Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 60 of 125
Found at i:11970487 original size:23 final size:21
Alignment explanation
Indices: 11970446--11970502 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
11970436 AAAAATATAT
11970446 ATAAATCAATAAAACAAAAAA
1 ATAAATCAATAAAACAAAAAA
*
11970467 ATAAATCAAATTAAAATAAAAAA
1 ATAAATC-AA-TAAAACAAAAAA
*
11970490 ATAAA-AAATAAAA
1 ATAAATCAATAAAA
11970503 AAATCAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 9 0.28
22 2 0.06
23 16 0.50
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (21 bp):
ATAAATCAATAAAACAAAAAA
Found at i:11970492 original size:8 final size:8
Alignment explanation
Indices: 11970479--11970534 Score: 58
Period size: 8 Copynumber: 6.4 Consensus size: 8
11970469 AAATCAAATT
11970479 AAAATAAA
1 AAAATAAA
11970487 AAAATAAA
1 AAAATAAA
*
11970495 AAATAAAAA
1 AAA-ATAAA
11970504 AATCAATCAAA
1 AA--AAT-AAA
11970515 AGAAATAAA
1 A-AAATAAA
11970524 AAAATAAA
1 AAAATAAA
11970532 AAA
1 AAA
11970535 GAAAAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 21 0.51
9 10 0.24
10 4 0.10
11 5 0.12
12 1 0.02
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:11970521 original size:37 final size:37
Alignment explanation
Indices: 11970456--11970540 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
11970446 ATAAATCAAT
11970456 AAAACAAAAAAATAAATCAAATTAAAATAAAAAAATAA
1 AAAACAAAAAAATAAATCAAA-TAAAATAAAAAAATAA
* *
11970494 AAAATAAAAAAATCAATCAAA-AGAAATAAAAAAATAA
1 AAAACAAAAAAATAAATCAAATA-AAATAAAAAAATAA
*
11970531 AAAAGAAAAA
1 AAAACAAAAA
11970541 GAAATGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 23 0.53
38 19 0.44
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (37 bp):
AAAACAAAAAAATAAATCAAATAAAATAAAAAAATAA
Found at i:11970635 original size:16 final size:16
Alignment explanation
Indices: 11970614--11970648 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11970604 GAAAACCCAA
11970614 AAAGGGTAGTCTGAAT
1 AAAGGGTAGTCTGAAT
11970630 AAAGGGTAGTCTGAAT
1 AAAGGGTAGTCTGAAT
11970646 AAA
1 AAA
11970649 AATGTGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.23
Consensus pattern (16 bp):
AAAGGGTAGTCTGAAT
Found at i:11971892 original size:35 final size:35
Alignment explanation
Indices: 11971853--11971937 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
11971843 GTTTATCTTG
11971853 GTCATCTTTATTTTTGGACCTAC-AGTGTTATCTCA
1 GTCATCTTTATTTTTGGACCTACGA-TGTTATCTCA
* * * *
11971888 GTCATCTTTATTTTTTGACTTACGATGTTGTCTCG
1 GTCATCTTTATTTTTGGACCTACGATGTTATCTCA
*
11971923 GTCATATTTATTTTT
1 GTCATCTTTATTTTT
11971938 CCAACTTGCG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 43 0.98
36 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (35 bp):
GTCATCTTTATTTTTGGACCTACGATGTTATCTCA
Found at i:11971986 original size:35 final size:35
Alignment explanation
Indices: 11971889--11972079 Score: 93
Period size: 35 Copynumber: 5.4 Consensus size: 35
11971879 GTTATCTCAG
* * * * **
11971889 TCATCTTTATTTTTTGACTTACGATGTT-GTCTCGG
1 TCATCTTTATTTTTTAACTTGCGATATTATTC-CAA
* *
11971924 TCATATTTATTTTTCCAACTTGCGATATTATTCCAA
1 TCATCTTTATTTTT-TAACTTGCGATATTATTCCAA
* * ***
11971960 TCATCTTTATTTTTTAACTTGTGATATT-GTCTTGG
1 TCATCTTTATTTTTTAACTTGCGATATTATTC-CAA
* ** * ** *
11971995 TCATCTTTATTTCCTCGACTTG-TAGGTTA-TCCTGA
1 TCATCTTTATTT-TTTAACTTGCGATATTATTCC-AA
* * *
11972030 TCATCTTTATTTTTTAACCTGCGATGTTATCCCAA
1 TCATCTTTATTTTTTAACTTGCGATATTATTCCAA
*
11972065 TCATATTTATTTTTT
1 TCATCTTTATTTTTT
11972080 TGACTTATAG
Statistics
Matches: 116, Mismatches: 32, Indels: 16
0.71 0.20 0.10
Matches are distributed among these distances:
34 7 0.06
35 75 0.65
36 32 0.28
37 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (35 bp):
TCATCTTTATTTTTTAACTTGCGATATTATTCCAA
Found at i:11972016 original size:71 final size:70
Alignment explanation
Indices: 11971889--11972047 Score: 169
Period size: 71 Copynumber: 2.3 Consensus size: 70
11971879 GTTATCTCAG
* * * *
11971889 TCATCTTTATTTTTTGACTTACGATGTTGTCTCGGTCATATTTATTTTTCCAACTTGCGATATTA
1 TCATCTTTATTTTTTAACTTACGATATTGTCTCGGTCATATTTATTTCTCCAACTTG-GAGATTA
11971954 TTCC-AA
65 -TCCTAA
** * * * * *
11971960 TCATCTTTATTTTTTAACTTGTGATATTGTCTTGGTCATCTTTATTTC-CTCGACTTGTAGGTTA
1 TCATCTTTATTTTTTAACTTACGATATTGTCTCGGTCATATTTATTTCTC-CAACTTGGAGATTA
*
11972024 TCCTGA
65 TCCTAA
11972030 TCATCTTTATTTTTTAAC
1 TCATCTTTATTTTTTAAC
11972048 CTGCGATGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
69 3 0.04
70 24 0.32
71 47 0.64
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.52
Consensus pattern (70 bp):
TCATCTTTATTTTTTAACTTACGATATTGTCTCGGTCATATTTATTTCTCCAACTTGGAGATTAT
CCTAA
Found at i:11972186 original size:107 final size:107
Alignment explanation
Indices: 11972029--11972228 Score: 233
Period size: 107 Copynumber: 1.9 Consensus size: 107
11972019 GGTTATCCTG
* **
11972029 ATCATCTTTATTTTTTAACCTGCGATGTTATCCCAATCATATTTATTTTTTTGACTTATAGTATT
1 ATCATCTTTATTTTTTAACCTGCAATGTTATCCCAATCATATTTATTTTTTCAACTTATAGTATT
* * *
11972094 ATCTTGATTATATTTGTTTTCCCAACCACTAACATTATCCCA
66 ATCCTAATCATATTTGTTTTCCCAACCACTAACATTATCCCA
* * * * * * *
11972136 ATCATCTTTATTTTTTTAACC-GATAATGTTGTCTCAGTCATCTTTA-TTTTTCAACTTGTAGTG
1 ATCATCTTTA-TTTTTTAACCTG-CAATGTTATCCCAATCATATTTATTTTTTCAACTTATAGTA
* *
11972199 TTGTCCTAATCATATTTGTTTTCCTAACCA
64 TTATCCTAATCATATTTGTTTTCCCAACCA
11972229 TTAGTGTTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
107 49 0.64
108 27 0.36
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (107 bp):
ATCATCTTTATTTTTTAACCTGCAATGTTATCCCAATCATATTTATTTTTTCAACTTATAGTATT
ATCCTAATCATATTTGTTTTCCCAACCACTAACATTATCCCA
Found at i:11972310 original size:36 final size:35
Alignment explanation
Indices: 11972270--11972365 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
11972260 ACCTGTTGTA
*
11972270 TTGTCCAAGTCATCTTTATTTTTTCGA-C-TTGCGATG
1 TTGTCCAA-TCATATTTATTTTTTCGATCGTTG-G-TG
11972306 TTGTCCCAATCATATTTATTTTTTCGATCGTTGGTG
1 TTGT-CCAATCATATTTATTTTTTCGATCGTTGGTG
* *
11972342 TTGTCTCGATCATTTTTATTTTTT
1 TTGTC-CAATCATATTTATTTTTT
11972366 AACTTGCAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 1 0.02
36 43 0.81
37 6 0.11
38 3 0.06
ACGTcount: A:0.16, C:0.17, G:0.15, T:0.53
Consensus pattern (35 bp):
TTGTCCAATCATATTTATTTTTTCGATCGTTGGTG
Found at i:11972738 original size:36 final size:35
Alignment explanation
Indices: 11972698--11972851 Score: 118
Period size: 36 Copynumber: 4.3 Consensus size: 35
11972688 CCTGGTTATT
* *
11972698 TTTATTTTTTCGACCTATAGTATTATCTCGATCATC
1 TTTATTTTTTCGACCT-TAGTATTATCTCAATCATA
* * * * *
11972734 TTTATTTTTTTGA-CTTGCGATGTTGTC-CTAGTCATA
1 TTTATTTTTTCGACCTT-AG-TATTATCTC-AATCATA
* * *
11972770 TTTATTTTCTT-AACCTTTAGTGTTATCCCAATCATA
1 TTTATTTT-TTCGACC-TTAGTATTATCTCAATCATA
*
11972806 TTTA-TTTTTGGACCTGTAGTATTATCTCAATCATA
1 TTTATTTTTTCGACCT-TAGTATTATCTCAATCATA
11972841 TTTATTTTTTC
1 TTTATTTTTTC
11972852 AACTATTTGG
Statistics
Matches: 93, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
34 4 0.04
35 31 0.33
36 51 0.55
37 5 0.05
38 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (35 bp):
TTTATTTTTTCGACCTTAGTATTATCTCAATCATA
Found at i:11972774 original size:72 final size:70
Alignment explanation
Indices: 11972589--11972814 Score: 181
Period size: 71 Copynumber: 3.2 Consensus size: 70
11972579 TATTCCAATT
* * ** * * *
11972589 ATCTTTATTTTTTTACTTGTAATGTTCTTTTAGTCATATTTGTTTTTTCGACC-ATTGGTGTTGT
1 ATCTTTATTTTTTTACTTG-GATGTTGTCCTAGTCATATTTATTTTTTCGACCTA-TAGTGTTAT
11972653 CTCGATC
64 CTCGATC
* ** * * * *
11972660 GTCTTGT-TTTTTCAACCTATGG-TGTTGTCCTGGTTATTTTTATTTTTTCGACCTATAGTATTA
1 ATCTT-TATTTTTTTA-CT-TGGATGTTGTCCTAGTCATATTTATTTTTTCGACCTATAGTGTTA
11972723 TCTCGATC
63 TCTCGATC
* *
11972731 ATCTTTATTTTTTTGACTTGCGATGTTGTCCTAGTCATATTTATTTTCTT-AACCTTTAGTGTTA
1 ATCTTTATTTTTTT-ACTTG-GATGTTGTCCTAGTCATATTTATTTT-TTCGACCTATAGTGTTA
* *
11972795 TCCCAATC
63 TCTCGATC
*
11972803 ATATTTATTTTT
1 ATCTTTATTTTT
11972815 GGACCTGTAG
Statistics
Matches: 120, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
70 3 0.03
71 59 0.49
72 54 0.45
73 4 0.03
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.54
Consensus pattern (70 bp):
ATCTTTATTTTTTTACTTGGATGTTGTCCTAGTCATATTTATTTTTTCGACCTATAGTGTTATCT
CGATC
Found at i:11972838 original size:35 final size:35
Alignment explanation
Indices: 11972765--11972849 Score: 116
Period size: 35 Copynumber: 2.4 Consensus size: 35
11972755 GTTGTCCTAG
* * *
11972765 TCATATTTATTTTCTTAACCTTTAGTGTTATCCCAA
1 TCATATTTATTTT-TGAACCTGTAGTATTATCCCAA
* *
11972801 TCATATTTATTTTTGGACCTGTAGTATTATCTCAA
1 TCATATTTATTTTTGAACCTGTAGTATTATCCCAA
11972836 TCATATTTATTTTT
1 TCATATTTATTTTT
11972850 TCAACTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 31 0.70
36 13 0.30
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (35 bp):
TCATATTTATTTTTGAACCTGTAGTATTATCCCAA
Found at i:11973004 original size:35 final size:35
Alignment explanation
Indices: 11972920--11973016 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 35
11972910 TCACCCTACG
* *
11972920 ATGTTGACCTGATCATCTTTATTTTTTCAACTTACT
1 ATGTTGACCCGATCATCTTTA-TTTTTCAACATACT
* ** *
11972956 ATATT-ATTTCGATCATCTTTATTTTTCAACATGCT
1 ATGTTGA-CCCGATCATCTTTATTTTTCAACATACT
*
11972991 GTGTTGACCCGATCATCTTTATTTTT
1 ATGTTGACCCGATCATCTTTATTTTT
11973017 TGACTTAAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
35 33 0.67
36 16 0.33
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.51
Consensus pattern (35 bp):
ATGTTGACCCGATCATCTTTATTTTTCAACATACT
Found at i:11973052 original size:71 final size:71
Alignment explanation
Indices: 11972919--11973087 Score: 168
Period size: 71 Copynumber: 2.4 Consensus size: 71
11972909 GTCACCCTAC
* ** * *
11972919 GATGTTGACCTGATCATCTTTATTTTTTCAACTTACTATATTATTTCGATCATCTTTA-TTTTTC
1 GATGTTGACCCGATCATCTTTATTTTTTCAACTTAAGATATTATTTCGATCATATTCATTTTTTC
11972983 AACATGCT
66 -ACATG-T
* * *
11972991 G-TGTTGACCCGATCATCTTTATTTTTT-GACTTAAGATTTTGA-TTCGGTCATATTCATTTTTT
1 GATGTTGACCCGATCATCTTTATTTTTTCAACTTAAGATATT-ATTTCGATCATATTCA-TTTTT
*
11973053 TCACTTGT
64 TCACATGT
*
11973061 GATGTTG-TCCGAGTCATCTTTATTTTT
1 GATGTTGACCCGA-TCATCTTTATTTTT
11973088 CTAACTTGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
70 26 0.32
71 49 0.60
72 7 0.09
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (71 bp):
GATGTTGACCCGATCATCTTTATTTTTTCAACTTAAGATATTATTTCGATCATATTCATTTTTTC
ACATGT
Found at i:11973572 original size:20 final size:20
Alignment explanation
Indices: 11973534--11973572 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11973524 CTTGATCAAT
* **
11973534 AAAGTTAAAATTAGTCAAAC
1 AAAGTCAAAATTACACAAAC
11973554 AAAGTCAAAATTACACAAA
1 AAAGTCAAAATTACACAAA
11973573 ACTTGATCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAGTCAAAATTACACAAAC
Found at i:11975504 original size:3 final size:3
Alignment explanation
Indices: 11975498--11975527 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11975488 AAAAAAAAGG
*
11975498 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11975528 GATGATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11977340 original size:29 final size:29
Alignment explanation
Indices: 11977275--11977341 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
11977265 ACTATGTTGT
* *
11977275 AAAAACTTTAATTTATTTGAAATCTTTTA
1 AAAAATTTTAATTTATTTGAAATCTATTA
*
11977304 AAAGATTTTAATTTGATTTG-AAT-TATTA
1 AAAAATTTTAATTT-ATTTGAAATCTATTA
11977332 AATAAATTTT
1 AA-AAATTTT
11977342 TTTAAGTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.19
29 21 0.66
30 5 0.16
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (29 bp):
AAAAATTTTAATTTATTTGAAATCTATTA
Found at i:11987894 original size:168 final size:168
Alignment explanation
Indices: 11987607--11988038 Score: 530
Period size: 168 Copynumber: 2.6 Consensus size: 168
11987597 TCAAAACCTT
* * *
11987607 CATCCCATAAGTATAAATAGCACAATTGAGGTACCATTTATCCATCTTACTTTCTTTTACTTTTT
1 CATCCCATAAGTATAAATAACACCATTTAGGTACCATTTATCCATCTTACTTTCTTTTAC-TTTT
* * *
11987672 TACTATCT-TTTTCCTTTCCATCAGT-TTAACGAATCAACTTGGACCCACCAGGTCATCCCTAGC
65 TACTATCTCTTAT--TTTCCATCA-TCTTGACCAATCAACTTGGACCCACCAGGTCATCCCTAGC
* * * *
11987735 ACTAAGACTAACTTTAAATAGTCTAAGCTACTTAAAA-CCCC
127 ACTAAGACTAACCTCAAACAATCTAAGCTACTTAAAACCCCC
* * * *
11987776 TAT-TCATAAGTATAAATAACACCATTTAGGTATCATTTATCCATCTTACTTTTTTTTACTTGTT
1 CATCCCATAAGTATAAATAACACCATTTAGGTACCATTTATCCATCTTACTTTCTTTTACTT-TT
* *
11987840 TACTATCTCCTTATTTTCCATCATCTTGACCTATCAACTTGGACCCATCAGGTCATCCCTAGCAC
65 TACTATCT-CTTATTTTCCATCATCTTGACCAATCAACTTGGACCCACCAGGTCATCCCTAGCAC
* * * * *
11987905 TAGGACTGACCTCGAGCAATCTAAGCTATTTAAAACCCCC
129 TAAGACTAACCTCAAACAATCTAAGCTACTTAAAACCCCC
** *
11987945 CATCCCATAACCATAAATATCACCATTTAGGTACCATTTATCCATCTTACTTTCTTTTACTTTTT
1 CATCCCATAAGTATAAATAACACCATTTAGGTACCATTTATCCATCTTACTTTCTTTTACTTTTT
* * *
11988010 ATTATCTCTTTTATTTCCATTATCTTGAC
66 ACTATCTCTTAT-TTTCCATCATCTTGAC
11988039 TGATTTCTAA
Statistics
Matches: 225, Mismatches: 31, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
167 3 0.01
168 135 0.60
169 32 0.14
170 55 0.24
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (168 bp):
CATCCCATAAGTATAAATAACACCATTTAGGTACCATTTATCCATCTTACTTTCTTTTACTTTTT
ACTATCTCTTATTTTCCATCATCTTGACCAATCAACTTGGACCCACCAGGTCATCCCTAGCACTA
AGACTAACCTCAAACAATCTAAGCTACTTAAAACCCCC
Found at i:11988518 original size:8 final size:8
Alignment explanation
Indices: 11988507--11988532 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11988497 TAAAAAATTA
11988507 AAAATTTT
1 AAAATTTT
11988515 AAAATTTT
1 AAAATTTT
11988523 AAAATTTT
1 AAAATTTT
11988531 AA
1 AA
11988533 TAAAAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAAATTTT
Found at i:11988518 original size:16 final size:16
Alignment explanation
Indices: 11988499--11988532 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11988489 GAAAAAATTA
11988499 AAAAATTAAAAATTTT
1 AAAAATTAAAAATTTT
* *
11988515 AAAATTTTAAAATTTT
1 AAAAATTAAAAATTTT
11988531 AA
1 AA
11988533 TAAAAAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAATTAAAAATTTT
Found at i:11989264 original size:378 final size:379
Alignment explanation
Indices: 11988542--11989265 Score: 844
Period size: 376 Copynumber: 1.9 Consensus size: 379
11988532 ATAAAAAGAG
*
11988542 AAAAAAAATTGAAGAAATTGAGGAAAGCATAATCAAATCCTTTTAAGAAAAAAAATGTCGAAAGT
1 AAAAAAAATTGAAAAAATTGAGGAAAGCATAATCAAATCCTTTTAAGAAAAAAAATGTCGAAAGT
* * * *
11988607 TTGAATGCTTGAGAATAAAAAAAAAAATTCAATCTCAACAATTTTAGAAGGCTTAGGGCCAAAGA
66 TTGAATGCGTGAGAAT-AAAAAAAAAATTCAATCTCAAAAATTTTAGAAGGCTTAGAGCCAAAAA
11988672 AACAAAATTGAACATATAGAAAAGAGAATCGATCTATCAAGTCAAATTCAATTTCTCAAATCTCT
130 AACAAAATTGAACATATAGAAAAGAGAATCGATCTATCAAGTCAAATTCAATTTCTCAAATCTCT
* *
11988737 TAATTGATTTGAAACCCATAAATTTTTGCAAAAACTCTGTATAAATAGTCCATTAGCAAGCATAA
195 TAATTGATTCGAAACCCATAAATTTTTGAAAAAACTCTGTATAAATAGTCCATTAGCAAGCATAA
* * * * ** ***** ** *****
11988802 TACATAAGTAAAAGAATAAAAACAAGCATAGCTTGTCCTTTTTGTTATTTTTTTCTTTTTTTTCA
260 TACATAAGCAAAAGAATAAAAACAAACATA-CTTGACCATTTTGACATAAAAATCTAGTAAGAAA
* ***
11988867 ATTTTAATATTTATTTTGATATAAGTTTGAAAAAATTAAAATTTTAAAATTTTAAT
324 ATTTTAACAAAAATTTTGATATAAGTTTGAAAAAATTAAAATTTTAAAATTTTAAT
* * * *
11988923 AAAAAAAATTGAAAAAATTGAGGACAGCATAATCAAAT-CTTTT-TGGAAAAAAGTGGT-G-AAG
1 AAAAAAAATTGAAAAAATTGAGGAAAGCATAATCAAATCCTTTTAAGAAAAAAAAT-GTCGAAAG
11988984 TTTGAATGCGTGAGAAT-AAAAAAAAA-TCAATCTCAAAAATTTTAGAAAGGCTT-GAAGCCAAA
65 TTTGAATGCGTGAGAATAAAAAAAAAATTCAATCTCAAAAATTTTAG-AAGGCTTAG-AGCCAAA
* * * *
11989046 AAAACAAAATTGAACATATA-AGAAAGAGAATTGATTTGTCAAGTGAAATTCAATTTCTCAAATC
128 AAAACAAAATTGAACATATAGA-AAAGAGAATCGATCTATCAAGTCAAATTCAATTTCTCAAATC
* * * *
11989110 TCTTAGTTGATTCG-AGCCCTATAAATTTTTGTAAAAACACTCTTTATAAATATTCCATTAGCAA
192 TCTTAATTGATTCGAAACCC-ATAAATTTTTG-AAAAA-ACTCTGTATAAATAGTCCATTAGCAA
*
11989174 GCATAATACATAAGCAAAAGAATAAAGACAAACA-A-TT-ACACAATTTTGCACAGTAAAAAT-T
254 GCATAATACATAAGCAAAAGAATAAAAACAAACATACTTGAC-C-ATTTTG-ACA-TAAAAATCT
*
11989235 AGTAAGAAAATTTATGACAAAAATTTTGATA
315 AGTAAGAAAATTT-TAACAAAAATTTTGATA
11989266 AAAAGTTCTT
Statistics
Matches: 288, Mismatches: 43, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
374 1 0.00
375 27 0.09
376 107 0.37
377 13 0.05
378 88 0.31
379 9 0.03
380 7 0.02
381 36 0.12
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (379 bp):
AAAAAAAATTGAAAAAATTGAGGAAAGCATAATCAAATCCTTTTAAGAAAAAAAATGTCGAAAGT
TTGAATGCGTGAGAATAAAAAAAAAATTCAATCTCAAAAATTTTAGAAGGCTTAGAGCCAAAAAA
ACAAAATTGAACATATAGAAAAGAGAATCGATCTATCAAGTCAAATTCAATTTCTCAAATCTCTT
AATTGATTCGAAACCCATAAATTTTTGAAAAAACTCTGTATAAATAGTCCATTAGCAAGCATAAT
ACATAAGCAAAAGAATAAAAACAAACATACTTGACCATTTTGACATAAAAATCTAGTAAGAAAAT
TTTAACAAAAATTTTGATATAAGTTTGAAAAAATTAAAATTTTAAAATTTTAAT
Found at i:11989428 original size:16 final size:16
Alignment explanation
Indices: 11989407--11989460 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
11989397 ATTTTGGATT
* *
11989407 ATTTTGGGTTTAGGTC
1 ATTTTGGGTTCAAGTC
11989423 ATTTTGGGTTCAAGTC
1 ATTTTGGGTTCAAGTC
*
11989439 ATTTTTGGTTCAAGTC
1 ATTTTGGGTTCAAGTC
11989455 AATTTT
1 -ATTTT
11989461 AGTTTGGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 29 0.85
17 5 0.15
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (16 bp):
ATTTTGGGTTCAAGTC
Found at i:11990422 original size:12 final size:12
Alignment explanation
Indices: 11990395--11990427 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11990385 ATTAAAAATA
11990395 TATAAATTAT-T
1 TATAAATTATAT
11990406 T-TAAATTATAT
1 TATAAATTATAT
11990417 TATAAATTATA
1 TATAAATTATA
11990428 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 3 0.15
12 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAAATTATAT
Found at i:11992866 original size:11 final size:11
Alignment explanation
Indices: 11992835--11992868 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11992825 AAAATTTTTG
11992835 TTTTATTTTAT
1 TTTTATTTTAT
*
11992846 TTTCATTTTAT
1 TTTTATTTTAT
*
11992857 TTTTAGTTTAT
1 TTTTATTTTAT
11992868 T
1 T
11992869 AAATTTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:11993000 original size:22 final size:22
Alignment explanation
Indices: 11992972--11993236 Score: 117
Period size: 22 Copynumber: 11.9 Consensus size: 22
11992962 TTTTTATTAA
*
11992972 TAATATAATAATTATTATTTAT
1 TAATATAATAATTATTATATAT
*
11992994 TAATATATTATAA-TATTAT-TTT
1 TAATATA--ATAATTATTATATAT
* *
11993016 TAATATATTGTAA-TATTATTTAT
1 TAATATA--ATAATTATTATATAT
* * *
11993039 TAATATATTATATAAATAATATAT
1 TAATATAATA-AT-TATTATATAT
11993063 TAATA-AAT-ATTATTATAT-T
1 TAATATAATAATTATTATATAT
11993082 TATTATATAAATAA--ATT-TATAT
1 TA--ATAT-AATAATTATTATATAT
* *
11993104 TAATA-AATAA-TATAATATAA
1 TAATATAATAATTATTATATAT
* * * *
11993124 TAATATATTATATGAATAATAAAT
1 TAATATAATA-AT-TATTATATAT
11993148 TAATA-AATAATATATTATATAT
1 TAATATAATAAT-TATTATATAT
*
11993170 TAATAT-ATAATATAAATATATTAT
1 TAATATAATAAT-T-ATTATA-TAT
* *
11993194 TAATATAAT-ATAATAATATAAT
1 TAATATAATAATTATTATAT-AT
* *
11993216 AATATATAATATTTATTATAT
1 TA-ATATAATAATTATTATAT
11993237 TACTAGTGAA
Statistics
Matches: 189, Mismatches: 29, Indels: 48
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.03
19 5 0.03
20 18 0.10
21 14 0.07
22 63 0.33
23 35 0.19
24 47 0.25
25 2 0.01
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
TAATATAATAATTATTATATAT
Found at i:11993120 original size:5 final size:5
Alignment explanation
Indices: 11993106--11993227 Score: 68
Period size: 5 Copynumber: 25.4 Consensus size: 5
11993096 ATTTATATTA
* *
11993106 ATAA- ATAAT ATAAT ATAAT A-ATAT ATTAT ATGA- ATAAT A-AAT -TAAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
11993152 A-AAT A-ATAT ATTAT ATATT A-ATAT ATAAT ATAAAT ATATT ATTAAT
1 ATAAT ATA-AT ATAAT ATAAT ATA-AT ATAAT AT-AAT ATAAT A-TAAT
11993198 ATAAT AT-A- ATAAT ATAAT A-ATAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT AT
11993228 TTATTATATT
Statistics
Matches: 93, Mismatches: 9, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
3 2 0.02
4 23 0.25
5 57 0.61
6 11 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:11993125 original size:13 final size:13
Alignment explanation
Indices: 11993104--11993227 Score: 105
Period size: 13 Copynumber: 9.1 Consensus size: 13
11993094 AAATTTATAT
11993104 TAATA-AATAATA
1 TAATATAATAATA
11993116 TAATATAATAATA
1 TAATATAATAATA
11993129 TATTATATGAATAATA
1 TA--ATAT-AATAATA
11993145 -AAT-TAATAA-A
1 TAATATAATAATA
*
11993155 TAATATATTATATA
1 TAATATAATA-ATA
11993169 TTAATAT-ATAATA
1 -TAATATAATAATA
11993182 TAAATATATTATTAATA
1 T-AATATA--A-TAATA
11993199 TAATATAATAATA
1 TAATATAATAATA
11993212 TAATAATATATAATA
1 TAAT-ATA-ATAATA
11993227 T
1 T
11993228 TTATTATATT
Statistics
Matches: 94, Mismatches: 2, Indels: 29
0.75 0.02 0.23
Matches are distributed among these distances:
10 1 0.01
11 8 0.09
12 11 0.12
13 29 0.31
14 7 0.07
15 18 0.19
16 14 0.15
17 6 0.06
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:11993126 original size:3 final size:3
Alignment explanation
Indices: 11993104--11993226 Score: 50
Period size: 3 Copynumber: 41.7 Consensus size: 3
11993094 AAATTTATAT
* *
11993104 TAA TAAA TAA T-A TAA T-A TAA TAA T-A TAT TATA TGAA TAA TAA -AT
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA
* * * *
11993148 TAA TAAA TAA T-A TAT TATA TAT TAA TATA TAA T-A TAA -ATA TAT TAT
1 TAA T-AA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TA-A TAA TAA
11993194 TAA T-A TAA T-A TAA TAA T-A TAA TAA TATA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA
11993227 TTTATTATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 36
0.67 0.07 0.26
Matches are distributed among these distances:
2 18 0.20
3 55 0.60
4 18 0.20
5 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:11993130 original size:85 final size:91
Alignment explanation
Indices: 11992972--11993227 Score: 291
Period size: 85 Copynumber: 2.9 Consensus size: 91
11992962 TTTTTATTAA
* * * *
11992972 TAATATAATAAT-TATTATTTATTAATATAT--TAT-AATATTATTTTTAATATATTGTAATATT
1 TAATA-AATAATATATTATATATTAATATATAATATAAATA-TATTATTAATATAATATAATA--
* * *
11993033 ATTTATTAATATATTATATAAATAATATAT
62 ATATAATAATATATTATATAAATAATAAAT
* *
11993063 TAATAAAT-AT-TATTATAT-TTATTATATAA-ATAAATTTA-TATTAATA-AATA-ATATAATA
1 TAATAAATAATATATTATATATTAATATATAATATAAATATATTATTAATATAATATA-ATAATA
*
11993121 TAATAATATATTATATGAATAATAAAT
65 TAATAATATATTATATAAATAATAAAT
11993148 TAATAAATAATATATTATATATTAATATATAATATAAATATATTATTAATATAATATAATAATAT
1 TAATAAATAATATATTATATATTAATATATAATATAAATATATTATTAATATAATATAATAATAT
*
11993213 AATAATATATAATAT
66 AATAATATATTATAT
11993228 TTATTATATT
Statistics
Matches: 141, Mismatches: 13, Indels: 22
0.80 0.07 0.12
Matches are distributed among these distances:
85 34 0.24
86 3 0.02
87 13 0.09
88 25 0.18
89 21 0.15
90 14 0.10
91 30 0.21
92 1 0.01
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.48
Consensus pattern (91 bp):
TAATAAATAATATATTATATATTAATATATAATATAAATATATTATTAATATAATATAATAATAT
AATAATATATTATATAAATAATAAAT
Found at i:11993174 original size:59 final size:59
Alignment explanation
Indices: 11993039--11993227 Score: 180
Period size: 59 Copynumber: 3.2 Consensus size: 59
11993029 TATTATTTAT
* * * *
11993039 TAATATATTATATAAATAATATAT-TAATAA-ATATTATTATATTTATTATATAAATAAA
1 TAATATATTATATAAATAATATATATAATAATATATTA-TATATATAATAAATTAATAAA
*
11993097 T-TTATATTA-ATAAATAATATAATATAATAATATATTATATGA-ATAATAAATTAATAAA
1 TAATATATTATATAAATAATAT-ATATAATAATATATTATAT-ATATAATAAATTAATAAA
*
11993155 TAATATATTATAT-ATTAATATATA-ATATAAATATATTAT-TAATATAATATAA-TAATATAA
1 TAATATATTATATAAATAATATATATA-AT-AATATATTATAT-ATATAATA-AATTAATA-AA
*
11993215 TAATATATAATAT
1 TAATATATTATAT
11993228 TTATTATATT
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
56 11 0.10
57 10 0.09
58 30 0.27
59 42 0.38
60 18 0.16
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (59 bp):
TAATATATTATATAAATAATATATATAATAATATATTATATATATAATAAATTAATAAA
Found at i:11995879 original size:12 final size:12
Alignment explanation
Indices: 11995864--11995900 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
11995854 AAAAAAATCC
11995864 AAACACAAAAAT
1 AAACACAAAAAT
11995876 AAAC-CAAAAA-
1 AAACACAAAAAT
*
11995886 AATCACAAAAAT
1 AAACACAAAAAT
11995898 AAA
1 AAA
11995901 AAAAGCACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 3 0.14
11 12 0.57
12 6 0.29
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (12 bp):
AAACACAAAAAT
Found at i:11996019 original size:22 final size:22
Alignment explanation
Indices: 11995973--11996021 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
11995963 AGACTAATTA
*
11995973 AAAAAAATAAAAATCAATCCAC
1 AAAAAAATAAAAATCAATACAC
11995995 AAAAAAA-AAAAATCCAATTAC-C
1 AAAAAAATAAAAAT-CAA-TACAC
11996017 AAAAA
1 AAAAA
11996022 GCTTGAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 16 0.67
23 2 0.08
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAAAAATAAAAATCAATACAC
Found at i:11996642 original size:22 final size:22
Alignment explanation
Indices: 11996600--11996658 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
11996590 TATATTATAC
*
11996600 AATATATTATTATTTTATTTATT
1 AATATATTATT-TATTATTTATT
11996623 AATATATTATTTATTATTTATT
1 AATATATTATTTATTATTTATT
*
11996645 AATATAATATTTAT
1 AATATATTATTTAT
11996659 ATAATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATATTATTTATTATTTATT
Found at i:11996901 original size:13 final size:13
Alignment explanation
Indices: 11996885--11996911 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11996875 TAAAAATCTG
11996885 AAAACAAAATAAA
1 AAAACAAAATAAA
11996898 AAAACAAAATAAA
1 AAAACAAAATAAA
11996911 A
1 A
11996912 CCAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACAAAATAAA
Found at i:11996929 original size:17 final size:17
Alignment explanation
Indices: 11996897--11996931 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11996887 AACAAAATAA
*
11996897 AAAAACAAAATAAAACC
1 AAAAACAAAAGAAAACC
*
11996914 AAAAACAAAAGCAAACC
1 AAAAACAAAAGAAAACC
11996931 A
1 A
11996932 CCGATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.20, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAACAAAAGAAAACC
Found at i:11998399 original size:20 final size:19
Alignment explanation
Indices: 11998376--11998420 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11998366 ATTCTTGATA
*
11998376 TTATATTTTAATATAATTTT
1 TTATATTTAAATA-AATTTT
11998396 TTATATTTAAATAAATTTT
1 TTATATTTAAATAAATTTT
11998415 TGTATA
1 T-TATA
11998421 AATTAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATTTAAATAAATTTT
Found at i:11998431 original size:19 final size:18
Alignment explanation
Indices: 11998383--11998434 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
11998373 ATATTATATT
*
11998383 TTAATATAATTTTTTATAT
1 TTAA-ATAATTTTTTATAA
11998402 TTAAATAAATTTTTGTATAAA
1 TTAAAT-AATTTTT-TAT-AA
11998423 TT-AATAATTTTT
1 TTAAATAATTTTT
11998435 ATTTTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 2 0.07
19 18 0.62
20 6 0.21
21 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTAAATAATTTTTTATAA
Found at i:12004452 original size:44 final size:44
Alignment explanation
Indices: 12004389--12004476 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
12004379 TTTCTACTTG
12004389 TTGTTCCATGCAAGAATGAATAAAATAATTAAAATAACCACTAA
1 TTGTTCCATGCAAGAATGAATAAAATAATTAAAATAACCACTAA
12004433 TTGTTCCATGCAAGAATGAATAAAATAATTAAAATAACCACTAA
1 TTGTTCCATGCAAGAATGAATAAAATAATTAAAATAACCACTAA
12004477 AGTATTAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (44 bp):
TTGTTCCATGCAAGAATGAATAAAATAATTAAAATAACCACTAA
Found at i:12008086 original size:21 final size:19
Alignment explanation
Indices: 12008062--12008101 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
12008052 AGTTTTAACC
12008062 ACACCATCAATTCTTTTTTTT
1 ACACCAT-AATT-TTTTTTTT
*
12008083 ACACCGTAATTTTTTTTTT
1 ACACCATAATTTTTTTTTT
12008102 CCAAAATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.55
Consensus pattern (19 bp):
ACACCATAATTTTTTTTTT
Found at i:12009721 original size:34 final size:34
Alignment explanation
Indices: 12009665--12009730 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
12009655 AGACTTTTAG
*
12009665 GAAATGGATATCCAAGAAGCTTTGAAACTTATAA
1 GAAATGAATATCCAAGAAGCTTTGAAACTTATAA
* * * *
12009699 GAAATGAATATTCGAGAGGCTTTGAAGCTTAT
1 GAAATGAATATCCAAGAAGCTTTGAAACTTAT
12009731 CGAAAATGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (34 bp):
GAAATGAATATCCAAGAAGCTTTGAAACTTATAA
Found at i:12009964 original size:2 final size:2
Alignment explanation
Indices: 12009957--12009985 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12009947 TAGAAGTGGG
12009957 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12009986 AAGCACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12018998 original size:2 final size:2
Alignment explanation
Indices: 12018991--12019017 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12018981 AATTAACTTA
12018991 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12019018 CATGAGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12026407 original size:11 final size:11
Alignment explanation
Indices: 12026391--12026415 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12026381 CAAAAGTTTG
12026391 TCTCATAATCT
1 TCTCATAATCT
12026402 TCTCATAATCT
1 TCTCATAATCT
12026413 TCT
1 TCT
12026416 TGCCTCTTTC
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TCTCATAATCT
Found at i:12029049 original size:15 final size:16
Alignment explanation
Indices: 12029030--12029062 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12029020 AATAAAATTA
12029030 ATTTTT-TAT-GTATT
1 ATTTTTATATCGTATT
12029044 ATTTTTATATCGTATT
1 ATTTTTATATCGTATT
12029060 ATT
1 ATT
12029063 ACATTGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 3 0.18
16 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (16 bp):
ATTTTTATATCGTATT
Found at i:12032027 original size:19 final size:20
Alignment explanation
Indices: 12032005--12032057 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
12031995 TAATATATAT
12032005 TAATTAATATAATTAAA-TA
1 TAATTAATATAATTAAACTA
* *
12032024 TAATT-ATAAAAATAAACTA
1 TAATTAATATAATTAAACTA
*
12032043 TACTTAATAT-ATTAA
1 TAATTAATATAATTAA
12032058 GTAGCATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 9 0.33
19 15 0.56
20 3 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATTAATATAATTAAACTA
Found at i:12033993 original size:2 final size:2
Alignment explanation
Indices: 12033982--12034014 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
12033972 TAATCAAATG
*
12033982 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12034015 CCATATCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12034232 original size:16 final size:16
Alignment explanation
Indices: 12034211--12034241 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12034201 AAATAAGAAT
*
12034211 ATTCCTAGCACTCAAC
1 ATTCCTAACACTCAAC
12034227 ATTCCTAACACTCAA
1 ATTCCTAACACTCAA
12034242 AAGAACATAT
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:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (16 bp):
ATTCCTAACACTCAAC
Found at i:12036438 original size:18 final size:19
Alignment explanation
Indices: 12036415--12036458 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
12036405 ACCTAAGAGG
12036415 AGTTTCCTTGAGTT-TC-TT
1 AGTTTCCTTG-GTTCTCATT
12036433 AGTTTCCCTTGGTTCTCATT
1 AGTTT-CCTTGGTTCTCATT
12036453 AGTTTC
1 AGTTTC
12036459 TTTAGTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.11, C:0.20, G:0.16, T:0.52
Consensus pattern (19 bp):
AGTTTCCTTGGTTCTCATT
Found at i:12043276 original size:25 final size:26
Alignment explanation
Indices: 12043229--12043305 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
12043219 TTAATTTTTT
*
12043229 ATTAAATA-ATATAAATTATTATTTTAG
1 ATTAAATAGATATTAA-TA-TATTTTAG
* *
12043256 ATTAATTAGA-ATTAATATATTTT-T
1 ATTAAATAGATATTAATATATTTTAG
*
12043280 ATTAAATATATATTAATATATATTTA
1 ATTAAATAGATATTAATATAT-TTTA
12043306 TAAAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 8 0.20
25 16 0.39
26 5 0.12
27 11 0.27
28 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTAAATAGATATTAATATATTTTAG
Found at i:12043323 original size:26 final size:25
Alignment explanation
Indices: 12043266--12043327 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
12043256 ATTAATTAGA
* *
12043266 ATTAATATATTTTTATTAAATATAT
1 ATTAATATATATTTATTAAAAATAT
*
12043291 ATTAATATATATTTA-TAAAAATTT
1 ATTAATATATATTTATTAAAAATAT
12043315 ATCTAAATATATA
1 AT-T-AATATATA
12043328 AGTTTAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.28
25 15 0.47
26 8 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTAATATATATTTATTAAAAATAT
Found at i:12045237 original size:25 final size:25
Alignment explanation
Indices: 12045195--12045243 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
12045185 AATTGAAATA
12045195 AATTTTTATTCATCTCAAACTTGATT
1 AATTTTTATTCA-CTCAAACTTGATT
*
12045221 AATTTTATATTCA-TCAAATTTGA
1 AATTTT-TATTCACTCAAACTTGA
12045244 ATGTGATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 6 0.29
27 6 0.29
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (25 bp):
AATTTTTATTCACTCAAACTTGATT
Found at i:12045364 original size:14 final size:14
Alignment explanation
Indices: 12045356--12045383 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12045346 AATATTATTT
12045356 TTTAAATATAAATA
1 TTTAAATATAAATA
12045370 TTTAAATATAAATA
1 TTTAAATATAAATA
12045384 AAAATAAAAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:12045502 original size:15 final size:16
Alignment explanation
Indices: 12045482--12045515 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
12045472 AATCTTATTT
12045482 AAAAATTAATTTTA-A
1 AAAAATTAATTTTATA
12045497 AAAAATTAATTTTATA
1 AAAAATTAATTTTATA
12045513 AAA
1 AAA
12045516 TCGAATCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATTAATTTTATA
Found at i:12045723 original size:13 final size:13
Alignment explanation
Indices: 12045707--12045732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12045697 TTACAGACAC
12045707 AATATACATTTAA
1 AATATACATTTAA
12045720 AATATACATTTAA
1 AATATACATTTAA
12045733 TAGCTTTTGT
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:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATACATTTAA
Found at i:12045775 original size:18 final size:18
Alignment explanation
Indices: 12045754--12045789 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12045744 TTTCATTGCC
12045754 TTTTTTTTGTTATTTTAT
1 TTTTTTTTGTTATTTTAT
*
12045772 TTTTTTTTGTTTTTTTAT
1 TTTTTTTTGTTATTTTAT
12045790 CTAACTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTTTTGTTATTTTAT
Found at i:12045946 original size:13 final size:15
Alignment explanation
Indices: 12045913--12045956 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
12045903 ATTTATTAGT
12045913 ATATTTTTA-AATTA
1 ATATTTTTATAATTA
12045927 ATATTTTTATAATTA
1 ATATTTTTATAATTA
* *
12045942 TTTTTTATTATAATT
1 ATATTT-TTATAATT
12045957 TACCTCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 9 0.35
15 9 0.35
16 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATATTTTTATAATTA
Found at i:12046056 original size:21 final size:21
Alignment explanation
Indices: 12046011--12046050 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12046001 TCATTGATTT
*
12046011 TAATTTTATAATTATAATATA
1 TAATATTATAATTATAATATA
*
12046032 TAATATTATTATTATAATA
1 TAATATTATAATTATAATA
12046051 ACTAATCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATTATAATTATAATATA
Found at i:12046263 original size:14 final size:13
Alignment explanation
Indices: 12046207--12046261 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
12046197 ATGGCAGTAC
*
12046207 TTTTTTAAAT-AA
1 TTTTATAAATAAA
12046219 TTTTAATAAA-AAA
1 TTTT-ATAAATAAA
*
12046232 TTTTAAAAATTAAA
1 TTTTATAAA-TAAA
12046246 TTATTATAAATAAA
1 TT-TTATAAATAAA
12046260 TT
1 TT
12046262 ATCTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.23
13 10 0.29
14 11 0.31
15 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTATAAATAAA
Found at i:12048978 original size:2 final size:2
Alignment explanation
Indices: 12048971--12048996 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12048961 AATGTTGAAT
12048971 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
12048997 GAAAGCACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12053722 original size:65 final size:64
Alignment explanation
Indices: 12053648--12053827 Score: 148
Period size: 65 Copynumber: 2.8 Consensus size: 64
12053638 TAACGTATTG
* * ** * *
12053648 AAAAGTTTTATT-AGTTTGAAATTTTTTTTTTGAAAATTAATT-TTCAAAATCTTGGCAACATTT
1 AAAAGTTTTATTGA-CTTGAAAATTAATTTTTGAAAATTAATTCAT-AAAATCTTGACAACATTT
12053711 C
64 C
* *
12053712 AAAAGATTTTATTGACTTGAAAATTAATTTTTGAAATTTAATTCATAAAATCTTGACAACAAATT
1 AAAAG-TTTTATTGACTTGAAAATTAATTTTTGAAAATTAATTCATAAAATCTTGACAAC-ATTT
*
12053777 G
64 C
* * * * * * * * *
12053778 GAAGGCTTTATTAATTTAAAAATTAACTTTTAAAAATTAATTTATAAAAT
1 AAAAGTTTTATTGACTTGAAAATTAATTTTTGAAAATTAATTCATAAAAT
12053828 TTTACTTACA
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
64 5 0.05
65 80 0.86
66 8 0.09
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (64 bp):
AAAAGTTTTATTGACTTGAAAATTAATTTTTGAAAATTAATTCATAAAATCTTGACAACATTTC
Found at i:12053811 original size:14 final size:13
Alignment explanation
Indices: 12053787--12053826 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
12053777 GGAAGGCTTT
12053787 ATTAA-TTTAAAA
1 ATTAATTTTAAAA
12053799 ATTAACTTTTAAAA
1 ATTAA-TTTTAAAA
12053813 ATTAATTTATAAAA
1 ATTAATTT-TAAAA
12053827 TTTTACTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 3 0.12
14 17 0.68
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTAATTTTAAAA
Found at i:12053826 original size:13 final size:13
Alignment explanation
Indices: 12053787--12053828 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
12053777 GGAAGGCTTT
12053787 ATTAATTTA-AAA
1 ATTAATTTATAAA
12053799 ATTAACTTT-TAAAA
1 ATTAA-TTTAT-AAA
12053813 ATTAATTTATAAA
1 ATTAATTTATAAA
12053826 ATT
1 ATT
12053829 TTACTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.19
13 12 0.46
14 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATTTATAAA
Found at i:12054953 original size:16 final size:15
Alignment explanation
Indices: 12054918--12054956 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
12054908 TTTAATTAAA
12054918 TATT-TTTAATATAT
1 TATTATTTAATATAT
12054932 TATTATTTAATATTAT
1 TATTATTTAATA-TAT
*
12054948 TTTTATTTA
1 TATTATTTA
12054957 TAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATTTAATATAT
Found at i:12055687 original size:16 final size:16
Alignment explanation
Indices: 12055668--12055713 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
12055658 CTTTAAAATT
12055668 ATCATAAATCATCATC
1 ATCATAAATCATCATC
* *
12055684 ATCATAAATCATTATT
1 ATCATAAATCATCATC
12055700 ATCATAAATCATCA
1 ATCATAAATCATCA
12055714 CTATCATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCATAAATCATCATC
Found at i:12055718 original size:16 final size:15
Alignment explanation
Indices: 12055667--12055720 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 15
12055657 TCTTTAAAAT
12055667 TATCATAAATCATCA
1 TATCATAAATCATCA
*
12055682 TCATCATAAATCATTA
1 T-ATCATAAATCATCA
12055698 TTATCATAAATCATCA
1 -TATCATAAATCATCA
12055714 CTATCAT
1 -TATCAT
12055721 TCATTTATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (15 bp):
TATCATAAATCATCA
Found at i:12073874 original size:51 final size:49
Alignment explanation
Indices: 12073810--12073906 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 49
12073800 TTTTTTATGG
* * * *
12073810 ATGAGATTTTAAAATTTCAAAATCTCCATATATGAGGATCTTTTCACAA
1 ATGAGATTTTAAAATTTCAAAACCTCCACATAGGAGGAGCTTTTCACAA
*
12073859 ATGAGATCGTTTAAAATTTCAAAACCTCTACATAGGAGGAGCTTTTCA
1 ATGAGAT--TTTAAAATTTCAAAACCTCCACATAGGAGGAGCTTTTCA
12073907 TGGATGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 7 0.17
51 34 0.83
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (49 bp):
ATGAGATTTTAAAATTTCAAAACCTCCACATAGGAGGAGCTTTTCACAA
Found at i:12074282 original size:8 final size:8
Alignment explanation
Indices: 12074247--12074321 Score: 102
Period size: 8 Copynumber: 9.6 Consensus size: 8
12074237 TAAAAAATTA
12074247 AAAAATCC
1 AAAAATCC
*
12074255 AAAAATCT
1 AAAAATCC
*
12074263 AAAAGAT-A
1 AAAA-ATCC
12074271 AAAAATCC
1 AAAAATCC
12074279 AAAAATCC
1 AAAAATCC
12074287 -AAAATCC
1 AAAAATCC
12074294 -AAAATCC
1 AAAAATCC
12074301 AAAAATCC
1 AAAAATCC
12074309 AAAAATCC
1 AAAAATCC
12074317 AAAAA
1 AAAAA
12074322 AATAAAAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
7 16 0.26
8 43 0.70
9 2 0.03
ACGTcount: A:0.65, C:0.20, G:0.01, T:0.13
Consensus pattern (8 bp):
AAAAATCC
Found at i:12078946 original size:20 final size:21
Alignment explanation
Indices: 12078907--12078946 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12078897 TTTAAGGTTG
12078907 GTTTCAAAAATGAAAAAAAAA
1 GTTTCAAAAATGAAAAAAAAA
* *
12078928 GTTTTAAAAAT-AAATAAAA
1 GTTTCAAAAATGAAAAAAAA
12078947 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
GTTTCAAAAATGAAAAAAAAA
Found at i:12078949 original size:5 final size:5
Alignment explanation
Indices: 12078934--12078964 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
12078924 AAAAGTTTTA
12078934 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
12078965 TATTTCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:12081329 original size:18 final size:18
Alignment explanation
Indices: 12081306--12081342 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12081296 GATGGGTGTC
12081306 ATAAAAATGAAATTGGAA
1 ATAAAAATGAAATTGGAA
12081324 ATAAAAATGAAATTGGAA
1 ATAAAAATGAAATTGGAA
12081342 A
1 A
12081343 GGCGTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (18 bp):
ATAAAAATGAAATTGGAA
Found at i:12081503 original size:18 final size:18
Alignment explanation
Indices: 12081475--12081523 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
12081465 TTCATTTTTT
12081475 TCATATGATTCTTATTGCG
1 TCAT-TGATTCTTATTGCG
*
12081494 TCATTGATTCTTGTTGCG
1 TCATTGATTCTTATTGCG
12081512 TCATTGATTCTT
1 TCATTGATTCTT
12081524 TTATAATTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (18 bp):
TCATTGATTCTTATTGCG
Found at i:12086634 original size:71 final size:71
Alignment explanation
Indices: 12086545--12086676 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 71
12086535 AATAACAGTA
* * *
12086545 TTTTTTGAGTTTACGTATAA-TGTATGAATGCAAGTAAATTGAATTCTAATCTAGTAAACATAAA
1 TTTTATGAGTTTACGTATAATTG-ATGAAAGCAAGTAAATTGAATTCTAATCCAGTAAACATAAA
12086609 CTAGATC
65 CTAGATC
** * * **
12086616 TTTTATGAGTTTGTGTATAATTGATGAAAGGAATTGTATTGAATTCTAATCCAGTAAACAT
1 TTTTATGAGTTTACGTATAATTGATGAAAGCAAGTAAATTGAATTCTAATCCAGTAAACAT
12086677 GATAGAGAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 49 0.96
72 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (71 bp):
TTTTATGAGTTTACGTATAATTGATGAAAGCAAGTAAATTGAATTCTAATCCAGTAAACATAAAC
TAGATC
Found at i:12089444 original size:14 final size:14
Alignment explanation
Indices: 12089425--12089451 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12089415 ATTAAAAAAT
12089425 ATATTTATGATTTA
1 ATATTTATGATTTA
12089439 ATATTTATGATTT
1 ATATTTATGATTT
12089452 GGAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
ATATTTATGATTTA
Found at i:12090791 original size:3 final size:3
Alignment explanation
Indices: 12090783--12090820 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12090773 AAAGTTATTC
12090783 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12090821 CTAGATTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12091143 original size:38 final size:37
Alignment explanation
Indices: 12091070--12091140 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
12091060 ATTATCAATG
*
12091070 ATTATTTATTTATATCATTTTAAATGTATAATTTATA
1 ATTATTTATTTATATCATTTTAAATATATAATTTATA
*
12091107 ATTATTTATTT-TAT-ATTATTAAATAAATATATTT
1 ATTATTTATTTATATCATT-TTAAATATATA-ATTT
12091141 TATTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 3 0.10
36 12 0.40
37 15 0.50
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (37 bp):
ATTATTTATTTATATCATTTTAAATATATAATTTATA
Found at i:12092336 original size:20 final size:19
Alignment explanation
Indices: 12092304--12092341 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12092294 TATGTTATAA
*
12092304 AAAATTAAAAAGGAAAAAT
1 AAAAGTAAAAAGGAAAAAT
12092323 AAAAGTAAATAAGGAAAAA
1 AAAAGTAAA-AAGGAAAAA
12092342 ATTGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAGTAAAAAGGAAAAAT
Found at i:12092584 original size:31 final size:31
Alignment explanation
Indices: 12092501--12092591 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 31
12092491 TAATTCTTTT
* *
12092501 AAATTACATATCATTTTTAAAAAATTTAAGTAA
1 AAATTCCATATCA-TTTTAAAAAA-TTAAATAA
* *
12092534 AAATTTCTATATCAATTTAAAAAATTAAATAA
1 AAA-TTCCATATCATTTTAAAAAATTAAATAA
*
12092566 AAATTCCATATCATTTTAAAATATTA
1 AAATTCCATATCATTTTAAAAAATTA
12092592 TGTATAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 20 0.40
32 10 0.20
33 12 0.24
34 8 0.16
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.40
Consensus pattern (31 bp):
AAATTCCATATCATTTTAAAAAATTAAATAA
Found at i:12092773 original size:13 final size:14
Alignment explanation
Indices: 12092744--12092773 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12092734 TATTTTTCTT
12092744 TTTTATAAAACATA
1 TTTTATAAAACATA
12092758 TTTTATAAAA-ATA
1 TTTTATAAAACATA
12092771 TTT
1 TTT
12092774 AAAAGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:12099345 original size:19 final size:19
Alignment explanation
Indices: 12099315--12099387 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 19
12099305 AAATCTAAAG
12099315 CCTAGGTAAAACCCAAAAC
1 CCTAGGTAAAACCCAAAAC
*
12099334 CCTAGGTAAAACCCTAAA-
1 CCTAGGTAAAACCCAAAAC
* *
12099352 CC-A--TAAAATCGAAAAC
1 CCTAGGTAAAACCCAAAAC
* *
12099368 CCTAGGTGAAACCCTAAAC
1 CCTAGGTAAAACCCAAAAC
12099387 C
1 C
12099388 TTATATGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 9 0.21
16 2 0.05
17 2 0.05
18 2 0.05
19 27 0.64
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.14
Consensus pattern (19 bp):
CCTAGGTAAAACCCAAAAC
Found at i:12100500 original size:16 final size:16
Alignment explanation
Indices: 12100458--12100501 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
12100448 AATTGAAATA
*
12100458 TTTTAGATTATTTTATT
1 TTTTAG-TTTTTTTATT
* *
12100475 TTTCAATTTTTTTATT
1 TTTTAGTTTTTTTATT
12100491 TTTTAGTTTTT
1 TTTTAGTTTTT
12100502 ATCAACGTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTAGTTTTTTTATT
Found at i:12102116 original size:22 final size:24
Alignment explanation
Indices: 12102084--12102134 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
12102074 ATTTTTATTA
12102084 ATTTTTGTATTATCATT-AAGTTT
1 ATTTTTGTATTATCATTAAAGTTT
**
12102107 ATTTTT-TATTATTTTTAAAGTTT
1 ATTTTTGTATTATCATTAAAGTTT
12102130 ATTTT
1 ATTTT
12102135 AAAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
ATTTTTGTATTATCATTAAAGTTT
Found at i:12103301 original size:15 final size:15
Alignment explanation
Indices: 12103283--12103312 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12103273 TTTAATAATA
12103283 TTATTATTATTTTAT
1 TTATTATTATTTTAT
*
12103298 TTATTATTTTTTTAT
1 TTATTATTATTTTAT
12103313 GATCAGACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTATTATTTTAT
Found at i:12103302 original size:18 final size:17
Alignment explanation
Indices: 12103261--12103305 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
12103251 TTGTTTAATT
12103261 TTTATTATTATATTTAA
1 TTTATTATTATATTTAA
* *
12103278 TAATATTATTATTATTTTA
1 T-TTATTATTA-TATTTAA
12103297 TTTATTATT
1 TTTATTATT
12103306 TTTTTATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 15 0.65
19 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTATTATATTTAA
Found at i:12103306 original size:12 final size:12
Alignment explanation
Indices: 12103261--12103312 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
12103251 TTGTTTAATT
*
12103261 TTTATTATTATA
1 TTTATTATTTTA
* *
12103273 TTTAATAATATTA
1 TTT-ATTATTTTA
12103286 -TTATTATTTTA
1 TTTATTATTTTA
12103297 TTTATTATTTT-
1 TTTATTATTTTA
12103308 TTTAT
1 TTTAT
12103313 GATCAGACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
11 12 0.36
12 15 0.45
13 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:12103360 original size:16 final size:16
Alignment explanation
Indices: 12103339--12103377 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
12103329 TGTCCATACT
12103339 TATATAT-AACTATATA
1 TATATATAAACTA-ATA
12103355 TATATATAAACTAATA
1 TATATATAAACTAATA
*
12103371 TTTATAT
1 TATATAT
12103378 GTCTATGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
TATATATAAACTAATA
Found at i:12107627 original size:8 final size:8
Alignment explanation
Indices: 12107614--12107655 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
12107604 GGGATAAAGA
12107614 ATTATTTT
1 ATTATTTT
12107622 ATTATTCTT
1 ATTATT-TT
12107631 A-TATTTAT
1 ATTATTT-T
*
12107639 AATATTTT
1 ATTATTTT
12107647 ATTATTTT
1 ATTATTTT
12107655 A
1 A
12107656 CAAAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
7 1 0.03
8 21 0.70
9 8 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTATTTT
Found at i:12107652 original size:17 final size:17
Alignment explanation
Indices: 12107614--12107655 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
12107604 GGGATAAAGA
*
12107614 ATTATTTTATTATTCTT
1 ATTATTTTAATATTCTT
12107631 A-TATTTATAATATT-TT
1 ATTATTT-TAATATTCTT
12107647 ATTATTTTA
1 ATTATTTTA
12107656 CAAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTAATATTCTT
Found at i:12108334 original size:17 final size:18
Alignment explanation
Indices: 12108309--12108342 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12108299 TTAAAACATT
*
12108309 TTTTTTTATTTT-TTCAA
1 TTTTCTTATTTTCTTCAA
12108326 TTTTCTTATTTTCTTCA
1 TTTTCTTATTTTCTTCA
12108343 TTCGTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTTATTTTCTTCAA
Found at i:12108823 original size:3 final size:3
Alignment explanation
Indices: 12108815--12108841 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12108805 CCTATTTTTA
12108815 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
12108842 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12108846 original size:3 final size:3
Alignment explanation
Indices: 12108840--12108865 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12108830 AATAATAATA
12108840 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
12108866 AAATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12109243 original size:26 final size:25
Alignment explanation
Indices: 12109201--12109251 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
12109191 ATTTTATATA
*
12109201 TTATTAATTAATCAAATGATGATAAT
1 TTATTAATAAATCAAATGA-GATAAT
*
12109227 TTATTAATAAAGT-AAATTAGATAAT
1 TTATTAATAAA-TCAAATGAGATAAT
12109252 AACACTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 15 0.68
27 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (25 bp):
TTATTAATAAATCAAATGAGATAAT
Found at i:12109454 original size:23 final size:25
Alignment explanation
Indices: 12109427--12109479 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
12109417 TTAACATTTA
12109427 TAAATAT-ATTTTAAAATTAA-AAT
1 TAAATATAATTTTAAAATTAATAAT
**
12109450 TAAAT-TAATTTTAATTTTAATAAT
1 TAAATATAATTTTAAAATTAATAAT
12109474 TAAATA
1 TAAATA
12109480 ATATCTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.04
23 16 0.64
24 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATATAATTTTAAAATTAATAAT
Found at i:12113085 original size:18 final size:17
Alignment explanation
Indices: 12113062--12113113 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
12113052 AACTTTCTCT
12113062 ACATAAGTCCCATCTATC
1 ACATAAGTCCCAT-TATC
* *
12113080 ACATAAGTCCTTATTCTC
1 ACATAAGTCC-CATTATC
12113098 ACATAAGTCCCTATTA
1 ACATAAGTCCC-ATTA
12113114 ACTTGATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (17 bp):
ACATAAGTCCCATTATC
Found at i:12113935 original size:14 final size:14
Alignment explanation
Indices: 12113916--12113943 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12113906 TTTGATTTAC
12113916 AAAAGAAAAATTTT
1 AAAAGAAAAATTTT
12113930 AAAAGAAAAATTTT
1 AAAAGAAAAATTTT
12113944 TTTTAATAGG
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:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAAGAAAAATTTT
Found at i:12114482 original size:16 final size:16
Alignment explanation
Indices: 12114461--12114492 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12114451 GAGCTTTTTG
12114461 CCCTAACAAGTGGTAT
1 CCCTAACAAGTGGTAT
*
12114477 CCCTAATAAGTGGTAT
1 CCCTAACAAGTGGTAT
12114493 TAGAGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (16 bp):
CCCTAACAAGTGGTAT
Found at i:12115490 original size:31 final size:31
Alignment explanation
Indices: 12115421--12115490 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
12115411 GGATATTTTA
12115421 CCTTAACAAGTGATATCAAAACTATGATGAT
1 CCTTAACAAGTGATATCAAAACTATGATGAT
* * * * *
12115452 CCCTAACAAGTGATGTTAAAGCTATGGTGAT
1 CCTTAACAAGTGATATCAAAACTATGATGAT
*
12115483 CTTTAACA
1 CCTTAACA
12115491 CACATAACCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (31 bp):
CCTTAACAAGTGATATCAAAACTATGATGAT
Found at i:12129225 original size:59 final size:59
Alignment explanation
Indices: 12129130--12129248 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
12129120 GGATACTTAA
* *
12129130 GGGATATTTGTTTTTGTATGTATGACTAATATTGAATGATGTAGGTTACTATTGTTGTT
1 GGGATATTTGTTTTTGTATGTATGACTAATAGTGAATGATGTAGGTTACTATTGTCGTT
12129189 GGGATATTTGTTTTTGTATGTATGACTAATAGTGAATGATGTAGGTTACTATTGTCGTT
1 GGGATATTTGTTTTTGTATGTATGACTAATAGTGAATGATGTAGGTTACTATTGTCGTT
12129248 G
1 G
12129249 TTGCGGTGCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.24, C:0.04, G:0.25, T:0.47
Consensus pattern (59 bp):
GGGATATTTGTTTTTGTATGTATGACTAATAGTGAATGATGTAGGTTACTATTGTCGTT
Found at i:12137676 original size:13 final size:13
Alignment explanation
Indices: 12137658--12137697 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
12137648 CATTAGGAGG
12137658 CTGAATTTTAAGT
1 CTGAATTTTAAGT
* *
12137671 CTGAATTTTAGGG
1 CTGAATTTTAAGT
12137684 CTGAA-TTTAAGT
1 CTGAATTTTAAGT
12137696 CT
1 CT
12137698 TTCGACTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (13 bp):
CTGAATTTTAAGT
Found at i:12139776 original size:62 final size:62
Alignment explanation
Indices: 12139663--12139844 Score: 179
Period size: 62 Copynumber: 3.0 Consensus size: 62
12139653 AACATTGCTG
* ** * * * * *
12139663 AGTTAGCGTTTTTTAATAACAAATGGAAATGATATCAACGATGTGCCTTAGTTGCATACCCA
1 AGTTAGCGTTGTTTAATGGCAAAAGGAAATGGTATTAATGATATGCCTTAGTTGCATACCCA
* * **
12139725 AGTTAGCATTGTTTAATGGCAAAAGGAAATGGTATTAATGATATGCTTTAGTTGCATACCTG
1 AGTTAGCGTTGTTTAATGGCAAAAGGAAATGGTATTAATGATATGCCTTAGTTGCATACCCA
* * * * * *
12139787 AGTTAGTGTTGTCT-ATGGAAAAAGGAAATAGT-GTACATGATATGCCTTAATTGCATAC
1 AGTTAGCGTTGTTTAATGGCAAAAGGAAATGGTATTA-ATGATATGCCTTAGTTGCATAC
12139845 AGGCGTTAAC
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
60 2 0.02
61 36 0.36
62 61 0.62
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (62 bp):
AGTTAGCGTTGTTTAATGGCAAAAGGAAATGGTATTAATGATATGCCTTAGTTGCATACCCA
Found at i:12139831 original size:61 final size:62
Alignment explanation
Indices: 12139706--12139844 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 62
12139696 ATCAACGATG
* * * *
12139706 TGCCTTAGTTGCATACCCAAGTTAGCATTGTTTAATGGCAAAAGGAAATGGTATTAATGATA
1 TGCCTTAGTTGCATACCCAAGTTAGCATTGTCTAATGGAAAAAGGAAATAGTAGTAATGATA
* ** **
12139768 TGCTTTAGTTGCATACCTGAGTTAGTGTTGTCT-ATGGAAAAAGGAAATAGT-GTACATGATA
1 TGCCTTAGTTGCATACCCAAGTTAGCATTGTCTAATGGAAAAAGGAAATAGTAGTA-ATGATA
*
12139829 TGCCTTAATTGCATAC
1 TGCCTTAGTTGCATAC
12139845 AGGCGTTAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
60 2 0.03
61 36 0.55
62 27 0.42
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.34
Consensus pattern (62 bp):
TGCCTTAGTTGCATACCCAAGTTAGCATTGTCTAATGGAAAAAGGAAATAGTAGTAATGATA
Found at i:12142775 original size:21 final size:21
Alignment explanation
Indices: 12142750--12142812 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
12142740 AGAATATTTC
12142750 GATTAAGATTTTTGAATAAAA
1 GATTAAGATTTTTGAATAAAA
* **
12142771 GATT-AG---GTT-AATTTAA
1 GATTAAGATTTTTGAATAAAA
12142787 GATTAAGATTTTTGAATAAAA
1 GATTAAGATTTTTGAATAAAA
*
12142808 AATTA
1 GATTA
12142813 GGTTAATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 10
0.64 0.15 0.21
Matches are distributed among these distances:
16 9 0.30
17 4 0.13
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
GATTAAGATTTTTGAATAAAA
Found at i:12142800 original size:37 final size:37
Alignment explanation
Indices: 12142750--12142827 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
12142740 AGAATATTTC
*
12142750 GATTAAGATTTTTGAATAAAAGATTAGGTTAATTTAA
1 GATTAAGATTTTTGAATAAAAAATTAGGTTAATTTAA
12142787 GATTAAGATTTTTGAATAAAAAATTAGGTTAATTTAA
1 GATTAAGATTTTTGAATAAAAAATTAGGTTAATTTAA
12142824 GATT
1 GATT
12142828 TTTTTGAGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (37 bp):
GATTAAGATTTTTGAATAAAAAATTAGGTTAATTTAA
Found at i:12142853 original size:31 final size:31
Alignment explanation
Indices: 12142818--12142894 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
12142808 AATTAGGTTA
12142818 ATTTAAGATTTTTTTGAGAGAA-TGTTTGATG
1 ATTTAAGATTTTTTTGAGAGAAGTGTTTG-TG
* * * *
12142849 ATTTATGATTATTTTGAGTGAAGTTTTTGTG
1 ATTTAAGATTTTTTTGAGAGAAGTGTTTGTG
12142880 ATTTAAGATTTTTTT
1 ATTTAAGATTTTTTT
12142895 TTTTTTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 34 0.87
32 5 0.13
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (31 bp):
ATTTAAGATTTTTTTGAGAGAAGTGTTTGTG
Found at i:12143492 original size:20 final size:20
Alignment explanation
Indices: 12143467--12143507 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12143457 TAAGTCATAT
*
12143467 TTTGGTGTTATATGTTTTTG
1 TTTGGTGTTATATGTTGTTG
*
12143487 TTTGGTTTTATATGTTGTTG
1 TTTGGTGTTATATGTTGTTG
12143507 T
1 T
12143508 CTAATCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.24, T:0.66
Consensus pattern (20 bp):
TTTGGTGTTATATGTTGTTG
Found at i:12144084 original size:30 final size:30
Alignment explanation
Indices: 12144032--12144113 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
12144022 TGGCAAAGGT
* * * *
12144032 TGGTTGTGATGATGTTGGTGTTGGAAAGAA
1 TGGTGGTGGTGATGTCGATGTTGGAAAGAA
* * *
12144062 TGGTGGTGGTGATGTCGATGTTGTAATGCA
1 TGGTGGTGGTGATGTCGATGTTGGAAAGAA
*
12144092 TGGTGGTAGTGATG-CTGATGTT
1 TGGTGGTGGTGATGTC-GATGTT
12144114 AGAGATAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 1 0.02
30 42 0.98
ACGTcount: A:0.18, C:0.04, G:0.40, T:0.38
Consensus pattern (30 bp):
TGGTGGTGGTGATGTCGATGTTGGAAAGAA
Found at i:12149047 original size:2 final size:2
Alignment explanation
Indices: 12149035--12149066 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12149025 TAGGCAAACT
*
12149035 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12149067 ACGGAAGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12155798 original size:20 final size:21
Alignment explanation
Indices: 12155768--12155814 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
12155758 CTTGAAAACA
12155768 TAAATTAAACTTGCAAA-AAAT
1 TAAATTAAACTTG-AAAGAAAT
12155789 TAAATT-AACTTGAAAGAAAT
1 TAAATTAAACTTGAAAGAAAT
*
12155809 TGAATT
1 TAAATT
12155815 GAATAGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
TAAATTAAACTTGAAAGAAAT
Found at i:12156950 original size:9 final size:9
Alignment explanation
Indices: 12156936--12156994 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
12156926 TTATTTGTAC
12156936 TTTTTTTAT
1 TTTTTTTAT
12156945 TTTTTTTAT
1 TTTTTTTAT
12156954 CTTTTTATTAT
1 -TTTTT-TTAT
* *
12156965 ATTTATTAT
1 TTTTTTTAT
*
12156974 TATATTTTAT
1 T-TTTTTTAT
*
12156984 CTTTTTTAT
1 TTTTTTTAT
12156993 TT
1 TT
12156995 ATCCTTCATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 21 0.54
10 14 0.36
11 4 0.10
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:12157054 original size:13 final size:13
Alignment explanation
Indices: 12157018--12157072 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
12157008 CTGTTATATC
*
12157018 TCTTTATTATTTA
1 TCTTTATTTTTTA
**
12157031 TC-TCCTTTTTTA
1 TCTTTATTTTTTA
12157043 TCTTTATTTTTTA
1 TCTTTATTTTTTA
*
12157056 T-TTTGTTTTCTTA
1 TCTTTATTTT-TTA
12157069 TCTT
1 TCTT
12157073 ATTCTTACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
12 16 0.48
13 15 0.45
14 2 0.06
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.73
Consensus pattern (13 bp):
TCTTTATTTTTTA
Found at i:12157064 original size:25 final size:26
Alignment explanation
Indices: 12157018--12157072 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
12157008 CTGTTATATC
12157018 TCTTTATTATTTATCTCCTTTT-TTA
1 TCTTTATTATTTATCTCCTTTTCTTA
* * **
12157043 TCTTTATTTTTTATTTTGTTTTCTTA
1 TCTTTATTATTTATCTCCTTTTCTTA
12157069 TCTT
1 TCTT
12157073 ATTCTTACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.73
Consensus pattern (26 bp):
TCTTTATTATTTATCTCCTTTTCTTA
Found at i:12158140 original size:211 final size:212
Alignment explanation
Indices: 12157849--12158247 Score: 513
Period size: 211 Copynumber: 1.9 Consensus size: 212
12157839 TGATCCTACT
* ** *
12157849 AAACTATTAGAAAATTTTATAAAAAAATTAAATTAAAAATATTTTTGAATTAATCCTACTTAACT
1 AAACTATTAGAAAATTTCATAAAAAAATTAAATTAAAAATATTTTTGAATTAATCCTACCAAAAT
** ** * **
12157914 ATTGAAAAATTAAATCTCGAGTTAAATCTTA-CTAAGCT-ATTGAAAGATTTAAT-TTTTTTAAA
66 ATTGAAAAATTAAATCAAGAGTTAAATCCAATC-AAACTAACAG-AAGATTTAATATTTTTT-AA
* * * *
12157976 AATATTT-TAATCATACCAAATTATTAGAA-GATTTAAATCTCATAATTGAATCTTACCAAACTA
128 AATATTTATAATCATACCAAACTATT-GAAGGATTTAAATATCAAAATTGAATATTACCAAACTA
12158039 TTGAAAGATTTAACTCTTACC
192 TTGAAAGATTTAACTCTTACC
* *
12158060 AAACTATTAGAGAATTTCATAAGAAAATTAAATTAAAAATA-TTTTGAATTAATCCTACCAAAAT
1 AAACTATTAGAAAATTTCATAAAAAAATTAAATTAAAAATATTTTTGAATTAATCCTACCAAAAT
* * *
12158124 TTTGGAGAATTTAAATCAAGAGTTAAATCCAATCAAACTAACAGAAGATTTAATATTTTTTAAAA
66 ATT-GAAAAATTAAATCAAGAGTTAAATCCAATCAAACTAACAGAAGATTTAATATTTTTTAAAA
* *
12158189 TATTTATAATCCTACCAAACTATTGAAGGATTTGAATATCAAAATTGAATATTACCAAA
130 TATTTATAATCATACCAAACTATTGAAGGATTTAAATATCAAAATTGAATATTACCAAA
12158248 GTCATAAATA
Statistics
Matches: 160, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
210 22 0.14
211 86 0.54
212 52 0.32
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (212 bp):
AAACTATTAGAAAATTTCATAAAAAAATTAAATTAAAAATATTTTTGAATTAATCCTACCAAAAT
ATTGAAAAATTAAATCAAGAGTTAAATCCAATCAAACTAACAGAAGATTTAATATTTTTTAAAAT
ATTTATAATCATACCAAACTATTGAAGGATTTAAATATCAAAATTGAATATTACCAAACTATTGA
AAGATTTAACTCTTACC
Found at i:12163333 original size:22 final size:22
Alignment explanation
Indices: 12163260--12163347 Score: 61
Period size: 23 Copynumber: 3.9 Consensus size: 22
12163250 AGAATATTTG
*
12163260 AAAA-TTTGTATGTGAATCTCT
1 AAAATTTTGAATGTGAATCTCT
* * * *
12163281 AAAATTTTTGAAAGAGAATTTTT
1 AAAA-TTTTGAATGTGAATCTCT
* *
12163304 GAAATTTTGGATGTGAATCTCT
1 AAAATTTTGAATGTGAATCTCT
* *
12163326 AAAGTTTTTCGAATGAGAATCT
1 AAA-ATTTT-GAATGTGAATCT
12163348 TTGAAATCTT
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.08
22 15 0.31
23 19 0.40
24 10 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (22 bp):
AAAATTTTGAATGTGAATCTCT
Found at i:12163363 original size:91 final size:90
Alignment explanation
Indices: 12163207--12163442 Score: 273
Period size: 91 Copynumber: 2.6 Consensus size: 90
12163197 TTTCAATTGC
* * * * * *
12163207 GAATTTTTTAATTTTGGATGTAAATCTTTAAAATTTCCAAATGAGAATATTTGAAAATTTGTATG
1 GAATTTTTGAATTTTGGATGTGAATCTCTAAAATTTTCGAATGAGAATATTTGAAAATTTATATG
12163272 TGAA-TCTCTAAA-ATTTTTGAAAGA
66 TGAATTC-CTAAAGATTTTTGAAAGA
* *
12163296 GAATTTTTGAAATTTTGGATGTGAATCTCTAAAGTTTTTCGAATGAGAATCTTTG-AAATCTTAT
1 GAATTTTTG-AATTTTGGATGTGAATCTCTAAA-ATTTTCGAATGAGAATATTTGAAAAT-TTAT
*
12163360 ATGTGAATTCCTAAAGTTTTTTGAAAGA
63 ATGTGAATTCCTAAAGATTTTTGAAAGA
* * * * *
12163388 -AGATATTTGAATTTTGGGTGTGAATATCTAAAATTTTCGAATGTGCATATTTGAA
1 GA-ATTTTTGAATTTTGGATGTGAATCTCTAAAATTTTCGAATGAGAATATTTGAA
12163443 TTTTGGATGT
Statistics
Matches: 124, Mismatches: 16, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
89 8 0.06
90 42 0.34
91 55 0.44
92 19 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (90 bp):
GAATTTTTGAATTTTGGATGTGAATCTCTAAAATTTTCGAATGAGAATATTTGAAAATTTATATG
TGAATTCCTAAAGATTTTTGAAAGA
Found at i:12163364 original size:46 final size:44
Alignment explanation
Indices: 12163246--12163484 Score: 191
Period size: 45 Copynumber: 5.4 Consensus size: 44
12163236 AAAATTTCCA
*
12163246 AATGAGAATATTTGAAAATTTGTATGTGAATCTCTAAAATTTTTG
1 AATGAGAATATTTG-AAATTTGTATGTGAATCTCTAAAGTTTTTG
* * *
12163291 AAAGAGAATTTTTGAAATTTTGGATGTGAATCTCTAAAGTTTTTCG
1 AATGAGAATATTTGAAA-TTTGTATGTGAATCTCTAAAGTTTTT-G
* *
12163337 AATGAGAATCTTTGAAATCTTATATGTGAAT-TCCTAAAGTTTTTTG
1 AATGAGAATATTTGAAAT-TTGTATGTGAATCT-CTAAAG-TTTTTG
* * ** * * *
12163383 AAAGA-AGATATTTGAATTTTGGGTGTGAATATCTAAAATTTTCG
1 AATGAGA-ATATTTGAAATTTGTATGTGAATCTCTAAAGTTTTTG
* * * * *
12163427 AATGTGCATATTTGAATTTTGGATGTGAGTCT-TGAAA-TTTTT-
1 AATGAGAATATTTGAAATTTGTATGTGAATCTCT-AAAGTTTTTG
* *
12163469 TATGTGAATATTTGAA
1 AATGAGAATATTTGAA
12163485 TTTTTCAAAT
Statistics
Matches: 160, Mismatches: 25, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
42 14 0.09
43 5 0.03
44 36 0.22
45 53 0.33
46 47 0.29
47 5 0.03
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.43
Consensus pattern (44 bp):
AATGAGAATATTTGAAATTTGTATGTGAATCTCTAAAGTTTTTG
Found at i:12163414 original size:21 final size:21
Alignment explanation
Indices: 12163390--12163488 Score: 83
Period size: 21 Copynumber: 4.6 Consensus size: 21
12163380 TTGAAAGAAG
*
12163390 ATATTTGAATTTTGGGTGTGA
1 ATATTTGAATTTTGGATGTGA
** * *
12163411 ATATCTAAAATTTTCGAATGTGC
1 ATAT-TTGAATTTT-GGATGTGA
12163434 ATATTTGAATTTTGGATGTGA
1 ATATTTGAATTTTGGATGTGA
* * **
12163455 GT-CTTGAAATTTTTTATGTGA
1 ATATTTG-AATTTTGGATGTGA
12163476 ATATTTGAATTTT
1 ATATTTGAATTTT
12163489 TCAAATGTAA
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
20 3 0.05
21 30 0.51
22 17 0.29
23 9 0.15
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.48
Consensus pattern (21 bp):
ATATTTGAATTTTGGATGTGA
Found at i:12163487 original size:42 final size:44
Alignment explanation
Indices: 12163207--12163488 Score: 176
Period size: 45 Copynumber: 6.3 Consensus size: 44
12163197 TTTCAATTGC
* * * * * * * *
12163207 GAATTTTTTAATTTTGGATGTAAATCTTTAAAATTTCCAAATGA
1 GAATATTTGAATTTTGGATGTGAATATCTAAAATTTTCGAATGT
* * * * * *
12163251 GAATATTTGAAAATTTGTATGTGAATCTCTAAAATTTTTGAAAGA
1 GAATATTTG-AATTTTGGATGTGAATATCTAAAATTTTCGAATGT
* * * *
12163296 GAATTTTTGAAATTTTGGATGTGAATCTCTAAAGTTTTTCGAATGA
1 GAATATTTG-AATTTTGGATGTGAATATCTAAA-ATTTTCGAATGT
* * ** * * *
12163342 GAATCTTTGAAATCTTATATGTGAAT-TCCTAAAGTTTTTTGAAAG-
1 GAATATTTG-AATTTTGGATGTGAATAT-CTAAA-ATTTTCGAATGT
* *
12163387 AAGATATTTGAATTTTGGGTGTGAATATCTAAAATTTTCGAATGT
1 GA-ATATTTGAATTTTGGATGTGAATATCTAAAATTTTCGAATGT
* * * * **
12163432 GCATATTTGAATTTTGGATGTGAGTCT-TGAAATTTT-TTATGT
1 GAATATTTGAATTTTGGATGTGAATATCTAAAATTTTCGAATGT
12163474 GAATATTTGAATTTT
1 GAATATTTGAATTTT
12163489 TCAAATGTAA
Statistics
Matches: 192, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
42 18 0.09
43 8 0.04
44 37 0.19
45 76 0.40
46 53 0.28
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (44 bp):
GAATATTTGAATTTTGGATGTGAATATCTAAAATTTTCGAATGT
Found at i:12163489 original size:21 final size:21
Alignment explanation
Indices: 12163428--12163517 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 21
12163418 AAATTTTCGA
* **
12163428 ATGTGCATATTTGAATTTTGG
1 ATGTGAATATTTGAATTTTTT
* *
12163449 ATGTGAGT-CTTGAAATTTTTT
1 ATGTGAATATTTG-AATTTTTT
*
12163470 ATGTGAATATTTGAATTTTTCAA
1 ATGTGAATATTTGAATTTTT--T
* *
12163493 ATGTAAATCTTTGAATTTTTT
1 ATGTGAATATTTGAATTTTTT
12163514 ATGT
1 ATGT
12163518 AAATCTTTCG
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
20 3 0.06
21 30 0.56
22 3 0.06
23 18 0.33
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (21 bp):
ATGTGAATATTTGAATTTTTT
Found at i:12163519 original size:21 final size:21
Alignment explanation
Indices: 12163462--12163530 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
12163452 TGAGTCTTGA
* *
12163462 AATTTTTTATGTGAATATTTG
1 AATTTTTTATGTAAATCTTTG
*
12163483 AATTTTTCAAATGTAAATCTTTG
1 AATTTTT--TATGTAAATCTTTG
12163506 AATTTTTTATGTAAATCTTTCG
1 AATTTTTTATGTAAATCTTT-G
12163528 AAT
1 AAT
12163531 GTGAATCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 19 0.46
22 4 0.10
23 18 0.44
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (21 bp):
AATTTTTTATGTAAATCTTTG
Found at i:12163555 original size:21 final size:21
Alignment explanation
Indices: 12163393--12163557 Score: 67
Period size: 21 Copynumber: 8.0 Consensus size: 21
12163383 AAAGAAGATA
* *
12163393 TTTGAATTTTGGGTGTGAATA
1 TTTGAATTTTGGATGTGAATC
** * * *
12163414 TCTAAAATTTTCGAATGTGCATA
1 T-TTGAATTTT-GGATGTGAATC
*
12163437 TTTGAATTTTGGATGTGAGTC
1 TTTGAATTTTGGATGTGAATC
** *
12163458 -TTGAAATTTTTTATGTGAATA
1 TTTG-AATTTTGGATGTGAATC
** *
12163479 TTTGAATTTTTCAAATGTAAATC
1 TTTGAA-TTTT-GGATGTGAATC
** *
12163502 TTTGAATTTTTTATGTAAATC
1 TTTGAATTTTGGATGTGAATC
12163523 TTTCG-A------ATGTGAATC
1 TTT-GAATTTTGGATGTGAATC
12163538 TTTGAATTTTGGATGTGAAT
1 TTTGAATTTTGGATGTGAAT
12163558 TTAGAAATTT
Statistics
Matches: 108, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
14 1 0.01
15 12 0.11
20 3 0.03
21 44 0.41
22 26 0.24
23 22 0.20
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.48
Consensus pattern (21 bp):
TTTGAATTTTGGATGTGAATC
Found at i:12163603 original size:101 final size:100
Alignment explanation
Indices: 12163418--12163605 Score: 225
Period size: 101 Copynumber: 1.9 Consensus size: 100
12163408 TGAATATCTA
* * *** *
12163418 AAATTTTCGAATGTGCATATTTGAATTTTGGATGTGAGTCTTGAAATTTTTTATGTGAATATTTG
1 AAATTTTCGAATGTGAATATTTGAATTTTGGATGTGAATCTTGAAATTTAAGATGTGAATATTTA
** *
12163483 AATTTTTCAAATGTAAATCTTTGAATTTTTTATGT
66 AAAATTACAAATGTAAATCTTTGAATTTTTTATGT
* * *
12163518 AAATCTTTCGAATGTGAATCTTTGAATTTTGGATGTGAAT-TTAGAAATTTAAGATGTGGATTTT
1 AAAT-TTTCGAATGTGAATATTTGAATTTTGGATGTGAATCTT-GAAATTTAAGATGTGAATATT
* *
12163582 TAAAAATTACAATTGTGAATCTTT
64 TAAAAATTACAAATGTAAATCTTT
12163606 ACAATGGCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
100 6 0.08
101 66 0.92
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (100 bp):
AAATTTTCGAATGTGAATATTTGAATTTTGGATGTGAATCTTGAAATTTAAGATGTGAATATTTA
AAAATTACAAATGTAAATCTTTGAATTTTTTATGT
Done.