAAATCTCTTC
131 TATAGGGAGAACAAGTAAAGTCTTTTAGAGTGAAAACAAAAATCTCTTC
* *
64035635 TCAATAGAAATCGACAAAATTGTTTTTTCAGAAAATAGATTTAATATTCAGAGAATAAAACTCTC
1 TCAATAGAAATCAACAAAATTGTTATTTCAGAAAATAGATTTAATATTCAGAGAATAAAACTCTC
* * *
64035700 ACTATTTTTTAGTAGAATAACAATATCTTAAAGTTTTGTATTTTACCCTCCTAGTGACATCTATT
66 ACTATTTTTTAGTAGAATAACAATATCTTAAAGTTGTGTATTTTACCCTACTAGTAACATCTATT
*
64035765 TATAGGGAGAAGAAGTAAAGTCTTT
131 TATAGGGAGAACAAGTAAAGTCTTT
64035790 GTTGAATTGT
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 148 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (179 bp):
TCAATAGAAATCAACAAAATTGTTATTTCAGAAAATAGATTTAATATTCAGAGAATAAAACTCTC
ACTATTTTTTAGTAGAATAACAATATCTTAAAGTTGTGTATTTTACCCTACTAGTAACATCTATT
TATAGGGAGAACAAGTAAAGTCTTTTAGAGTGAAAACAAAAATCTCTTC
Found at i:64037452 original size:51 final size:51
Alignment explanation
Indices: 64037397--64037616 Score: 210
Period size: 51 Copynumber: 4.3 Consensus size: 51
64037387 GACTTTCACA
* * **
64037397 TAGTACCACACTTGTGATCAAAACCATCTCTTACACATAGTAGCCTGCACT
1 TAGTACTACACATGTGATCAAAACCATCTGGTACACATAGTAGCCTGCACT
* * * * *
64037448 TAGTACCACACATGTGATCAAAGCTATCGGGTACGA-ATAGTAGCCTACACT
1 TAGTACTACACATGTGATCAAAACCATCTGGTAC-ACATAGTAGCCTGCACT
* ** *
64037499 TAGTACTACACATGCGA-CCTAACCATCTGGTACACGTAGTAGCCTGCACT
1 TAGTACTACACATGTGATCAAAACCATCTGGTACACATAGTAGCCTGCACT
* * * * *** * *
64037549 TCGTACTACACACGTGACCTAAAACCATTTTAAACACATAGTAGCCTGAACA
1 TAGTACTACACATGTGATC-AAAACCATCTGGTACACATAGTAGCCTGCACT
64037601 TAGTACTACACATGTG
1 TAGTACTACACATGTG
64037617 TTCTCACAAT
Statistics
Matches: 135, Mismatches: 30, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 38 0.28
51 58 0.43
52 38 0.28
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (51 bp):
TAGTACTACACATGTGATCAAAACCATCTGGTACACATAGTAGCCTGCACT
Found at i:64037549 original size:50 final size:50
Alignment explanation
Indices: 64037418--64037616 Score: 193
Period size: 50 Copynumber: 3.9 Consensus size: 50
64037408 TTGTGATCAA
** * * *
64037418 AACCATCTCTTACACATAGTAGCCTGCACTTAGTACCACACATGTGATCA
1 AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
* * * *
64037468 AAGCTATCGGGTACGA-ATAGTAGCCTACACTTAGTACTACACATGCGACCT
1 AA-CCATCTGGTAC-ACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
* * *
64037519 AACCATCTGGTACACGTAGTAGCCTGCACTTCGTACTACACACGTGACCT
1 AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
* *** * *
64037569 AAAACCATTTTAAACACATAGTAGCCTGAACATAGTACTACACATGTG
1 --AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
64037617 TTCTCACAAT
Statistics
Matches: 119, Mismatches: 25, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
49 1 0.01
50 41 0.34
51 39 0.33
52 38 0.32
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
Found at i:64048194 original size:23 final size:23
Alignment explanation
Indices: 64048143--64048200 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
64048133 TAGAATGTCA
*
64048143 GTATGGCGTATTCTGTAAAACTT
1 GTATGGCGTATTCGGTAAAACTT
* *
64048166 GTATGGAGTATTCGGTAAAGCTT
1 GTATGGCGTATTCGGTAAAACTT
64048189 -TCATGGCGTATT
1 GT-ATGGCGTATT
64048201 TGGAGAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.03
23 29 0.97
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (23 bp):
GTATGGCGTATTCGGTAAAACTT
Found at i:64051426 original size:34 final size:34
Alignment explanation
Indices: 64051383--64051450 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
64051373 GGGTAGATGA
64051383 CTTAATTGATAAATAAATAATAAACCTAAAGGCT
1 CTTAATTGATAAATAAATAATAAACCTAAAGGCT
64051417 CTTAATTGATAAATAAATAATAAACCTAAAGGCT
1 CTTAATTGATAAATAAATAATAAACCTAAAGGCT
64051451 AGCTATCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (34 bp):
CTTAATTGATAAATAAATAATAAACCTAAAGGCT
Found at i:64052299 original size:49 final size:48
Alignment explanation
Indices: 64052238--64052393 Score: 156
Period size: 49 Copynumber: 3.2 Consensus size: 48
64052228 GAGGTGTGTT
* *
64052238 AGTGTAACACCTGTCTAAGACATGGCATCGACATAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACATAGAT-AGTGAGAGCC
* * * **
64052287 AGTGTAAGACCTGTCTAGGACATGGCATCGTCCTCGAT-GT-ATGTAAGTT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAGTGA-G--AGCC
* * *
64052336 AGTGTAAGACCTGTCTGGGACATGGCATCAACTTAGAT-GTGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAGTGAGAGCC
*
64052383 AATGTAAGACC
1 AGTGTAAGACC
64052394 ATGTTTGGAA
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
46 1 0.01
47 15 0.17
49 71 0.81
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAGTGAGAGCC
Found at i:64052313 original size:93 final size:95
Alignment explanation
Indices: 64052194--64052393 Score: 246
Period size: 98 Copynumber: 2.1 Consensus size: 95
64052184 TATGCAAGCT
* * * * *
64052194 AGTGTAAAACCTGTCTTGGACATGGCATCG-GCTTGA-G-GTGT-GTTAGTGTAACACCTGTCTA
1 AGTGTAAGACCTGTCTAGGACATGGCATCGTCCTCGATGTATGTAGTTAGTGTAACACCTGTCTA
*
64052255 AGACATGGCATCGACATAGATAAGTGAGAGCC
66 AGACATGGCATCAACATAGAT--GTGAGAGCC
*
64052287 AGTGTAAGACCTGTCTAGGACATGGCATCGTCCTCGATGTATGTAAGTTAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGTCCTCGATGTATGT-AGTTAGTGTAACACCTGTCT
** *
64052352 GGGACATGGCATCAACTTAGATGTGAGAGCC
65 AAGACATGGCATCAACATAGATGTGAGAGCC
*
64052383 AATGTAAGACC
1 AGTGTAAGACC
64052394 ATGTTTGGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
93 28 0.31
94 4 0.04
95 1 0.01
96 22 0.24
98 36 0.40
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (95 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGTCCTCGATGTATGTAGTTAGTGTAACACCTGTCTA
AGACATGGCATCAACATAGATGTGAGAGCC
Found at i:64059923 original size:49 final size:49
Alignment explanation
Indices: 64059862--64059968 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
64059852 TATAATCAAT
* *
64059862 ATGGCATTGGCCTCAAGGTATGCAAG-CTAGTGTAAGACCTGTCTGGGAC
1 ATGGCATCGGCCTCAAGGTATGCAAGTC-AGTGTAAGACCTGTCTAGGAC
* * *
64059911 ATGGCATCGGCCTCGATGTATGTAAGTCAGTGTAAGACCTGTCTAGGAC
1 ATGGCATCGGCCTCAAGGTATGCAAGTCAGTGTAAGACCTGTCTAGGAC
*
64059960 ATGCCATCG
1 ATGGCATCG
64059969 ACTTAAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
49 50 0.98
50 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (49 bp):
ATGGCATCGGCCTCAAGGTATGCAAGTCAGTGTAAGACCTGTCTAGGAC
Found at i:64066223 original size:21 final size:21
Alignment explanation
Indices: 64066199--64066240 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
64066189 GGTTAAGGAT
64066199 AGAATCCCATTTTTTGTGAGG
1 AGAATCCCATTTTTTGTGAGG
64066220 AGAATCCCATTTTTTGTGAGG
1 AGAATCCCATTTTTTGTGAGG
64066241 TACTCTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (21 bp):
AGAATCCCATTTTTTGTGAGG
Found at i:64071183 original size:18 final size:19
Alignment explanation
Indices: 64071146--64071189 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
64071136 ATTTATTTTT
* *
64071146 TAATATATTATAAATTACA
1 TAATATATTAAAAATAACA
64071165 TAATATA-TAAAAATAACA
1 TAATATATTAAAAATAACA
64071183 TAATATA
1 TAATATA
64071190 AAATATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATATATTAAAAATAACA
Found at i:64072008 original size:12 final size:12
Alignment explanation
Indices: 64071991--64072020 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
64071981 CCACCATCCA
64071991 GTGAGCTCCCCG
1 GTGAGCTCCCCG
*
64072003 GTGAGCTCTCCG
1 GTGAGCTCCCCG
64072015 GTGAGC
1 GTGAGC
64072021 CTCAACATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.33, G:0.37, T:0.20
Consensus pattern (12 bp):
GTGAGCTCCCCG
Found at i:64077420 original size:27 final size:27
Alignment explanation
Indices: 64077382--64077435 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
64077372 ATAAGAGGAT
* *
64077382 TAGTTCTTCATGGAATCCGTAAACACA
1 TAGTTCCTCATGGAATCCATAAACACA
*
64077409 TAGTTCCTCATGGAATCCATATACACA
1 TAGTTCCTCATGGAATCCATAAACACA
64077436 ATAAACTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (27 bp):
TAGTTCCTCATGGAATCCATAAACACA
Found at i:64079792 original size:50 final size:50
Alignment explanation
Indices: 64079736--64079962 Score: 202
Period size: 50 Copynumber: 4.6 Consensus size: 50
64079726 GAGATGTGCC
*
64079736 AGTGTAAGACCATGTCTGGAATATGGCATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCACTGGATAT-TGAGAGCT
* * * * *
64079786 AGTGTAAGACTATGTCTAGG-ATATGGAATTGGCAC-GGATATGTGAGAGTT
1 AGTGTAAGACCATGTCT-GGAACATGGCATCGGCACTGGATAT-TGAGAGCT
* * * * *
64079836 AGTGTAAGACCATGTCTGGGACATGGCGTTGGC-CTCGAT-TTCGATAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCACTGGATATT-GAGAGCT
* * *
64079885 AGTGTAAGACCATGTCTAGAACATGGCATC--AACTTGATA--GATGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCACTGGATATTGA-GAGCT
* *
64079932 AGTGTAAGACCATGTCTGGGACATGACATCG
1 AGTGTAAGACCATGTCTGGAACATGGCATCG
64079963 AAATTATACC
Statistics
Matches: 148, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
46 2 0.01
47 31 0.21
48 6 0.04
49 35 0.24
50 72 0.49
51 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCACTGGATATTGAGAGCT
Found at i:64079956 original size:47 final size:47
Alignment explanation
Indices: 64079835--64079961 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
64079825 ATGTGAGAGT
* *** *
64079835 TAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGATAGC
1 TAGTGTAAGACCATGTCTGGGACATGGC-ATCAACTCGA-TTAGATAGC
* * *
64079884 TAGTGTAAGACCATGTCTAGAACATGGCATCAACTTGA-TAGATGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATTAGAT-AGC
*
64079931 TAGTGTAAGACCATGTCTGGGACATGACATC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC
64079962 GAAATTATAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 4 0.06
47 31 0.47
48 5 0.08
49 26 0.39
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATTAGATAGC
Found at i:64086905 original size:6 final size:6
Alignment explanation
Indices: 64086884--64086923 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
64086874 ATTTAAAAAC
* *
64086884 TTTTTA TTTATTA TTTTTA TTTTTA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
64086924 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:64108393 original size:30 final size:32
Alignment explanation
Indices: 64108347--64108407 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
64108337 CACTTTGGCG
*
64108347 CCTTTAAAAATGATAAAAATTT-GAT-TTAAT
1 CCTTCAAAAATGATAAAAATTTAGATATTAAT
* *
64108377 CCTTCAAAAATTATAAAGATTTAGATATTAA
1 CCTTCAAAAATGATAAAAATTTAGATATTAA
64108408 AATAGTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.73
31 3 0.12
32 4 0.15
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (32 bp):
CCTTCAAAAATGATAAAAATTTAGATATTAAT
Found at i:64113003 original size:14 final size:14
Alignment explanation
Indices: 64112986--64113013 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64112976 TTAAAGTAAG
64112986 AATTAAGAACAAAT
1 AATTAAGAACAAAT
64113000 AATTAAGAACAAAT
1 AATTAAGAACAAAT
64113014 CAAGTATTTA
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:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:64114182 original size:12 final size:12
Alignment explanation
Indices: 64114165--64114189 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64114155 AACTAAATAG
64114165 AAAAATACTAAA
1 AAAAATACTAAA
64114177 AAAAATACTAAA
1 AAAAATACTAAA
64114189 A
1 A
64114190 CTGACAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATACTAAA
Found at i:64116879 original size:47 final size:47
Alignment explanation
Indices: 64116820--64116957 Score: 204
Period size: 47 Copynumber: 2.9 Consensus size: 47
64116810 TAGTATGGCG
64116820 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
64116867 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
64116914 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
64116958 TCCCGAAGGG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:64117132 original size:37 final size:37
Alignment explanation
Indices: 64117076--64117154 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
64117066 CCGACCTCTA
* * *
64117076 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
64117113 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
64117150 AAGAC
1 AAGAC
64117155 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:64118904 original size:7 final size:6
Alignment explanation
Indices: 64118856--64118923 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
64118846 TATTAAAGAG
** * * * *
64118856 AAAT-A AAATAA AAAT-A ATTTAA AAAGAT AAATAA AGATAA AAGTAAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA
64118903 AAATAA AAATAA TAAATAA AA
1 AAATAA AAATAA -AAATAA AA
64118924 GTCTTCAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
5 7 0.15
6 29 0.62
7 11 0.23
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:64118910 original size:13 final size:13
Alignment explanation
Indices: 64118892--64118925 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
64118882 ATAAATAAAG
64118892 ATAAAAGTAAAAA
1 ATAAAAGTAAAAA
* *
64118905 ATAAAAATAATAA
1 ATAAAAGTAAAAA
64118918 ATAAAAGT
1 ATAAAAGT
64118926 CTTCAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (13 bp):
ATAAAAGTAAAAA
Found at i:64120243 original size:29 final size:30
Alignment explanation
Indices: 64120211--64120267 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
64120201 ACCATGAATA
* *
64120211 TAATTAAACTAACAA-ATTCAACCAAAAAC
1 TAATGAAACTAACAAGACTCAACCAAAAAC
64120240 TAATGAAACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAGACTCAACCAAAA
64120268 GTAATCGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.18
Consensus pattern (30 bp):
TAATGAAACTAACAAGACTCAACCAAAAAC
Found at i:64130898 original size:25 final size:25
Alignment explanation
Indices: 64130860--64130911 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
64130850 AAATTTTGAG
*
64130860 TTAAATTATGCAATTGGTCCTCGTA
1 TTAAATTATACAATTGGTCCTCGTA
64130885 TTAAATTATACAATTGGTCCTCGTA
1 TTAAATTATACAATTGGTCCTCGTA
64130910 TT
1 TT
64130912 TTTTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (25 bp):
TTAAATTATACAATTGGTCCTCGTA
Found at i:64132050 original size:33 final size:33
Alignment explanation
Indices: 64131966--64132050 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
64131956 TAGTTTTAAC
** *
64131966 AAATGAAAAATATAG-AAAAATTACGTTGAAAG
1 AAATGAAAAATGGAGAAAAAATTACGTTAAAAG
* * *
64131998 AAATGAAGAAGGGATAAAAAATTACGTTAAAAG
1 AAATGAAAAATGGAGAAAAAATTACGTTAAAAG
64132031 AAATGAAAAATGGAGAAAAA
1 AAATGAAAAATGGAGAAAAA
64132051 CAGAAGAAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 10 0.23
33 33 0.77
ACGTcount: A:0.61, C:0.02, G:0.19, T:0.18
Consensus pattern (33 bp):
AAATGAAAAATGGAGAAAAAATTACGTTAAAAG
Found at i:64144268 original size:26 final size:26
Alignment explanation
Indices: 64144229--64144336 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
64144219 TGGTACAAAT
64144229 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
64144255 TGTTAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64144281 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64144307 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64144333 TGAT
1 TGAT
64144337 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64147326 original size:45 final size:45
Alignment explanation
Indices: 64147276--64147407 Score: 178
Period size: 45 Copynumber: 3.0 Consensus size: 45
64147266 CTTTGGGAGA
*
64147276 TAATTTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGA-TCCG
1 TAATTTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACT-CG
*
64147321 TAATTTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTGG
1 TAATTTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCG
* * ** *
64147366 T-ATCTTGAACCTACTCCACTGTAACTTCAGGGAGATAAGACT
1 TAATTTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
64147408 GGTGGCTTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
44 36 0.46
45 42 0.53
46 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
TAATTTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCG
Found at i:64147395 original size:44 final size:45
Alignment explanation
Indices: 64147287--64147410 Score: 162
Period size: 44 Copynumber: 2.8 Consensus size: 45
64147277 AATTTTCAGT
* * * **
64147287 CTACTCCACTACAACTTCAGGGAGATAAGA-TCCGTAATTTTCAGT
1 CTACTCCACTGCAACTTCAGGGAGATAAGACT-GGTAATCTTCAAC
*
64147332 CTACTCCACTGCAACTTCAGGGAGATAAGACTGGT-ATCTTGAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGACTGGTAATCTTCAAC
*
64147376 CTACTCCACTGTAACTTCAGGGAGATAAGACTGGT
1 CTACTCCACTGCAACTTCAGGGAGATAAGACTGGT
64147411 GGCTTAAATC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
44 39 0.55
45 31 0.44
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (45 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGACTGGTAATCTTCAAC
Found at i:64147537 original size:177 final size:178
Alignment explanation
Indices: 64147290--64148034 Score: 935
Period size: 177 Copynumber: 4.2 Consensus size: 178
64147280 TTTCAGTCTA
** * * * * * * * *
64147290 CTCCACTACAACTTCAGGGAGATAAGATCCGTAATTTTCAGTCTACTCCACTGCAACTTCAGGGA
1 CTCCACTACTGCTT-AGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCATTACTACCTCAGGAA
* * * * * *
64147355 GATAAGACTGGTATCTTGAACCTACTC-CACTG-TAACTTCAGGGAGATAAGACTGGTGGCTTAA
65 GATAAGACTTGTATCTTCAACCTACTCTC-TTGCTAACTTCAGAGAGATAAGGCTGGTGGCTAAA
* * * *
64147418 ATCCATTCCATTGCCGATACATGGAGATAAGATCCGTCGTCTTCGATCTG
129 ATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCGATCTG
* * * *
64147468 CTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAGTCTGTTTCATTGCTACCTCAGAAAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCATTACTACCTCAGGAAG
* * * *
64147533 ATAAGACTTGTATCTTCAACCTGCTCTCTTGCTATC-TCAGAGAGATAGGGCTAGTGGCTAAAAT
66 ATAAGACTTGTATCTTCAACCTACTCTCTTGCTAACTTCAGAGAGATAAGGCTGGTGGCTAAAAT
* * * * *
64147597 ATGCTTCATTGTCGATACATGGAGATAAGATTTGCCGTCTTCGATCTG
131 CTACTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCGATCTG
* * *
64147645 CTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTTC-TTACTACCTTAGGAA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGC-TTCATTACTACCTCAGGAA
* *
64147709 GATAAGACTTGTATCTTCAACCTACTCTCTTGCT-ACATCAGAGAAATAAGGCTGGTGGCTAAAA
65 GATAAGACTTGTATCTTCAACCTACTCTCTTGCTAACTTCAGAGAGATAAGGCTGGTGGCTAAAA
* * *
64147773 TCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTG
130 TCTACTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCGATCTG
* * ** * *
64147822 CTTCACTATTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTTCCTTACTACCTTAGGAAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCATTACTACCTCAGGAAG
* *
64147887 ATAAGACTTGTATCTTCAACCTACTCTCTTGCTACCTT-AGAGAGATAAGGTTGGTGGCTAAAAT
66 ATAAGACTTGTATCTTCAACCTACTCTCTTGCTAACTTCAGAGAGATAAGGCTGGTGGCTAAAAT
* * *
64147951 CTGCTCCATTGCCGATACATGGAGATAAGATTCGTCGTCTTCGATATG
131 CTACTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCGATCTG
*
64147999 CTCCACTACTACTTAGGGAGATAAGATCTGTGAATT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGT-AATT
64148035 CACCGAGGTC
Statistics
Matches: 496, Mismatches: 64, Indels: 14
0.86 0.11 0.02
Matches are distributed among these distances:
176 4 0.01
177 467 0.94
178 25 0.05
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (178 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCATTACTACCTCAGGAAG
ATAAGACTTGTATCTTCAACCTACTCTCTTGCTAACTTCAGAGAGATAAGGCTGGTGGCTAAAAT
CTACTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCGATCTG
Found at i:64152646 original size:21 final size:20
Alignment explanation
Indices: 64152612--64152654 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
64152602 AAATGAAATG
*
64152612 CAAGAAAAAGAATATTTTCT
1 CAAGAAAAAGAATATTTGCT
*
64152632 CAAGACAAAATAATATTTGCT
1 CAAGA-AAAAGAATATTTGCT
64152653 CA
1 CA
64152655 GAATAAGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (20 bp):
CAAGAAAAAGAATATTTGCT
Found at i:64161912 original size:12 final size:12
Alignment explanation
Indices: 64161895--64161920 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64161885 ATATACCTAT
64161895 TAGTAATAATAA
1 TAGTAATAATAA
64161907 TAGTAATAATAA
1 TAGTAATAATAA
64161919 TA
1 TA
64161921 AAAAACATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAGTAATAATAA
Found at i:64161962 original size:24 final size:25
Alignment explanation
Indices: 64161929--64161990 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
64161919 TAAAAAACAT
*
64161929 TACATAAATATATATTGAAAA-TAGA
1 TACAT-AATATATATTGAAAAGCAGA
* * *
64161954 TATATAATA-ATATTTAAAAGCATA
1 TACATAATATATATTGAAAAGCAGA
64161978 TACATAATATATA
1 TACATAATATATA
64161991 CATAATATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.30
24 14 0.47
25 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (25 bp):
TACATAATATATATTGAAAAGCAGA
Found at i:64162000 original size:9 final size:11
Alignment explanation
Indices: 64161975--64161999 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64161965 ATTTAAAAGC
64161975 ATATACATAAT
1 ATATACATAAT
64161986 ATATACATAAT
1 ATATACATAAT
64161997 ATA
1 ATA
64162000 CGAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATACATAAT
Found at i:64162069 original size:19 final size:18
Alignment explanation
Indices: 64162032--64162072 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
64162022 ATATTAAAAC
* *
64162032 ATATACATGACATACATA
1 ATATACATGAAAAACATA
64162050 ATATACATGATAAAACATA
1 ATATACATGA-AAAACATA
64162069 ATAT
1 ATAT
64162073 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATACATGAAAAACATA
Found at i:64162436 original size:23 final size:23
Alignment explanation
Indices: 64162381--64162428 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
64162371 ATATATTAGG
* *
64162381 AACAACAATAATAATATATATAA
1 AACAACTATAAGAATATATATAA
*
64162404 AACAACTATAAGAATTTATATAA
1 AACAACTATAAGAATATATATAA
64162427 AA
1 AA
64162429 TATATATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (23 bp):
AACAACTATAAGAATATATATAA
Found at i:64162471 original size:19 final size:19
Alignment explanation
Indices: 64162449--64162489 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
64162439 TAGTATTAAT
64162449 TAAAATAT-TTAAATAATAA
1 TAAAATATGTTAAA-AATAA
64162468 TAAAATATGTTAAAAATAA
1 TAAAATATGTTAAAAATAA
64162487 TAA
1 TAA
64162490 TACAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAATATGTTAAAAATAA
Found at i:64163587 original size:18 final size:18
Alignment explanation
Indices: 64163560--64163603 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
64163550 AGGTTAGTGG
*
64163560 GTTTTAGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
64163578 GTTTTGGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
64163596 GTTTTGGG
1 GTTTTGGG
64163604 CCCAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (18 bp):
GTTTTGGGTAGGTTATTT
Found at i:64164335 original size:44 final size:44
Alignment explanation
Indices: 64164279--64164427 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 44
64164269 GGCTTGTTAT
* *
64164279 CCTACTGTTTAGGGGGTTAAAGCTCATTATCTTCGATCTGTTTC
1 CCTACTGCTTAGGGGGTTAAAGCTCATTAACTTCGATCTGTTTC
* * * * * *
64164323 CCTACTGCTTAGGGTGAT-AAGATCTATGAACTTC-AGCTTGTTAC
1 CCTACTGCTTAGGGGGTTAAAGCTC-ATTAACTTCGATC-TGTTTC
* * **
64164367 CCTACTACTTAGGGGGTTAAAGCTCGTTGCCTTCGATCTGTTTC
1 CCTACTGCTTAGGGGGTTAAAGCTCATTAACTTCGATCTGTTTC
* *
64164411 CCTATTGCTTATGGGGT
1 CCTACTGCTTAGGGGGT
64164428 AAGATCTGTG
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
43 7 0.09
44 66 0.82
45 7 0.09
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (44 bp):
CCTACTGCTTAGGGGGTTAAAGCTCATTAACTTCGATCTGTTTC
Found at i:64164383 original size:88 final size:87
Alignment explanation
Indices: 64164270--64164439 Score: 243
Period size: 88 Copynumber: 1.9 Consensus size: 87
64164260 TGTAAATTTG
* ** *
64164270 GCTTGTTATCCTACTGTTTAGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCTTA-
1 GCTTGTTACCCTACTACTTAGGGGGTTAAAGCTCATTACCTTCGATCTGTTTCCCTACTGCTTAT
64164334 GGGTGATAAGATCTATGAACTTCA
66 GGG-G-TAAGATCTATGAACTTCA
* * *
64164358 GCTTGTTACCCTACTACTTAGGGGGTTAAAGCTCGTTGCCTTCGATCTGTTTCCCTATTGCTTAT
1 GCTTGTTACCCTACTACTTAGGGGGTTAAAGCTCATTACCTTCGATCTGTTTCCCTACTGCTTAT
*
64164423 GGGGTAAGATCTGTGAA
66 GGGGTAAGATCTATGAA
64164440 TTTACTGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
87 12 0.16
88 58 0.79
89 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (87 bp):
GCTTGTTACCCTACTACTTAGGGGGTTAAAGCTCATTACCTTCGATCTGTTTCCCTACTGCTTAT
GGGGTAAGATCTATGAACTTCA
Found at i:64175972 original size:24 final size:25
Alignment explanation
Indices: 64175939--64176000 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
64175929 AAAAAAACAT
*
64175939 TACATAAATATATATTGAAAA-TAGA
1 TACAT-AATATATATTGAAAAGCAGA
* * *
64175964 TATATAATA-ATATTTAAAAGCATA
1 TACATAATATATATTGAAAAGCAGA
64175988 TACATAATATATA
1 TACATAATATATA
64176001 CATAATATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.30
24 14 0.47
25 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (25 bp):
TACATAATATATATTGAAAAGCAGA
Found at i:64176001 original size:11 final size:11
Alignment explanation
Indices: 64175985--64176009 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64175975 ATTTAAAAGC
64175985 ATATACATAAT
1 ATATACATAAT
64175996 ATATACATAAT
1 ATATACATAAT
64176007 ATA
1 ATA
64176010 CGAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATACATAAT
Found at i:64176079 original size:19 final size:18
Alignment explanation
Indices: 64176042--64176082 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
64176032 ATATTAAAAC
* *
64176042 ATATACATGACATACATA
1 ATATACATGAAAAACATA
64176060 ATATACATGATAAAACATA
1 ATATACATGA-AAAACATA
64176079 ATAT
1 ATAT
64176083 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATACATGAAAAACATA
Found at i:64176502 original size:19 final size:20
Alignment explanation
Indices: 64176465--64176506 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
64176455 TAGTATTAAT
64176465 TAAAAATGTTTAAATAATAA
1 TAAAAATGTTTAAATAATAA
64176485 TAAAATATG-TTAAA-AATAA
1 TAAAA-ATGTTTAAATAATAA
64176504 TAA
1 TAA
64176507 TACAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAAATGTTTAAATAATAA
Found at i:64177617 original size:18 final size:18
Alignment explanation
Indices: 64177590--64177630 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
64177580 GGGTTAATGG
*
64177590 GTTTTGGGTAGGTTATTT
1 GTTTTAGGTAGGTTATTT
64177608 GTTTTAGGTAGGTTATTT
1 GTTTTAGGTAGGTTATTT
64177626 GTTTT
1 GTTTT
64177631 GGGCCCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (18 bp):
GTTTTAGGTAGGTTATTT
Found at i:64178356 original size:22 final size:23
Alignment explanation
Indices: 64178325--64178367 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
64178315 AATAATTTTT
*
64178325 TATTTGTTTT-GAATTTTTTATA
1 TATTTATTTTAGAATTTTTTATA
*
64178347 TATTTATTTTAGAGTTTTTTA
1 TATTTATTTTAGAATTTTTTA
64178368 AAGGTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
TATTTATTTTAGAATTTTTTATA
Found at i:64179729 original size:15 final size:15
Alignment explanation
Indices: 64179692--64179732 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
64179682 TTAATTTTTT
64179692 TATACTAATAAATAA
1 TATACTAATAAATAA
*
64179707 TA-AGTAATGAAATAA
1 TATACTAAT-AAATAA
64179722 TATA-TAATAAA
1 TATACTAATAAA
64179733 AGGAAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.35
15 14 0.61
16 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (15 bp):
TATACTAATAAATAA
Found at i:64179978 original size:13 final size:13
Alignment explanation
Indices: 64179953--64179986 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
64179943 TAAAATATAT
64179953 AATGTAT-AATAA
1 AATGTATAAATAA
*
64179965 AATTTATAAATAA
1 AATGTATAAATAA
64179978 AATGTATAA
1 AATGTATAA
64179987 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:64179988 original size:12 final size:12
Alignment explanation
Indices: 64179953--64179989 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
64179943 TAAAATATAT
64179953 AATGTATAATAA
1 AATGTATAATAA
*
64179965 AATTTATAAATAA
1 AATGTAT-AATAA
64179978 AATGTATAATAA
1 AATGTATAATAA
64179990 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:64179998 original size:25 final size:24
Alignment explanation
Indices: 64179945--64180012 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
64179935 ATATGTAGTA
*
64179945 AAAT-ATATAATGTATAATAAAAT
1 AAATAATAAAATGTATAATAAAAT
**
64179968 TTATAAATAAAATGTATAATAATAA-
1 AAAT-AATAAAATGTATAATAA-AAT
* *
64179993 AAATAATATAATGAATAATA
1 AAATAATAAAATGTATAATA
64180013 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 17 0.49
26 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAATAAAATGTATAATAAAAT
Found at i:64180009 original size:12 final size:12
Alignment explanation
Indices: 64179949--64180013 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
64179939 GTAGTAAAAT
64179949 ATATAATGTATA
1 ATATAATGTATA
* *
64179961 ATAAAATTTATAA
1 ATATAATGTAT-A
*
64179974 ATAAAATGTATA
1 ATATAATGTATA
**
64179986 ATAATAA-AAATA
1 AT-ATAATGTATA
*
64179998 ATATAATGAATA
1 ATATAATGTATA
64180010 ATAT
1 ATAT
64180014 TTAAATAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 4 0.09
12 25 0.58
13 14 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
ATATAATGTATA
Found at i:64181703 original size:44 final size:44
Alignment explanation
Indices: 64181656--64182120 Score: 599
Period size: 44 Copynumber: 10.6 Consensus size: 44
64181646 AAACTCAAGA
* * *
64181656 ACGCCAAATCTATTATCCTCGATCTGCTCTCTGACAATACAGAA
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
64181700 ACGCCAAATCTGCTATTTTCAATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * *
64181744 ACGCCAAACCCGCTATTTTCGATCTGCTCTCTGACAATACAAAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
64181788 ACGCCAAATCAGCTATCTTTGATCTGCTCTCTGACAATATAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * *
64181832 ACACCAGATCTGTTATCTTCAATCTGCTCTTTGATAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
64181876 ATGCCAAATCTGTCATCTTCGATCTGCTTTCT-ATCAATACAAAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGA-CAATACAGAG
* * * *
64181920 ACGCCAAATCTATTATCTTCGATCTACTCTCTGTCAATACAAAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
*
64181964 ACGCCAAATATGTTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
64182008 ACTCCAAATCTGCTATCTTCGATCTGCTCTCTGAAAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
64182052 ATGCCAAATCTGTTCTCTTCGATCTGCTCTTTGACAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
64182096 ACGCCAAATCTGTTATCTTCGATCT
1 ACGCCAAATCTGTTATCTTCGATCT
64182121 ACATTGTCTC
Statistics
Matches: 362, Mismatches: 57, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
43 1 0.00
44 361 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (44 bp):
ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:64194048 original size:15 final size:15
Alignment explanation
Indices: 64194011--64194051 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
64194001 TTAATTTTTT
64194011 TATACTAATAAATAA
1 TATACTAATAAATAA
*
64194026 TA-AGTAATGAAATAA
1 TATACTAAT-AAATAA
64194041 TATA-TAATAAA
1 TATACTAATAAA
64194052 AGGAAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.35
15 14 0.61
16 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (15 bp):
TATACTAATAAATAA
Found at i:64194155 original size:39 final size:37
Alignment explanation
Indices: 64194057--64194155 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 37
64194047 ATAAAAGGAA
* *
64194057 GATAATATAAGGAATAATATATAATAATATATGATATGT
1 GATAA-ATAAGG-ATAATATATAATAATATATAATATAT
**
64194096 GATAAA-AAATATAATAATATAATAATATGATAACTATCAT
1 GATAAATAAGGATAAT-ATATAATAATAT-ATAA-TAT-AT
64194136 -ATAAATAAGGATAATATATA
1 GATAAATAAGGATAATATATA
64194156 TACTATTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
36 5 0.10
37 14 0.29
38 4 0.08
39 18 0.37
40 8 0.16
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (37 bp):
GATAAATAAGGATAATATATAATAATATATAATATAT
Found at i:64194606 original size:26 final size:26
Alignment explanation
Indices: 64194577--64194736 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
64194567 TGGTACAAAT
64194577 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64194603 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64194629 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
64194655 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64194681 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64194707 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64194733 TGAT
1 TGAT
64194737 GGGCATTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64194639 original size:52 final size:52
Alignment explanation
Indices: 64194577--64194736 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
64194567 TGGTACAAAT
64194577 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
64194629 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
64194681 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
64194733 TGAT
1 TGAT
64194737 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:64200711 original size:15 final size:15
Alignment explanation
Indices: 64200674--64200714 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
64200664 TTTAATTTTT
64200674 TATACTAATAAATAA
1 TATACTAATAAATAA
*
64200689 TA-AGTAATGAAATAA
1 TATACTAAT-AAATAA
64200704 TATA-TAATAAA
1 TATACTAATAAA
64200715 AGGAAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.35
15 14 0.61
16 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (15 bp):
TATACTAATAAATAA
Found at i:64200818 original size:39 final size:37
Alignment explanation
Indices: 64200720--64200818 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 37
64200710 ATAAAAGGAA
* *
64200720 GATAATATAAGGAATAATATATAATAATATATGATATGT
1 GATAA-ATAAGG-ATAATATATAATAATATATAATATAT
**
64200759 GATAAA-AAATATAATAATATAATAATATGATAACTATCAT
1 GATAAATAAGGATAAT-ATATAATAATAT-ATAA-TAT-AT
64200799 -ATAAATAAGGATAATATATA
1 GATAAATAAGGATAATATATA
64200819 TACTATTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
36 5 0.10
37 14 0.29
38 4 0.08
39 18 0.37
40 8 0.16
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (37 bp):
GATAAATAAGGATAATATATAATAATATATAATATAT
Found at i:64200969 original size:13 final size:13
Alignment explanation
Indices: 64200944--64200977 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
64200934 TAAAATATAT
64200944 AATGTAT-AATAA
1 AATGTATAAATAA
*
64200956 AATTTATAAATAA
1 AATGTATAAATAA
64200969 AATGTATAA
1 AATGTATAA
64200978 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:64200979 original size:12 final size:12
Alignment explanation
Indices: 64200944--64200980 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
64200934 TAAAATATAT
64200944 AATGTATAATAA
1 AATGTATAATAA
*
64200956 AATTTATAAATAA
1 AATGTAT-AATAA
64200969 AATGTATAATAA
1 AATGTATAATAA
64200981 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:64200989 original size:25 final size:24
Alignment explanation
Indices: 64200936--64201003 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
64200926 ATATGTAGTA
*
64200936 AAAT-ATATAATGTATAATAAAAT
1 AAATAATAAAATGTATAATAAAAT
**
64200959 TTATAAATAAAATGTATAATAATAA-
1 AAAT-AATAAAATGTATAATAA-AAT
* *
64200984 AAATAATATAATGAATAATA
1 AAATAATAAAATGTATAATA
64201004 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 17 0.49
26 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAATAAAATGTATAATAAAAT
Found at i:64201000 original size:12 final size:12
Alignment explanation
Indices: 64200940--64201004 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
64200930 GTAGTAAAAT
64200940 ATATAATGTATA
1 ATATAATGTATA
* *
64200952 ATAAAATTTATAA
1 ATATAATGTAT-A
*
64200965 ATAAAATGTATA
1 ATATAATGTATA
**
64200977 ATAATAA-AAATA
1 AT-ATAATGTATA
*
64200989 ATATAATGAATA
1 ATATAATGTATA
64201001 ATAT
1 ATAT
64201005 TTAAATAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 4 0.09
12 25 0.58
13 14 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
ATATAATGTATA
Found at i:64202581 original size:2 final size:2
Alignment explanation
Indices: 64202576--64202613 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
64202566 AAATTAAGTA
64202576 AT AT AT 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 AT AT AT
64202614 GAGAAGGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64206016 original size:43 final size:43
Alignment explanation
Indices: 64205969--64206055 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
64205959 AAGAAAGATA
64205969 CAAAGTTTGCGTTAAATAATATAATTAGAACCAAAATACCCAT
1 CAAAGTTTGCGTTAAATAATATAATTAGAACCAAAATACCCAT
64206012 CAAAGTTTGCGTTAAATAATATAATTAGAACCAAAATACCCAT
1 CAAAGTTTGCGTTAAATAATATAATTAGAACCAAAATACCCAT
64206055 C
1 C
64206056 CAACCTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (43 bp):
CAAAGTTTGCGTTAAATAATATAATTAGAACCAAAATACCCAT
Found at i:64206065 original size:38 final size:39
Alignment explanation
Indices: 64205980--64206065 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 39
64205970 AAAGTTTGCG
*
64205980 TTAAATAATATAATTAGAACCAAAATACCCATCAAAGTTTGCG
1 TTAAATAATATAATTAGAACCAAAATACCCATCAAA---T-CC
*
64206023 TTAAATAATATAATTAGAACCAAAATACCCATCCAA-CC
1 TTAAATAATATAATTAGAACCAAAATACCCATCAAATCC
64206061 TTAAA
1 TTAAA
64206066 GGTTGGCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
38 6 0.15
43 35 0.85
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.27
Consensus pattern (39 bp):
TTAAATAATATAATTAGAACCAAAATACCCATCAAATCC
Found at i:64206975 original size:37 final size:37
Alignment explanation
Indices: 64206916--64206987 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
64206906 TTCTCAACAA
*
64206916 ATATTCAGAAGTAGCTTCCTTTGAGTATCAATTTCTC
1 ATATTCAGAAGTAACTTCCTTTGAGTATCAATTTCTC
*
64206953 ATATTCAGAAGTAAC-TCACTTTGAGTATTAATTTC
1 ATATTCAGAAGTAACTTC-CTTTGAGTATCAATTTC
64206988 CCATTCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (37 bp):
ATATTCAGAAGTAACTTCCTTTGAGTATCAATTTCTC
Found at i:64207498 original size:11 final size:12
Alignment explanation
Indices: 64207472--64207496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64207462 ATTGATGTAA
64207472 TTAAAAAATATT
1 TTAAAAAATATT
64207484 TTAAAAAATATT
1 TTAAAAAATATT
64207496 T
1 T
64207497 AACTAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:64207985 original size:10 final size:10
Alignment explanation
Indices: 64207972--64207996 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
64207962 CAAAATGCGT
64207972 AAAAAAAAGA
1 AAAAAAAAGA
64207982 AAAAAAAAGA
1 AAAAAAAAGA
64207992 AAAAA
1 AAAAA
64207997 GAAAAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:64209066 original size:25 final size:25
Alignment explanation
Indices: 64209032--64209083 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
64209022 CAGGTTCGAG
64209032 AGTCAGTTACGTACGAGGAAGGGTT
1 AGTCAGTTACGTACGAGGAAGGGTT
64209057 AGTCAGTTACGTACGAGGAAGGGTT
1 AGTCAGTTACGTACGAGGAAGGGTT
64209082 AG
1 AG
64209084 CACCCTCGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.23
Consensus pattern (25 bp):
AGTCAGTTACGTACGAGGAAGGGTT
Found at i:64209889 original size:16 final size:16
Alignment explanation
Indices: 64209861--64209898 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64209851 ATAAGGAAAT
*
64209861 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
64209876 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
64209892 TAAAAAT
1 TATAAAT
64209899 AAAGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:64210187 original size:21 final size:20
Alignment explanation
Indices: 64210162--64210227 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
64210152 TAATAAAATT
64210162 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
*
64210183 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
64210206 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
64210224 TATA
1 TATA
64210228 GTAAAATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.18
19 5 0.13
21 10 0.26
22 2 0.05
23 7 0.18
24 8 0.21
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:64210263 original size:10 final size:10
Alignment explanation
Indices: 64210171--64210283 Score: 63
Period size: 10 Copynumber: 10.6 Consensus size: 10
64210161 TTATAAACAA
64210171 AATATATAAT
1 AATATATAAT
* *
64210181 GATATA-AAC
1 AATATATAAT
64210190 AATATGATAGAT
1 AATAT-ATA-AT
64210202 AATATATAA-
1 AATATATAAT
64210211 AATA-ATATAT
1 AATATATA-AT
64210221 ATATATAGTAA-
1 A-ATATA-TAAT
*
64210232 AATGTATGTAATAT
1 AA--TATAT-A-AT
64210246 AATATATAAT
1 AATATATAAT
*
64210256 AATGTATAAT
1 AATATATAAT
64210266 AATATAATAAAT
1 AATAT-AT-AAT
64210278 AATATA
1 AATATA
64210284 CAGATATAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
8 3 0.04
9 11 0.14
10 24 0.30
11 13 0.16
12 24 0.30
13 3 0.04
14 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:64210268 original size:25 final size:25
Alignment explanation
Indices: 64210212--64210281 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
64210202 AATATATAAA
64210212 ATAAT-ATATATATATAGTAA-AATGT
1 ATAATAATATA-ATATA-TAATAATGT
*
64210237 AT-GTAATATAATATATAATAATGT
1 ATAATAATATAATATATAATAATGT
*
64210261 ATAATAATATAATAAATAATA
1 ATAATAATATAATATATAATA
64210282 TACAGATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 3 0.08
24 13 0.33
25 23 0.59
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
ATAATAATATAATATATAATAATGT
Found at i:64210906 original size:17 final size:17
Alignment explanation
Indices: 64210884--64210926 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
64210874 AGGCCACTAG
64210884 GCTGCACGCCCACATGC
1 GCTGCACGCCCACATGC
*
64210901 GCTGCACGCGCACATGC
1 GCTGCACGCCCACATGC
*
64210918 GCCGCACGC
1 GCTGCACGC
64210927 GCTGTCGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.16, C:0.47, G:0.28, T:0.09
Consensus pattern (17 bp):
GCTGCACGCCCACATGC
Found at i:64213336 original size:27 final size:28
Alignment explanation
Indices: 64213252--64213349 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
64213242 CATGAGATTG
* * * * *
64213252 GCACTAAGTTTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64213281 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64213309 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64213336 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64213350 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.35
29 17 0.27
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64213363 original size:29 final size:27
Alignment explanation
Indices: 64213280--64213363 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64213270 TAAATTGTAC
* *
64213280 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
64213308 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
64213335 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
64213364 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:64215472 original size:44 final size:44
Alignment explanation
Indices: 64215387--64216205 Score: 969
Period size: 44 Copynumber: 18.6 Consensus size: 44
64215377 CACCCTGCCT
* * *
64215387 AATACAGAGACGCCAAAT-TCGCTACCCTCGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCT-GCTATCTTCGATCTGCTCTCTGAC
* ** * * * *
64215431 AATATAGAGGTGCTAAATCTACCATCTTCGACCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
64215475 AATATAGAGATGCCAAATCTGCTATCTTCGATTTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
64215519 AATATAGAGACGCC-AATCCTACTATCTTCGATCTGCTCTTTTAC
1 AATACAGAGACGCCAAAT-CTGCTATCTTCGATCTGCTCTCTGAC
* * * *
64215563 AATATAGAGACGCCAAATCTACTCTCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
64215607 AATACAGTGACACAAAATCTGCTATTTTCGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
64215651 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
64215695 AATACAGGGACGCCAAATCTACTACCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
64215739 AATACAGGGACGCCAAATCTGTTATCTTCGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
64215783 AATACAGAAACGCCAAATCTGCTAATCTTCGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGAC
* * * *
64215828 AATACAGAGAAGCCAAATCTACTATCTTTGATATGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
64215872 AATACAGTGACGCCAAATCTACTATCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * * *
64215916 AATACA-AGGACGCTAAATCTGCTATCTACTATATGCTATTTGAC
1 AATACAGA-GACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
64215960 AATATAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
64216004 AATACAGAGACGCCAAATCTGCTATCTACTATCTGCTATTTGAA
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
64216048 AATACAAAGATGCCAAATCTGCTATCTTCGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
64216092 AATACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
64216136 AATACAAAGACGCCAAATCTGCCATCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
64216180 AATACAGAGACGCTAAATCGGCTATC
1 AATACAGAGACGCCAAATCTGCTATC
64216206 GGTGATCTAC
Statistics
Matches: 663, Mismatches: 106, Indels: 12
0.85 0.14 0.02
Matches are distributed among these distances:
43 3 0.00
44 614 0.93
45 46 0.07
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
Found at i:64226766 original size:16 final size:16
Alignment explanation
Indices: 64226738--64226775 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64226728 ATAAGCAAAT
*
64226738 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
64226753 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
64226769 TAAAAAT
1 TATAAAT
64226776 AAAGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:64227062 original size:21 final size:20
Alignment explanation
Indices: 64227038--64227106 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
64227028 TAATAAAATT
64227038 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
*
64227059 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
64227082 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
64227100 TAGTAAA
1 TA-TAAA
64227107 ATGTATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
21 10 0.24
22 2 0.05
23 7 0.17
24 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:64227137 original size:10 final size:10
Alignment explanation
Indices: 64227047--64227157 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
64227037 TTATAAACAA
64227047 AATATATAAT
1 AATATATAAT
* *
64227057 GATATA-AAC
1 AATATATAAT
64227066 AATATGATAGAT
1 AATAT-ATA-AT
64227078 AATATATAA-
1 AATATATAAT
64227087 AATA-AT-AT
1 AATATATAAT
64227095 ATATATAGTAA-
1 A-ATATA-TAAT
*
64227106 AATGTATGTAATAT
1 AA--TATAT-A-AT
64227120 AATATATAAT
1 AATATATAAT
*
64227130 AATGTATAAT
1 AATATATAAT
64227140 AATATAATAAAT
1 AATAT-AT-AAT
64227152 AATATA
1 AATATA
64227158 CAAATATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 13 0.17
10 24 0.31
11 11 0.14
12 23 0.29
13 1 0.01
14 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:64227157 original size:20 final size:19
Alignment explanation
Indices: 64227114--64227166 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
64227104 AAAATGTATG
64227114 TAATATAAT-ATATAATAA
1 TAATATAATAATATAATAA
*
64227132 T-GTATAATAATATAATAAA
1 TAATATAATAATATAAT-AA
64227151 TAATATACA-AATATAA
1 TAATATA-ATAATATAA
64227167 ATACTATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 3 0.10
20 11 0.38
21 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TAATATAATAATATAATAA
Found at i:64230549 original size:47 final size:47
Alignment explanation
Indices: 64230472--64230601 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 47
64230462 GTGCGAATAA
* * * *** *
64230472 TACCTTGATTCT-GCTATGGGCCATGATATAGGTATTTTGAGAGGAGC
1 TACCTTGATT-TGGCTACGGGCCATGGTATAGGTACTCCAAGAGAAGC
** * *
64230519 TACCTTGATTTGGCTACGGGTTATGGTATAGGTACTCCAAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGAGAAGC
*
64230566 TACCTTGATTTGCCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
64230602 TATCGATTGT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
46 1 0.01
47 67 0.99
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGAGAAGC
Found at i:64234560 original size:49 final size:49
Alignment explanation
Indices: 64234461--64234560 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
64234451 GTATTTTATT
* * * * *
64234461 TTAGAATAAGGTTTTTCAACTTTATTACACTTCATCTATTTAATATTGA
1 TTAGAATAAGGTGTTTCAACCTCACTACACTTCATCTATTGAATATTGA
64234510 TTAGAATAAGGTGTTTCAACCTCACTACAC-TCATTCTATTAGAATA-TGA
1 TTAGAATAAGGTGTTTCAACCTCACTACACTTCA-TCTATT-GAATATTGA
64234559 TT
1 TT
64234561 TTACAAGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 3 0.07
49 37 0.84
50 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (49 bp):
TTAGAATAAGGTGTTTCAACCTCACTACACTTCATCTATTGAATATTGA
Found at i:64240313 original size:31 final size:31
Alignment explanation
Indices: 64240254--64240318 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
64240244 GTACAAAATC
*
64240254 AAAGTTCATGCATAATATTTAAATTAAA-CA
1 AAAGCTCATGCATAATATTTAAATTAAACCA
*
64240284 AAAGCTCATGTATAATA-TTACGAATTAAACCA
1 AAAGCTCATGCATAATATTTA--AATTAAACCA
64240316 AAA
1 AAA
64240319 TTCATGTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.10
30 15 0.50
31 7 0.23
32 5 0.17
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (31 bp):
AAAGCTCATGCATAATATTTAAATTAAACCA
Found at i:64240324 original size:31 final size:29
Alignment explanation
Indices: 64240253--64240325 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
64240243 TGTACAAAAT
* *
64240253 CAAAGTTCATGCATAATATTTAAATTAAA
1 CAAAATTCATGTATAATATTTAAATTAAA
*
64240282 CAAAAGCTCATGTATAATA-TTACGAATTAAA
1 CAAAA-TTCATGTATAATATTTA--AATTAAA
64240313 CCAAAATTCATGT
1 -CAAAATTCATGT
64240326 GCAATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 7 0.19
30 11 0.31
31 13 0.36
32 5 0.14
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (29 bp):
CAAAATTCATGTATAATATTTAAATTAAA
Found at i:64245415 original size:15 final size:15
Alignment explanation
Indices: 64245390--64245428 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
64245380 TCAAACTTCT
64245390 TTGTT-TTTGTTTTG
1 TTGTTGTTTGTTTTG
*
64245404 TTGTTGTTTGTTTTT
1 TTGTTGTTTGTTTTG
64245419 TTGTTTGTTT
1 TTG-TTGTTT
64245429 TCTCTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 11 0.50
16 6 0.27
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (15 bp):
TTGTTGTTTGTTTTG
Found at i:64247468 original size:43 final size:43
Alignment explanation
Indices: 64247384--64247469 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
64247374 GATATATGTG
* *
64247384 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGAATGCGA
* *
64247427 GCATCCGAGCTCGTTGAGTGGTCTGAGTTCCTAATGAATGCGA
1 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGAATGCGA
64247470 TACATGTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGAATGCGA
Found at i:64249974 original size:38 final size:38
Alignment explanation
Indices: 64249867--64249983 Score: 119
Period size: 38 Copynumber: 3.1 Consensus size: 38
64249857 AATGTAATGT
* * ***
64249867 TATTAGGGCTATGTGCCTAGTAGGCTTTGTATTGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
64249905 TATTCAGGTTGTGTGCCTAGCAGGCTATGTGCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
64249943 TGTTTGGGCTATGTGCCTAGCAGGCTTTGTGCCAGTG-
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
64249980 TATT
1 TATT
64249984 GAAATTTTAC
Statistics
Matches: 62, Mismatches: 17, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
37 3 0.05
38 59 0.95
ACGTcount: A:0.15, C:0.15, G:0.32, T:0.37
Consensus pattern (38 bp):
TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:64255253 original size:35 final size:35
Alignment explanation
Indices: 64255207--64255277 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
64255197 TATATATGTA
*
64255207 TGAATTTAGTATCTAGTAAGACTTTGCCTGTAGAG
1 TGAATTTAGTATCTAGTAAGACTTTGACTGTAGAG
64255242 TGAATTTAGTATCTAGTAAGACTTTGACTGTAGAG
1 TGAATTTAGTATCTAGTAAGACTTTGACTGTAGAG
64255277 T
1 T
64255278 CTACTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (35 bp):
TGAATTTAGTATCTAGTAAGACTTTGACTGTAGAG
Found at i:64262053 original size:18 final size:19
Alignment explanation
Indices: 64262017--64262054 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
64262007 ACTCATTTCT
* *
64262017 TAATTAATTATTTTGACTG
1 TAATTAATTATCTTAACTG
64262036 TAATT-ATTATCTTAACTG
1 TAATTAATTATCTTAACTG
64262054 T
1 T
64262055 TCTCTTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (19 bp):
TAATTAATTATCTTAACTG
Found at i:64262761 original size:24 final size:24
Alignment explanation
Indices: 64262734--64262781 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
64262724 GTAGTCGGTG
64262734 TAAGAAAGCCCCTTTTAACCTAGA
1 TAAGAAAGCCCCTTTTAACCTAGA
*
64262758 TAAGAAAGCCCCTTTTAGCCTAGA
1 TAAGAAAGCCCCTTTTAACCTAGA
64262782 CAAAGTGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (24 bp):
TAAGAAAGCCCCTTTTAACCTAGA
Found at i:64265983 original size:43 final size:43
Alignment explanation
Indices: 64265934--64266104 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
64265924 GATTACCGAG
*
64265934 ATGTGATTACATGTAAGACCATGTCTAGGACAGCGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCT-GGACAGTGGCATTGTAT
** *
64265978 -TGTGATTATGTGTAAGACCATGTCTGGGACATTGGC-TTCGT-T
1 ATGTGATTACATGTAAGACCATGTCT-GGACAGTGGCATT-GTAT
* * * * *
64266020 ATATGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTG-GACAGTGGCATTGTAT
* * * *
64266063 ATGTGATAACATGTAAGACTATATCTGGGATA-TGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCT-GGACAGTGGCATTGTA
64266105 CAAGCTTTAT
Statistics
Matches: 100, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
42 11 0.11
43 87 0.87
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGACAGTGGCATTGTAT
Found at i:64266811 original size:22 final size:24
Alignment explanation
Indices: 64266764--64266811 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
64266754 ATGGTATGTT
* *
64266764 ATGGTTTGATTTTGAGATGATGAA
1 ATGGTATGATTTTGAGATCATGAA
64266788 ATGGTATG-TTTTGAGA-CATGAA
1 ATGGTATGATTTTGAGATCATGAA
64266810 AT
1 AT
64266812 AGATGATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.31, C:0.02, G:0.27, T:0.40
Consensus pattern (24 bp):
ATGGTATGATTTTGAGATCATGAA
Found at i:64269838 original size:40 final size:40
Alignment explanation
Indices: 64269779--64270003 Score: 312
Period size: 40 Copynumber: 5.7 Consensus size: 40
64269769 GGATATAACC
* * * * *
64269779 ACTCGCAC-AAGGCCGTCGGGTCTTAACCC-GAATATAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
64269818 ACTAGCGCAAATGCCTTCGGGACTTAGCCC-GAATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
64269858 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
64269898 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
64269938 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
64269978 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
64270004 ATCCCGTTAG
Statistics
Matches: 171, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 6 0.04
40 161 0.94
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:64272742 original size:16 final size:17
Alignment explanation
Indices: 64272710--64272743 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
64272700 TGGGATAGTG
64272710 TTTGTTTAATGTTTATT
1 TTTGTTTAATGTTTATT
*
64272727 TTTGTTT-ATTTTTATT
1 TTTGTTTAATGTTTATT
64272743 T
1 T
64272744 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTGTTTAATGTTTATT
Found at i:64274528 original size:17 final size:18
Alignment explanation
Indices: 64274506--64274540 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
64274496 ATTTAGACTG
64274506 TGTGGGCC-ACAAGGGTA
1 TGTGGGCCTACAAGGGTA
*
64274523 TGTGGGCCTACATGGGTA
1 TGTGGGCCTACAAGGGTA
64274541 GGCCATAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (18 bp):
TGTGGGCCTACAAGGGTA
Found at i:64275320 original size:18 final size:17
Alignment explanation
Indices: 64275285--64275320 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64275275 CAAACTGGGC
*
64275285 CGTGTGGGCCATATGGG
1 CGTGTGGGCCATACGGG
64275302 CGTGTGGGCCTATACGGG
1 CGTGTGGGCC-ATACGGG
64275320 C
1 C
64275321 AGGCCATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.22, G:0.44, T:0.22
Consensus pattern (17 bp):
CGTGTGGGCCATACGGG
Found at i:64280376 original size:20 final size:20
Alignment explanation
Indices: 64280351--64280388 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64280341 GTCACATATA
64280351 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
64280371 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
64280389 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:64284714 original size:18 final size:18
Alignment explanation
Indices: 64284693--64284727 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
64284683 TCTGTTTGAG
64284693 TTTTT-ATTATTATTATTA
1 TTTTTAATT-TTATTATTA
64284711 TTTTTAATTTTATTATT
1 TTTTTAATTTTATTATT
64284728 TCAGAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTTATTATTA
Found at i:64290976 original size:131 final size:131
Alignment explanation
Indices: 64290772--64291045 Score: 311
Period size: 131 Copynumber: 2.1 Consensus size: 131
64290762 TTCGCTATTA
* * * *
64290772 TTTAAGAATCCTTTAAATCGAAGGTGATATTCGACATTTGGCAATTCGCGAGATCGTGCCCTGAC
1 TTTAAAAATTCTTTAAATCGAAGGCGATATTCGACATTTGACAATTCGCGAGATCGTGCCCTGAC
* ** *
64290837 GTGTTGGGTTGCAATCTCTCATTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGT
66 GTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATG-
64290902 CT
130 CT
* *
64290904 TTTAAAAATTCTTTAAAT-GAAGGCGATATTCGATATTTGACGATTCGC-AGAATCGTGCCCT-A
1 TTTAAAAATTCTTTAAATCGAAGGCGATATTCGACATTTGACAATTCGCGAG-ATCGTGCCCTGA
* ** * * * * * ** *
64290966 TTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCAT
65 -CGTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCAT
64291031 GCT
129 GCT
64291034 TTTAAAAATTCT
1 TTTAAAAATTCT
64291046 CCAAAACGAA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 17 0.14
131 86 0.72
132 16 0.13
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAATCGAAGGCGATATTCGACATTTGACAATTCGCGAGATCGTGCCCTGAC
GTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGC
T
Found at i:64291057 original size:131 final size:130
Alignment explanation
Indices: 64290881--64291240 Score: 447
Period size: 130 Copynumber: 2.7 Consensus size: 130
64290871 ATCGAAGGTC
** * ** * * *
64290881 CCTTTAGAATTTCACCCATGTCTTTTAAAAATTCT-TTAAATGAAGGCGATATTCGATATTTGAC
1 CCTTTAGGTTTTCACTCATG-CTTTTAAAAATTCTCCAAAACGAAGGCAATACTCGATATTT-AC
*
64290945 GATTCGCAGAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATA
64 AATTCGCAGAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATA
64291010 TT
129 TT
* *
64291012 CCTTTAGGTTTTCACTCATGCTTTTAAAAATTCTCCAAAACGAAGGCAATACTCGGTGTTTAGCA
1 CCTTTAGGTTTTCACTCATGCTTTTAAAAATTCTCCAAAACGAAGGCAATACTCGATATTTA-CA
* * * * *
64291077 ATTCG-GGAATCATGCCCTATTGTGTTGGGTTGTGATTTCTTGTTTGTTCAAAACAATCGGATAT
65 ATTCGCAGAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATAT
64291141 T
130 T
* * *
64291142 CCTTTAGGTTATCACTCATGCTTTTAAAAAATTCTCCAAAACGAAGGCAATACTCGATGTTTAGG
1 CCTTTAGGTTTTCACTCATGCTTTT-AAAAATTCTCCAAAACGAAGGCAATACTCGATATTTA-C
* *
64291207 AAATC-CGAGGAATCGTGCCCTACTGTGCTGGGTT
64 AATTCGC-A-GAATCGTGCCCTATTGTGCTGGGTT
64291241 TCGGTTTTTC
Statistics
Matches: 199, Mismatches: 24, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
130 94 0.47
131 83 0.42
133 22 0.11
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (130 bp):
CCTTTAGGTTTTCACTCATGCTTTTAAAAATTCTCCAAAACGAAGGCAATACTCGATATTTACAA
TTCGCAGAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATT
Found at i:64291109 original size:130 final size:133
Alignment explanation
Indices: 64290953--64291240 Score: 474
Period size: 130 Copynumber: 2.2 Consensus size: 133
64290943 ACGATTCGCA
64290953 GAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTA
1 GAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTA
* * * *
64291018 GGTTTTCACTCATGCTTTT-AAAAATTCTCCAAAACGAAGGCAATACTCGGTGTTTA-GCAATTC
66 GGTTATCACTCATGCTTTTAAAAAATTCTCCAAAACGAAGGCAATACTCGATGTTTAGGAAATCC
64291081 G-G
131 GAG
* * * *
64291083 GAATCATGCCCTATTGTGTTGGGTTGTGATTTCTTGTTTGTTCAAAACAATCGGATATTCCTTTA
1 GAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTA
64291148 GGTTATCACTCATGCTTTTAAAAAATTCTCCAAAACGAAGGCAATACTCGATGTTTAGGAAATCC
66 GGTTATCACTCATGCTTTTAAAAAATTCTCCAAAACGAAGGCAATACTCGATGTTTAGGAAATCC
64291213 GAG
131 GAG
*
64291216 GAATCGTGCCCTACTGTGCTGGGTT
1 GAATCGTGCCCTATTGTGCTGGGTT
64291241 TCGGTTTTTC
Statistics
Matches: 144, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
130 79 0.55
131 36 0.25
132 6 0.04
133 23 0.16
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (133 bp):
GAATCGTGCCCTATTGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTA
GGTTATCACTCATGCTTTTAAAAAATTCTCCAAAACGAAGGCAATACTCGATGTTTAGGAAATCC
GAG
Found at i:64293788 original size:15 final size:15
Alignment explanation
Indices: 64293768--64293800 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
64293758 TAATTCACGA
64293768 AAATTT-CACAAATAT
1 AAATTTACACAAA-AT
64293783 AAATTTACACAAAAT
1 AAATTTACACAAAAT
64293798 AAA
1 AAA
64293801 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTTACACAAAAT
Found at i:64305236 original size:20 final size:21
Alignment explanation
Indices: 64305196--64305237 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
64305186 GAATAATTTG
64305196 AATAAGAACATAGCTCACATA
1 AATAAGAACATAGCTCACATA
* *
64305217 AATAA-AACATAGTTCGCATA
1 AATAAGAACATAGCTCACATA
64305237 A
1 A
64305238 TAATAGCGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (21 bp):
AATAAGAACATAGCTCACATA
Found at i:64311264 original size:27 final size:27
Alignment explanation
Indices: 64311234--64311411 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
64311224 ATATTGAGCC
* *
64311234 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
64311261 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
64311288 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
64311316 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
64311343 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
64311370 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
64311397 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64311412 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Done.