Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 16 of 150
Found at i:4357846 original size:16 final size:16
Alignment explanation
Indices: 4357827--4357865 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4357817 GAAAATAAAG
4357827 AAAAAAAAAGAAAATT
1 AAAAAAAAAGAAAATT
* * *
4357843 AAAATAACATAAAATT
1 AAAAAAAAAGAAAATT
4357859 AAAAAAA
1 AAAAAAA
4357866 TTAAATTGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAAAAAGAAAATT
Found at i:4362075 original size:16 final size:16
Alignment explanation
Indices: 4362054--4362084 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4362044 ATTTATGCAA
*
4362054 AATAAAGATATATATT
1 AATAAAAATATATATT
4362070 AATAAAAATATATAT
1 AATAAAAATATATAT
4362085 GCCAAGATAT
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:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATAAAAATATATATT
Found at i:4368915 original size:110 final size:110
Alignment explanation
Indices: 4368722--4368941 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
4368712 CTATTTATAG
* * *
4368722 GAATTTTCATGTCTCTTCATAGAGACATTTTTCAATAAGTGTCTTTATGAATAATAATGTCTTTA
1 GAATTTTCATGTCTCTCCATAAAGACATCTTTCAATAAGTGTCTTTATGAATAATAATGTCTTTA
4368787 AAATAAACACATAATTATTCATTTAATATTATAACTATTTAAATA
66 AAATAAACACATAATTATTCATTTAATATTATAACTATTTAAATA
4368832 GAATTTTCATGTCTCTCCATAAAGACATCTTTCAATAAGTGTCTTTATGAATAATAATGTCTTTA
1 GAATTTTCATGTCTCTCCATAAAGACATCTTTCAATAAGTGTCTTTATGAATAATAATGTCTTTA
4368897 AAATAAACACATAATTATTCATTTAATATTATAACTATTTAAATA
66 AAATAAACACATAATTATTCATTTAATATTATAACTATTTAAATA
4368942 ATATTATTTA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (110 bp):
GAATTTTCATGTCTCTCCATAAAGACATCTTTCAATAAGTGTCTTTATGAATAATAATGTCTTTA
AAATAAACACATAATTATTCATTTAATATTATAACTATTTAAATA
Found at i:4368943 original size:32 final size:32
Alignment explanation
Indices: 4368907--4368968 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
4368897 AAATAAACAC
4368907 ATAATTATTCATTT-AAT-ATTATAACTATTTAA
1 ATAA-TATT-ATTTAAATAATTATAACTATTTAA
*
4368939 ATAATATTATTTAAATAATTATAATTATTT
1 ATAATATTATTTAAATAATTATAACTATTT
4368969 TTCAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 4 0.15
31 7 0.26
32 16 0.59
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (32 bp):
ATAATATTATTTAAATAATTATAACTATTTAA
Found at i:4368967 original size:18 final size:17
Alignment explanation
Indices: 4368917--4368968 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 17
4368907 ATAATTATTC
*
4368917 ATTT-AATATTATAACT
1 ATTTAAATATTATAATT
4368933 ATTTAAATA--AT-ATT
1 ATTTAAATATTATAATT
4368947 ATTTAAATAATTATAATT
1 ATTTAAAT-ATTATAATT
4368965 ATTT
1 ATTT
4368969 TTCAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 10 0.33
15 3 0.10
16 4 0.13
17 6 0.20
18 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAAATATTATAATT
Found at i:4374526 original size:29 final size:29
Alignment explanation
Indices: 4374484--4374550 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
4374474 TATTTAGATG
4374484 TAATT-CATTACTTAAGTAACCCAATAAAA
1 TAATTACA-TACTTAAGTAACCCAATAAAA
4374513 TAATTACATACTTAAGTAACCCAATAAAA
1 TAATTACATACTTAAGTAACCCAATAAAA
4374542 TAATTACAT
1 TAATTACAT
4374551 GTAGAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (29 bp):
TAATTACATACTTAAGTAACCCAATAAAA
Found at i:4374597 original size:18 final size:18
Alignment explanation
Indices: 4374571--4374633 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
4374561 GTAAAATAAA
*
4374571 TAAACAATACATTAATTT
1 TAAAAAATACATTAATTT
*
4374589 TAAAAAATAACTTTTAA-TT
1 TAAAAAAT-AC-ATTAATTT
4374608 TAAAAAA-ACA-TAATTATT
1 TAAAAAATACATTAA-T-TT
4374626 TAAAAAAT
1 TAAAAAAT
4374634 TAAATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
15 3 0.08
17 2 0.06
18 16 0.44
19 11 0.31
20 4 0.11
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAAAATACATTAATTT
Found at i:4378369 original size:6 final size:6
Alignment explanation
Indices: 4378358--4378452 Score: 190
Period size: 6 Copynumber: 15.8 Consensus size: 6
4378348 TGAAGGCACA
4378358 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
4378406 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG
4378453 ACTATATAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 89 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:4382990 original size:26 final size:25
Alignment explanation
Indices: 4382959--4383029 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
4382949 TAGTATAATG
4382959 TGAGATAAAAAGTAAGT-TTAATAAAA
1 TGAGATAAAAAGTAA-TATT-ATAAAA
* *
4382985 TTAGATATTATAA-TAATATTATAAAA
1 TGAGATA--AAAAGTAATATTATAAAA
4383011 TGAGATAAAAAGTAA-ATTA
1 TGAGATAAAAAGTAATATTA
4383030 AATGTATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
24 7 0.19
25 3 0.08
26 19 0.51
27 5 0.14
28 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.32
Consensus pattern (25 bp):
TGAGATAAAAAGTAATATTATAAAA
Found at i:4382992 original size:52 final size:52
Alignment explanation
Indices: 4382925--4383025 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
4382915 ATAATGGCGA
* * **
4382925 TAATGAAATTAGATATTATGATAATAGTATAATGTGAGATAAAAAGTAAGTT
1 TAATAAAATTAGATATTATAATAATAGTATAAAATGAGATAAAAAGTAAGTT
*
4382977 TAATAAAATTAGATATTATAATAATATTATAAAATGAGATAAAAAGTAA
1 TAATAAAATTAGATATTATAATAATAGTATAAAATGAGATAAAAAGTAA
4383026 ATTAAATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (52 bp):
TAATAAAATTAGATATTATAATAATAGTATAAAATGAGATAAAAAGTAAGTT
Found at i:4383158 original size:20 final size:20
Alignment explanation
Indices: 4383133--4383173 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4383123 TCCGTTGTTT
4383133 TTAAAATTTGGGCGGATGCA
1 TTAAAATTTGGGCGGATGCA
4383153 TTAAAATTTGGGCGGATGCA
1 TTAAAATTTGGGCGGATGCA
4383173 T
1 T
4383174 GTATTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (20 bp):
TTAAAATTTGGGCGGATGCA
Found at i:4383946 original size:36 final size:36
Alignment explanation
Indices: 4383899--4383967 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
4383889 AATTAATATT
4383899 ATGATCACTTTCTGATACTTAAATCAATCTATAAAC
1 ATGATCACTTTCTGATACTTAAATCAATCTATAAAC
* *
4383935 ATGATCACTTTCTGTTACTTAAATTAATCTATA
1 ATGATCACTTTCTGATACTTAAATCAATCTATA
4383968 GACAGAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (36 bp):
ATGATCACTTTCTGATACTTAAATCAATCTATAAAC
Found at i:4385764 original size:22 final size:22
Alignment explanation
Indices: 4385716--4385764 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
4385706 ATATCCAAAT
*
4385716 AATAATGACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
*
4385738 TATAATAACAAAATAGCTA-CAA
1 AATAATAACAAAATAG-TAGCAA
4385760 AATAA
1 AATAA
4385765 CAGCAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:4388301 original size:29 final size:29
Alignment explanation
Indices: 4388232--4388302 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
4388222 TAATTATAAA
* *
4388232 TAAATTTACATATAATAACATTAAAAATT
1 TAAATCTACATAAAATAACATTAAAAATT
* * *
4388261 AAAATC-ATATAAAATAAACATT-TAAATT
1 TAAATCTACATAAAAT-AACATTAAAAATT
4388289 TAAATCTACATAAA
1 TAAATCTACATAAA
4388303 GAAACAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAATCTACATAAAATAACATTAAAAATT
Found at i:4389121 original size:29 final size:30
Alignment explanation
Indices: 4389073--4389153 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
4389063 AATATAATAG
* *
4389073 TTAATATTTTTATAATTTTTAAAGAATAAAA
1 TTAA-ATTTTTATTATTTTTAAAGAACAAAA
* * *
4389104 TTAAATTTTTATTATTTTTGAGGACCAAAA
1 TTAAATTTTTATTATTTTTAAAGAACAAAA
*
4389134 -TAAATTTTTATTATTATTAA
1 TTAAATTTTTATTATTTTTAA
4389154 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 18 0.42
30 21 0.49
31 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (30 bp):
TTAAATTTTTATTATTTTTAAAGAACAAAA
Found at i:4391638 original size:36 final size:36
Alignment explanation
Indices: 4391591--4391661 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
4391581 GTAGGTGTTG
4391591 ATAACATAAATCAAAGAGAATCTAGAGAGGATGGAA
1 ATAACATAAATCAAAGAGAATCTAGAGAGGATGGAA
* *
4391627 ATAACATAAATCAAATAGAATCTAGGGAGGATGGA
1 ATAACATAAATCAAAGAGAATCTAGAGAGGATGGA
4391662 TTAATCTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (36 bp):
ATAACATAAATCAAAGAGAATCTAGAGAGGATGGAA
Found at i:4394621 original size:21 final size:21
Alignment explanation
Indices: 4394580--4394621 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4394570 TAACAGTAAT
* *
4394580 AGTAATATTAATTATTGTAAC
1 AGTAATATTAATTACTATAAC
*
4394601 AGTAATATTAGTTACTATAAC
1 AGTAATATTAATTACTATAAC
4394622 GGTGATGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
AGTAATATTAATTACTATAAC
Found at i:4395957 original size:17 final size:17
Alignment explanation
Indices: 4395905--4395957 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
4395895 TATGGAAACA
* *
4395905 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
4395922 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
4395941 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
4395958 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:4395976 original size:22 final size:22
Alignment explanation
Indices: 4395928--4395976 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4395918 TATGCAATCT
*
4395928 TAGATATGATATGTAATCTTAG
1 TAGATATGATATGTAATCTCAG
* *
4395950 AAGATATGATTTTGTAATCTCA-
1 TAGATATGA-TATGTAATCTCAG
4395972 TAGAT
1 TAGAT
4395977 TTAATTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
TAGATATGATATGTAATCTCAG
Found at i:4396171 original size:19 final size:21
Alignment explanation
Indices: 4396147--4396185 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
4396137 ACTGTTTTCT
*
4396147 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
4396166 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
4396186 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:4396416 original size:3 final size:3
Alignment explanation
Indices: 4396408--4396450 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
4396398 ATTAATTTTG
*
4396408 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
4396451 ACCTACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4396416 original size:15 final size:15
Alignment explanation
Indices: 4396392--4396449 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
4396382 GTTTTTAGTC
4396392 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
4396406 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
4396421 TATTATTATATTATATAT
1 TATTA-T-TATTA-ATTT
4396439 TATTATTATTA
1 TATTATTATTA
4396450 TACCTACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.09
15 13 0.37
16 6 0.17
17 6 0.17
18 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:4396539 original size:29 final size:31
Alignment explanation
Indices: 4396478--4396540 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
4396468 CATATGCATG
* *
4396478 TTAATATATATACATATATATTTTAAATGTT
1 TTAATATATATACATATATATTATAAATATT
*
4396509 TTAATATATATACATAT-TA-TATACATATT
1 TTAATATATATACATATATATTATAAATATT
4396538 TTA
1 TTA
4396541 TTATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 2 0.07
31 17 0.59
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAATATT
Found at i:4396601 original size:47 final size:48
Alignment explanation
Indices: 4396517--4396609 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 48
4396507 TTTTAATATA
* * **
4396517 TATACATATTATATACATATTTTATTATTATTTTATTTCATA-GTTTTT
1 TATACATATTATATACACATTTTATTATCATAATATTT-ATACGTTTTT
4396565 TATACATA-TATATACACATTTATATT-TCATAATATTTATACGTTT
1 TATACATATTATATACACATTT-TATTATCATAATATTTATACGTTT
4396610 GCCCATATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
47 24 0.62
48 12 0.31
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (48 bp):
TATACATATTATATACACATTTTATTATCATAATATTTATACGTTTTT
Found at i:4401178 original size:41 final size:41
Alignment explanation
Indices: 4401122--4401308 Score: 284
Period size: 41 Copynumber: 4.6 Consensus size: 41
4401112 GGTTTTAAAA
* * * *
4401122 CCTAGCAGACTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAGCTGAATCAGGCTATAAG
* * *
4401163 CCTTGCAGGCTAAGTGTCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAGCTGAATCAGGCTATAAG
4401204 CCTAGCAGGCTAAGTGCCGGTGAGCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAGCTGAATCAGGCTATAAG
* *
4401245 CCTAGCAGGCTAAGTGCCGGTGAGCTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAGCTGAATCAGGCTATAAG
*
4401286 CCTAGCAGGCTAAGTGCCAGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
4401309 ATCTGTTTAA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAGCTGAATCAGGCTATAAG
Found at i:4401657 original size:35 final size:35
Alignment explanation
Indices: 4401613--4401682 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
4401603 TTCGATGAAG
* *
4401613 TGCAAGTGATAAGCACATATATGCATTTAGATATA
1 TGCAAGTGATAAACACATATATACATTTAGATATA
* * *
4401648 TGCAGGTGATAAATACATATATACATTTAGTTATA
1 TGCAAGTGATAAACACATATATACATTTAGATATA
4401683 ATAAGTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (35 bp):
TGCAAGTGATAAACACATATATACATTTAGATATA
Found at i:4405564 original size:6 final size:6
Alignment explanation
Indices: 4405553--4405581 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4405543 CCCAAACAGG
4405553 ACTGAT ACTGAT ACTGAT ACTGAT ACTGA
1 ACTGAT ACTGAT ACTGAT ACTGAT ACTGA
4405582 AAAGGGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
ACTGAT
Found at i:4406250 original size:18 final size:20
Alignment explanation
Indices: 4406222--4406260 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
4406212 AAGTAACCAT
4406222 TTTTATTAAAT-TATAATTA
1 TTTTATTAAATGTATAATTA
4406241 TTTT-TTAAATGTATAATTA
1 TTTTATTAAATGTATAATTA
4406260 T
1 T
4406261 CAAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATTAAATGTATAATTA
Found at i:4408077 original size:25 final size:26
Alignment explanation
Indices: 4408023--4408077 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
4408013 TACTGGATTT
*
4408023 TGTTTAATGATGCTTTATTTGATACA
1 TGTTTAATGATGCTTTATTAGATACA
*
4408049 -GTTTAATG-TGCTTT-TTAGATCATA
1 TGTTTAATGATGCTTTATTAGAT-ACA
4408073 TGTTT
1 TGTTT
4408078 CAGATGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 12 0.48
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (26 bp):
TGTTTAATGATGCTTTATTAGATACA
Found at i:4409225 original size:46 final size:46
Alignment explanation
Indices: 4409175--4409462 Score: 252
Period size: 46 Copynumber: 6.4 Consensus size: 46
4409165 TTAATAGAGA
4409175 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * *
4409221 TGTTAAAATG-TAGCAAATTGAAGTATTTAAATGCTGTGAATTGAAG
1 TGTTAAAGTGCT-GCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
*
4409267 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * * *
4409313 TGTTTTAAGTACTG---A--G--GTGTATAAATGTTGTTAATTG-GG
1 TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * ** *
4409352 ATGTTAAAGTGTTGTAAGGTGAGGTGTTTAAATGCTGTAAATTGAAG
1 -TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * * * * * *
4409399 TGTTTAATTGTTGTAAATTGAGGTGCTGAAATGATGTAAATCGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
**
4409445 TGTTTGAGTGCTGCAAAT
1 TGTTAAAGTGCTGCAAAT
4409463 GATATATGAT
Statistics
Matches: 198, Mismatches: 32, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
39 9 0.05
40 21 0.11
42 1 0.01
44 2 0.01
45 1 0.01
46 153 0.77
47 11 0.06
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (46 bp):
TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
Found at i:4409317 original size:23 final size:23
Alignment explanation
Indices: 4409189--4409449 Score: 207
Period size: 23 Copynumber: 11.6 Consensus size: 23
4409179 AAAGTGCTGC
*
4409189 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4409212 AAATTGAAGTGTTAAAATGTAGC
1 AAATTGAAGTGTTTAAATGTTGT
* *
4409235 AAATTGAAGTATTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4409258 GAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
4409281 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4409304 AAATTGAAGTGTTTTAA----GT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4409323 --ACTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
4409344 TAATTG-GGATG-TTAAAGTGTTGT
1 AAATTGAAG-TGTTTAAA-TGTTGT
** * *
4409367 AAGGTGAGGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4409390 AAATTGAAGTGTTTAATTGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * * *
4409413 AAATTGAGGTGCTGAAATGATGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4409436 AAATCGAAGTGTTT
1 AAATTGAAGTGTTT
4409450 GAGTGCTGCA
Statistics
Matches: 186, Mismatches: 40, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
17 11 0.06
19 2 0.01
21 2 0.01
22 11 0.06
23 148 0.80
24 12 0.06
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGTTGT
Found at i:4411032 original size:28 final size:28
Alignment explanation
Indices: 4410974--4411035 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
4410964 TCTTTACAGC
* * *
4410974 AACAGCGTGGGCCTTAGCCCAATACAGT
1 AACAGTGTGGCCCTTAGCCCAATACAAT
4411002 AACAGTGTGGCCCTTAGCCCAATACAAT
1 AACAGTGTGGCCCTTAGCCCAATACAAT
4411030 AACAGT
1 AACAGT
4411036 ATAATGCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (28 bp):
AACAGTGTGGCCCTTAGCCCAATACAAT
Found at i:4411171 original size:26 final size:26
Alignment explanation
Indices: 4411141--4411217 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
4411131 ACACCAATAT
* *
4411141 CGCAGCAAAGCTGCCAGTAATAGTGA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
4411167 TGCAGCAAAGCTACCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
4411193 CGCAACAAAGTTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
4411218 TATGTGGCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:4411422 original size:27 final size:27
Alignment explanation
Indices: 4411392--4411669 Score: 299
Period size: 27 Copynumber: 10.3 Consensus size: 27
4411382 GGTATAACAA
* **
4411392 TCATTTTACCCTTTGGGGGTATTTTAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
4411419 TCATTTTA-CC-TTGCTAGGGTATTTCAG
1 TCATTTTACCCTTTG--AGGGTATTTCGG
* ** *
4411446 TCATTCTACCCTGCGAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
4411473 TTATTTTACCCTTTGGGGGTATTTTGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
4411500 TCATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
4411527 TTATTTTACCCTTTAAGGATATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
4411554 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
4411581 TTATTTTACCCTTCGGGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
4411608 TTATTTTACCTTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* ** *
4411635 TTATTTTACCCTTCAAAGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
4411662 TTATTTTA
1 TCATTTTA
4411670 GGCCCATTAC
Statistics
Matches: 216, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
25 3 0.01
26 2 0.01
27 208 0.96
28 2 0.01
29 1 0.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTTTGAGGGTATTTCGG
Found at i:4412367 original size:30 final size:32
Alignment explanation
Indices: 4412307--4412367 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
4412297 GAAGAGGGAG
*
4412307 AGAAAGGCAATATTCGGCCAAGAGAGAAGAAGAA
1 AGAAAGGCAATATTCGGCC-A-ACAGAAGAAGAA
4412341 AGAAAGGCAATATTCGGCC-ACA-AAGAA
1 AGAAAGGCAATATTCGGCCAACAGAAGAA
4412368 AATAGGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 5 0.19
31 2 0.08
34 19 0.73
ACGTcount: A:0.49, C:0.15, G:0.26, T:0.10
Consensus pattern (32 bp):
AGAAAGGCAATATTCGGCCAACAGAAGAAGAA
Found at i:4421193 original size:16 final size:15
Alignment explanation
Indices: 4421158--4421193 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4421148 CAAAATCAAG
4421158 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4421173 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4421188 ATTTTT
1 ATTTTT
4421194 CTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4422908 original size:22 final size:23
Alignment explanation
Indices: 4422881--4422929 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 23
4422871 TATATTTTAT
4422881 TTCAAATGTTTCATATT-TACAC
1 TTCAAATGTTTCATATTATACAC
4422903 TTCAAATGTTTCATATTCATACAC
1 TTCAAATGTTTCATATT-ATACAC
4422927 TTC
1 TTC
4422930 TCGATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.68
24 8 0.32
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCAAATGTTTCATATTATACAC
Found at i:4425515 original size:23 final size:23
Alignment explanation
Indices: 4425489--4425545 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
4425479 ATAGAAATAA
4425489 ATTAAAACATAATTATAAATATC
1 ATTAAAACATAATTATAAATATC
*
4425512 ATTAAATCATAATTATAAATATC
1 ATTAAAACATAATTATAAATATC
4425535 ATTAATAACAT
1 ATTAA-AACAT
4425546 CACAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAAAACATAATTATAAATATC
Found at i:4430312 original size:86 final size:86
Alignment explanation
Indices: 4430208--4430423 Score: 283
Period size: 86 Copynumber: 2.5 Consensus size: 86
4430198 CTAAAGAACG
** * ** * *
4430208 ATGCT-TTTAGCGACGTTTGTGAAAAAAAAGCCGCTAAAAGTCATTCTCTATAGA-GACGTTTGT
1 ATGCTCTTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATTCTCTATA-ACGACGTTTAT
*
4430271 GATAAAAGCGCCACTAAAGGTT
65 GATAAAAGCGCCACTAAAGGTC
* * *
4430293 ATGCTCTTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTCTTTAACGACGTTTATG
1 ATGCTCTTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATTCTCTATAACGACGTTTATG
4430358 ATAAAAGCGCCACTAAAGGTC
66 ATAAAAGCGCCACTAAAGGTC
* * *
4430379 AAGTTCTTTAGCAGTGTTTGTGATAAAAGCGCCGCTAAAGGTCAT
1 ATGCTCTTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCAT
4430424 GTTCTTTAGC
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
85 6 0.05
86 108 0.95
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (86 bp):
ATGCTCTTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATTCTCTATAACGACGTTTATG
ATAAAAGCGCCACTAAAGGTC
Found at i:4430433 original size:43 final size:44
Alignment explanation
Indices: 4430213--4430433 Score: 238
Period size: 43 Copynumber: 5.1 Consensus size: 44
4430203 GAACGATGCT
* ** *
4430213 TTTAGC-GACGTTTGTGAAAAAAAAGCCGCTAAAAGTCAT-TCTC
1 TTTAGCAGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGT-TC
* * * *
4430256 TATAG-AGACGTTTGTGATAAAAGCGCCACTAAAGGTTATGCTC
1 TTTAGCAGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
** * *
4430299 TTTAGC-GGTGTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTC
1 TTTAGCAGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
4430342 TTTAAC-GACGTTTATGATAAAAGCGCCACTAAAGGTCAAGTTC
1 TTTAGCAGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
*
4430385 TTTAGCAG-TGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCAGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
4430428 TTTAGC
1 TTTAGC
4430434 TGCTTAAAAG
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
43 146 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
TTTAGCAGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:4432703 original size:37 final size:37
Alignment explanation
Indices: 4432642--4432871 Score: 320
Period size: 37 Copynumber: 6.0 Consensus size: 37
4432632 TACGTATGAT
*
4432642 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
4432677 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
4432714 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
4432751 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
4432788 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
4432825 TAAAGCTATTACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 -----C----ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
4432871 C
1 C
4432872 GAAGCTATCA
Statistics
Matches: 176, Mismatches: 8, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
35 9 0.05
36 4 0.02
37 126 0.72
41 1 0.01
42 1 0.01
46 35 0.20
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:4432842 original size:46 final size:46
Alignment explanation
Indices: 4432788--4433161 Score: 304
Period size: 46 Copynumber: 7.6 Consensus size: 46
4432778 TAAGTGTAGC
* * **
4432788 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
4432834 TACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
4432880 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * * * *
4432932 CACTTATCACTTTCCACTTTCCACTTG-TCACTTGATCAG-ATAAG-TGTAGCTGAAG
1 CACTTATCAC-TT----TGT-CACTTGATCA---GATAAGTAT-AGCCGAAGCT--AT
**
4432987 CTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 C-A-CTT--ATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
4433037 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
4433083 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
4433135 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4433162 AGTACTCAAA
Statistics
Matches: 270, Mismatches: 28, Indels: 60
0.75 0.08 0.17
Matches are distributed among these distances:
46 117 0.43
47 1 0.00
48 2 0.01
49 2 0.01
50 5 0.02
51 12 0.04
52 96 0.36
53 12 0.04
54 12 0.04
55 2 0.01
56 1 0.00
57 1 0.00
58 2 0.01
59 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:4432901 original size:52 final size:52
Alignment explanation
Indices: 4432835--4433155 Score: 378
Period size: 46 Copynumber: 6.2 Consensus size: 52
4432825 TAAAGCTATT
* *
4432835 ACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
1 ACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
*
4432888 ACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
* *
4432940 ACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATC
1 AC--T----TTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
4432999 AC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
*
4433045 AC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
* * ** *
4433091 ACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
4433143 ACTTTGTCACTTG
1 ACTTT-TCACTTG
4433156 ATCAGAAGTA
Statistics
Matches: 240, Mismatches: 14, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.37
50 1 0.00
52 86 0.36
53 14 0.06
54 1 0.00
58 3 0.01
59 47 0.20
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
Found at i:4432950 original size:59 final size:58
Alignment explanation
Indices: 4432877--4433003 Score: 218
Period size: 59 Copynumber: 2.2 Consensus size: 58
4432867 TAGCCGAAGC
*
4432877 TATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTT-TCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
4432936 TATCACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTT-CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
4432995 TATCACTTT
1 TATCACTTT
4433004 GTCACTTGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (58 bp):
TATCACTTTCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:4436330 original size:49 final size:50
Alignment explanation
Indices: 4436275--4436371 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 50
4436265 TTCGTTTTCT
* *
4436275 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATAATCACATAC
*
4436324 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATAATCACAT
4436372 GTTCACATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 36 0.82
50 8 0.18
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATAATCACATAC
Found at i:4439463 original size:20 final size:20
Alignment explanation
Indices: 4439438--4439476 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4439428 TGCATGTCGT
4439438 TAATTATTTATCCTTTGTGC
1 TAATTATTTATCCTTTGTGC
4439458 TAATTATTTATCCTTTGTG
1 TAATTATTTATCCTTTGTG
4439477 TTGTCAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (20 bp):
TAATTATTTATCCTTTGTGC
Found at i:4440118 original size:13 final size:12
Alignment explanation
Indices: 4440095--4440157 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
4440085 AATAATTTTA
4440095 TATTAAAATTAT
1 TATTAAAATTAT
4440107 TATT-AAA-TAT
1 TATTAAAATTAT
4440117 TATTAATAATTA-
1 TATTAA-AATTAT
*
4440129 TATTAAGAA-TGT
1 TATTAA-AATTAT
4440141 TATT-AAATTAT
1 TATTAAAATTAT
4440152 ATATTA
1 -TATTA
4440158 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:4440122 original size:22 final size:23
Alignment explanation
Indices: 4440095--4440157 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
4440085 AATAATTTTA
4440095 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
4440117 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
4440141 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
4440158 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:4440236 original size:61 final size:57
Alignment explanation
Indices: 4440120--4440256 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 57
4440110 TAAATATTAT
* * * *
4440120 TAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
* *
4440178 TAATAATTATGTTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTAA
1 TAATAATTATATTAAAATATGATTAAATTA--TA-TATTA-TTTTATTAAAATATATTTAA
* *
4440239 CAATAATCATATTAAAAT
1 TAATAATTATATTAAAAT
4440257 TTAATAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 13 0.20
58 14 0.21
59 2 0.03
60 4 0.06
61 33 0.50
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (57 bp):
TAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
Found at i:4440269 original size:25 final size:26
Alignment explanation
Indices: 4440222--4440273 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
4440212 TTTTTATTTT
*
4440222 TATTAAAATATATTTAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
*
4440248 TATTAAAATTTA-ATAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
4440273 T
1 T
4440274 CTACCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTAAAATATATATAACAATAATCA
Found at i:4443858 original size:15 final size:15
Alignment explanation
Indices: 4443835--4443864 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4443825 AAATAATAGT
4443835 TATAATGTTTTTATC
1 TATAATGTTTTTATC
*
4443850 TATATTGTTTTTATC
1 TATAATGTTTTTATC
4443865 CCTCAACAAA
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:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TATAATGTTTTTATC
Found at i:4447165 original size:18 final size:18
Alignment explanation
Indices: 4447142--4447176 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4447132 CTCACCTTTA
4447142 TTTTTAATTTTTCTTTTT
1 TTTTTAATTTTTCTTTTT
*
4447160 TTTTTAGTTTTTCTTTT
1 TTTTTAATTTTTCTTTT
4447177 GGATCAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTAATTTTTCTTTTT
Found at i:4447761 original size:14 final size:15
Alignment explanation
Indices: 4447744--4447776 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4447734 AAATTTTAAG
4447744 AAAAAAATAAAA-AT
1 AAAAAAATAAAACAT
*
4447758 AAAAATATAAAACAT
1 AAAAAAATAAAACAT
4447773 AAAA
1 AAAA
4447777 CTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAACAT
Found at i:4449625 original size:8 final size:8
Alignment explanation
Indices: 4449612--4449654 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
4449602 GTTTATAAAG
4449612 AGATATAT
1 AGATATAT
4449620 AGATATAT
1 AGATATAT
*
4449628 ATATATAAT
1 AGATAT-AT
*
4449637 AAGATATAA
1 -AGATATAT
4449646 AGATATAT
1 AGATATAT
4449654 A
1 A
4449655 TAAATAGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 21 0.72
9 3 0.10
10 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AGATATAT
Found at i:4453524 original size:21 final size:22
Alignment explanation
Indices: 4453478--4453524 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4453468 GAAAAATAAA
* *
4453478 AAAAATCGAATACAAACAGTCG
1 AAAAATCGAAAACAAACAGTAG
*
4453500 -AAAATCGAAAACAAAGAG-AG
1 AAAAATCGAAAACAAACAGTAG
4453520 AAAAA
1 AAAAA
4453525 AAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAATCGAAAACAAACAGTAG
Found at i:4456436 original size:31 final size:32
Alignment explanation
Indices: 4456398--4456464 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 32
4456388 GCCCGGCCTG
4456398 AATTATATATTAAATATATAT-TTTTATTTTT
1 AATTATATATTAAATATATATATTTTATTTTT
4456429 AATTATATATTAAATATATATAATTTTATTTTT
1 AATTATATATTAAATATATAT-ATTTTATTTTT
4456462 AAT
1 AAT
4456465 CAAATATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 21 0.62
33 13 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
AATTATATATTAAATATATATATTTTATTTTT
Found at i:4456448 original size:33 final size:31
Alignment explanation
Indices: 4456398--4456464 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 31
4456388 GCCCGGCCTG
*
4456398 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATAATTTTATTTTT
4456429 AATTATATATTAAATATATATAATTTTATTTTT
1 AATTATATATT-AA-ATATATAATTTTATTTTT
4456462 AAT
1 AAT
4456465 CAAATATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 11 0.33
32 2 0.06
33 20 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
AATTATATATTAAATATATAATTTTATTTTT
Found at i:4456491 original size:20 final size:20
Alignment explanation
Indices: 4456436--4456499 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
4456426 TTTAATTATA
4456436 TATTAAATATATATAATTTT
1 TATTAAATATATATAATTTT
* * * *
4456456 ATTTTTAATCAAATATACTTTT
1 -TATTAAAT-ATATATAATTTT
*
4456478 TATTAAATATATATATTTTT
1 TATTAAATATATATAATTTT
4456498 TA
1 TA
4456500 GACTTTTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 12 0.35
21 12 0.35
22 10 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAAATATATATAATTTT
Found at i:4456493 original size:22 final size:22
Alignment explanation
Indices: 4456434--4456499 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
4456424 TTTTTAATTA
4456434 TATATTAAATATATATA-ATTT
1 TATATTAAATATATATATATTT
* *
4456455 TATTTTTAATCA-A-ATATACTTT
1 TATATTAAAT-ATATATATA-TTT
*
4456477 T-TATTAAATATATATATTTTT
1 TATATTAAATATATATATATTT
4456498 TA
1 TA
4456500 GACTTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 11
0.68 0.10 0.22
Matches are distributed among these distances:
20 4 0.12
21 21 0.62
22 9 0.26
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATTAAATATATATATATTT
Found at i:4462578 original size:16 final size:15
Alignment explanation
Indices: 4462543--4462578 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4462533 CAAAATCAAG
4462543 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4462558 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4462573 ATTTTT
1 ATTTTT
4462579 CCTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4465424 original size:15 final size:15
Alignment explanation
Indices: 4465399--4465433 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4465389 GACTCTATTT
*
4465399 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
4465413 TAATTAATATTAAGA
1 TAATTAATATTAAGA
4465428 TAATTA
1 TAATTA
4465434 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:4469427 original size:4 final size:4
Alignment explanation
Indices: 4469418--4469487 Score: 56
Period size: 4 Copynumber: 16.5 Consensus size: 4
4469408 AATTTTTATT
4469418 TTTA TTTA TTT- TTTA TTTTA TTTTA TTTA TTTTAA TTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA -TTT-A TTTA TTTA TTTA
4469464 CTTTA TTTTA TTT- TATTA TTTA TT
1 -TTTA -TTTA TTTA T-TTA TTTA TT
4469488 ACTTATTTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
3 7 0.12
4 26 0.46
5 23 0.40
6 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:4469432 original size:17 final size:17
Alignment explanation
Indices: 4469410--4469495 Score: 72
Period size: 17 Copynumber: 5.1 Consensus size: 17
4469400 GGCAACCCAA
4469410 TTTTTATTTTTATTTAT
1 TTTTTATTTTTATTTAT
4469427 TTTTTA-TTTTA-TT-T
1 TTTTTATTTTTATTTAT
* *
4469441 TATTTATTTTAATTTAT
1 TTTTTATTTTTATTTAT
* *
4469458 TTATTA-CTTTATTTTAT
1 TTTTTATTTTTA-TTTAT
*
4469475 TTTATTATTTATTACTTAT
1 TTT-TTATTT-TTATTTAT
4469494 TT
1 TT
4469496 GGATATTAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 6 0.11
15 6 0.11
16 10 0.19
17 18 0.34
18 3 0.06
19 7 0.13
20 3 0.06
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTTATTTAT
Found at i:4469436 original size:5 final size:5
Alignment explanation
Indices: 4469411--4469480 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
4469401 GCAACCCAAT
* *
4469411 TTTTA TTTTTA TTTATT TTTTA TTTTA TTTTA -TTTA TTTTA ATTTA TTTATTA
1 TTTTA -TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
*
4469464 CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
4469481 ATTTATTACT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.07
5 36 0.67
6 11 0.20
7 3 0.06
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:4469450 original size:31 final size:32
Alignment explanation
Indices: 4469411--4469487 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
4469401 GCAACCCAAT
* *
4469411 TTTTATTTTTATTTATTTTTTATTTTATTTTA
1 TTTTATTTTTATTTATTTATTACTTTATTTTA
*
4469443 -TTTATTTTAATTTATTTATTACTTTATTTTA
1 TTTTATTTTTATTTATTTATTACTTTATTTTA
4469474 TTTTATTATTTATT
1 TTTTATT-TTTATT
4469488 ACTTATTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 28 0.72
32 6 0.15
33 5 0.13
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTTATTTTTATTTATTTATTACTTTATTTTA
Found at i:4469494 original size:36 final size:35
Alignment explanation
Indices: 4469419--4469495 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
4469409 ATTTTTATTT
* *
4469419 TTATTTATTTTTTATTTTATTTTATTTATTTTAAT
1 TTATTTATTCTTTATTTTATTTTATTTATTTTAAC
*
4469454 TTATTTATTACTTTATTTTATTTTA-TTATTTATTAC
1 TTATTTATT-CTTTATTTTATTTTATTTATTT-TAAC
4469490 TTATTT
1 TTATTT
4469496 GGATATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 15 0.41
36 22 0.59
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (35 bp):
TTATTTATTCTTTATTTTATTTTATTTATTTTAAC
Found at i:4469691 original size:22 final size:21
Alignment explanation
Indices: 4469642--4469701 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
4469632 GGCCAGAATG
* *
4469642 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
4469664 CTTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCC-TATC
* *
4469686 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
4469702 ACCCCTCAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:4470829 original size:101 final size:101
Alignment explanation
Indices: 4470640--4470830 Score: 260
Period size: 101 Copynumber: 1.9 Consensus size: 101
4470630 AAGAACATGT
* *
4470640 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCTCGTCAAAAAGTTCGATGTG
1 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAAGTTCGATATG
* * *
4470705 TTCTTAAGAAAAAATTATAATAAATTAGGAGTCTGC
66 TCCTAAAGAAAAAATAATAATAAATTAGGAGTCTGC
* * *
4470741 TGGGTTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAAGTTC-G-ATA
* *
4470806 T-TCCTAAAGCATAAATAAT-ATAAAT
64 TGTCCTAAAGAAAAAATAATAATAAAT
4470831 AATAAATAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 61 0.78
102 14 0.18
103 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAAGTTCGATATG
TCCTAAAGAAAAAATAATAATAAATTAGGAGTCTGC
Found at i:4472829 original size:30 final size:31
Alignment explanation
Indices: 4472793--4472853 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
4472783 CTTATTATGA
4472793 AAAGTCAAAGATAT-GAGTATC-AAATATTGG
1 AAAGTCAAAGATATAG-GTATCGAAATATTGG
4472823 AAAGTCAAAGATATAGGTATCGAAATATTGG
1 AAAGTCAAAGATATAGGTATCGAAATATTGG
4472854 CATAAGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (31 bp):
AAAGTCAAAGATATAGGTATCGAAATATTGG
Found at i:4475464 original size:21 final size:21
Alignment explanation
Indices: 4475440--4475481 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4475430 GATTGTTTTC
*
4475440 AGTAGAGATGTGACTTTTGAT
1 AGTAGAAATGTGACTTTTGAT
4475461 AGTAGAAATGTGACTTTTGAT
1 AGTAGAAATGTGACTTTTGAT
4475482 GAATCAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (21 bp):
AGTAGAAATGTGACTTTTGAT
Found at i:4477456 original size:30 final size:31
Alignment explanation
Indices: 4477422--4477485 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
4477412 ATCCATATTA
*
4477422 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGAGTATCGAAATAT
4477452 TGGAAAGTCAAAGATATGAGTATCGAAATAT
1 TGGAAAGTCAAAGATATGAGTATCGAAATAT
4477483 TGG
1 TGG
4477486 CATAAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGAGTATCGAAATAT
Found at i:4477462 original size:15 final size:16
Alignment explanation
Indices: 4477420--4477469 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
4477410 TCATCCATAT
4477420 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
4477436 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
4477451 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
4477466 TATG
1 TATG
4477470 AGTATCGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.54
16 8 0.31
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:4478963 original size:13 final size:13
Alignment explanation
Indices: 4478911--4478963 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
4478901 TAAACCAAAC
4478911 TTTTCAAAAGCACT
1 TTTTCAAAAGCA-T
* * *
4478925 TTTTC-ACATCAC
1 TTTTCAAAAGCAT
*
4478937 TTTTCAAAAACAT
1 TTTTCAAAAGCAT
4478950 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
4478963 T
1 T
4478964 GCCAAACTAG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 5 0.16
13 21 0.68
14 5 0.16
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:4479108 original size:18 final size:17
Alignment explanation
Indices: 4479077--4479110 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4479067 CAGCTAAATT
4479077 AAAAATTATAATTTTTA
1 AAAAATTATAATTTTTA
*
4479094 AAAAATATATGATTTTT
1 AAAAAT-TATAATTTTT
4479111 TCTAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AAAAATTATAATTTTTA
Found at i:4483213 original size:29 final size:29
Alignment explanation
Indices: 4483171--4483243 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
4483161 CTACAATTGG
*
4483171 AACAAAATGTAAGAAATCCATTTGCATTA
1 AACAAAATGTAAGAAATCCATGTGCATTA
* *
4483200 AACAAAATGTAAGAAATCTATGTGTATTA
1 AACAAAATGTAAGAAATCCATGTGCATTA
4483229 AACAAAATGTAAGAA
1 AACAAAATGTAAGAA
4483244 CACATATGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (29 bp):
AACAAAATGTAAGAAATCCATGTGCATTA
Found at i:4484811 original size:9 final size:9
Alignment explanation
Indices: 4484794--4484869 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
4484784 GTAGTGATTC
*
4484794 AATTTGGTT
1 AATTCGGTT
4484803 AATTCGGTT
1 AATTCGGTT
*
4484812 AATTCGGGT
1 AATTCGGTT
*
4484821 AATTCGGGT
1 AATTCGGTT
4484830 AATTCGGTT
1 AATTCGGTT
*
4484839 AATTCGGGT
1 AATTCGGTT
4484848 AATTCGGTT
1 AATTCGGTT
4484857 AATTCGGTT
1 AATTCGGTT
4484866 AATT
1 AATT
4484870 TGTTTAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4484878 original size:27 final size:27
Alignment explanation
Indices: 4484794--4484869 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
4484784 GTAGTGATTC
*
4484794 AATTTGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
4484821 AATTCGGGTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
4484848 AATTCGGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
4484870 TGTTTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:4491818 original size:20 final size:20
Alignment explanation
Indices: 4491791--4491841 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
4491781 AAAATAAAAT
**
4491791 ATTTTTATTTATTTTGAAG-
1 ATTTTTATTTATTTACAAGA
4491810 ATGTTTTATTT-TTTACAAGA
1 AT-TTTTATTTATTTACAAGA
4491830 ATTTTTATTTAT
1 ATTTTTATTTAT
4491842 ATTTCTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (20 bp):
ATTTTTATTTATTTACAAGA
Found at i:4492564 original size:16 final size:15
Alignment explanation
Indices: 4492539--4492568 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4492529 ATACTAAAGG
4492539 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
4492554 AAAAGGAAAAGAAAA
1 AAAA-GAAAAGAAAA
4492569 GAGAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:4495222 original size:2 final size:2
Alignment explanation
Indices: 4495215--4495263 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4495205 AATTTAACTA
4495215 AT AT 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 AT AT
4495257 AT A- AT AT
1 AT AT AT AT
4495264 GATAAGTGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4499368 original size:16 final size:18
Alignment explanation
Indices: 4499337--4499369 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4499327 GTTAATAGAA
4499337 TAAATTTAGTTTTAATTG
1 TAAATTTAGTTTTAATTG
4499355 TAAATTT-G-TTTAATT
1 TAAATTTAGTTTTAATT
4499370 TTTCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (18 bp):
TAAATTTAGTTTTAATTG
Found at i:4500451 original size:309 final size:306
Alignment explanation
Indices: 4499689--4500533 Score: 849
Period size: 308 Copynumber: 2.7 Consensus size: 306
4499679 GAAAATTACA
* * * * * *
4499689 GGAACGCACATCCATAATTAAAATAAAGAATATTTTTTGAGTGTATTTTAGTCTTTTCACTTTAA
1 GGAATGCACATCCGTAATTAAAAT-AATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
* * * * ** ** * * *
4499754 AAATCAATAAAAAGCA-AGGATATGATAGGATTCAAACCCATGCCAAGTGCATTAGTAAAATATT
65 AAATCAATAAAAA-TATA-CATATGGTAAGATTTGAACCCACACCAATTGCATTAATAAAACATT
*
4499818 TAATTTACCACTCAACTAAAGCTTCATTTTAATATTTTTATACATTTTAGTTTTATTATGCACAT
128 TAATTTACCACTCAACTAAA-CTT-ATTTTAATATTTTTATACATTTTAATTTTATTATGCACAT
* * * * *
4499883 TCTATTATCTC-C--ATTA-A-ATGTATA-TTTATATCTATCTATACTATTGTTTAAACTCTTGA
191 TTTATTACCTCACTAATTATATATCTATACTTTATATCTATCTATACTATTATTTAAACTCCTGA
* * * *
4499942 CTGAGTTGGTGTCGCAAGTCAACCGAGCACGAACTAATTGGTTAGGAAATTATG
256 CTGAGTTGATGTCACAACTCAACCGAGCACCAACTAA---GTTAGGAAATTATG
* * * *
4499996 GGAATGCACATCCTTAATTAAAATAAGTAATATTATTC-AGGGTATTTTAGTCTTTTTTAATTTA
1 GGAATGCACATCCGTAATTAAAATAA-TAATATTATTCGAGTGTATTTTAGTC--TTTTCACTTA
* * ** * * * * *
4500060 AAAAATGAATAAAATTATGTATATGGTGAGATTTGAATCTACACCAATTGCATT-ATAAAGCCTT
63 AAAAATCAATAAAAATATACATATGGTAAGATTTGAACCCACACCAATTGCATTAATAAAACATT
*
4500124 TAATTTACCACTCAACTAAACATTAATTTTAATATTTTTATAAATTTTAATTTTATTATGCACAT
128 TAATTTACCACTCAACTAAAC-TT-ATTTTAATATTTTTATACATTTTAATTTTATTATGCACAT
* * *
4500189 TTTATTACCTCCACTAATTATATATCTATACTTGTATAT-TATTTATACTATTATTTCAGCTCCT
191 TTTATTACCT-CACTAATTATATATCTATACTT-TATATCTATCTATACTATTATTTAAACTCCT
* * *
4500253 G-CTGAGTTGATGTCAC-CCTCAACCGGGTCACCAACTCAA-TTAGGAAGTTATG
254 GACTGAGTTGATGTCACAACTCAACCGAG-CACCAACT-AAGTTAGGAAATTATG
* * *
4500305 GGAATGCACTTTCGTAATTAAAGTATATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
1 GGAATGCACATCCGTAATTAAAATA-ATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
* *
4500370 AAACCAATAAAAATATACATATGGTAAAATTTGAACCCACACCAATTGCATTAATAAAACATTTA
65 AAATCAATAAAAATATACATATGGTAAGATTTGAACCCACACCAATTGCATTAATAAAACATTTA
* * *
4500435 ATTTACC-GTGCAACTAAAGTT-TTTATATATATTTTTATACATTTTAATTTTATTATGCACACT
130 ATTTACCACT-CAACTAAACTTATTT-TA-ATATTTTTATACATTTTAATTTTATTATGCACATT
* *
4500498 TTATTACCTTCA-TCAGTTGTATATCTATACTATTAT
192 TTATTACC-TCACT-AATTATATATCTATACT-TTAT
4500534 TTAAATTCCT
Statistics
Matches: 444, Mismatches: 70, Indels: 47
0.79 0.12 0.08
Matches are distributed among these distances:
305 1 0.00
306 92 0.21
307 59 0.13
308 138 0.31
309 71 0.16
310 18 0.04
311 9 0.02
312 26 0.06
313 25 0.06
314 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (306 bp):
GGAATGCACATCCGTAATTAAAATAATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAAA
AATCAATAAAAATATACATATGGTAAGATTTGAACCCACACCAATTGCATTAATAAAACATTTAA
TTTACCACTCAACTAAACTTATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTTTAT
TACCTCACTAATTATATATCTATACTTTATATCTATCTATACTATTATTTAAACTCCTGACTGAG
TTGATGTCACAACTCAACCGAGCACCAACTAAGTTAGGAAATTATG
Found at i:4501594 original size:21 final size:21
Alignment explanation
Indices: 4501570--4501610 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4501560 GTCAATAACC
4501570 AAATGTTCACACAAACAGACA
1 AAATGTTCACACAAACAGACA
**
4501591 AAATGTTCTGACAAACAGAC
1 AAATGTTCACACAAACAGAC
4501611 GTATGTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.12, T:0.17
Consensus pattern (21 bp):
AAATGTTCACACAAACAGACA
Found at i:4508746 original size:16 final size:17
Alignment explanation
Indices: 4508725--4508758 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4508715 TGGTAGAGTT
4508725 GAAAGAAAA-TGGAGAG
1 GAAAGAAAATTGGAGAG
4508741 GAAAGAAAATTGGAGAG
1 GAAAGAAAATTGGAGAG
4508758 G
1 G
4508759 TAGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (17 bp):
GAAAGAAAATTGGAGAG
Found at i:4510499 original size:19 final size:19
Alignment explanation
Indices: 4510477--4510513 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4510467 CTTGCATGCT
4510477 AATATACAAATAACATATA
1 AATATACAAATAACATATA
* *
4510496 AATATATACATAACATAT
1 AATATACAAATAACATAT
4510514 TAGCTAGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATACAAATAACATATA
Found at i:4513748 original size:16 final size:17
Alignment explanation
Indices: 4513727--4513760 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4513717 TCTTTCATTT
4513727 TTTTAAATAT-ATTTAA
1 TTTTAAATATAATTTAA
*
4513743 TTTTAAATCTAATTTAA
1 TTTTAAATATAATTTAA
4513760 T
1 T
4513761 GATTAAGCTC
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:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATATAATTTAA
Found at i:4519349 original size:12 final size:12
Alignment explanation
Indices: 4519332--4519356 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4519322 ACACAGTCAA
4519332 ATTTAGATTCAG
1 ATTTAGATTCAG
4519344 ATTTAGATTCAG
1 ATTTAGATTCAG
4519356 A
1 A
4519357 CTTAAGTCCT
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTTAGATTCAG
Found at i:4527807 original size:9 final size:9
Alignment explanation
Indices: 4527751--4527837 Score: 56
Period size: 9 Copynumber: 10.0 Consensus size: 9
4527741 TAAGTATAAT
4527751 TAAGTTATG
1 TAAGTTATG
*
4527760 TAACTTATG
1 TAAGTTATG
* * *
4527769 ATATGATATA
1 -TAAGTTATG
*
4527779 T-ATTTATG
1 TAAGTTATG
4527787 T-A-TTATG
1 TAAGTTATG
*
4527794 CAAGTTATG
1 TAAGTTATG
4527803 TAAGTTATG
1 TAAGTTATG
*
4527812 TGAG-TATG
1 TAAGTTATG
* *
4527820 CAAATTATG
1 TAAGTTATG
4527829 TAAGTTATG
1 TAAGTTATG
4527838 ATATATATTT
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
7 5 0.09
8 11 0.19
9 36 0.63
10 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4527827 original size:26 final size:25
Alignment explanation
Indices: 4527782--4527837 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
4527772 TGATATATAT
* *
4527782 TTATGTATTATGCAAGTTATGTAAG
1 TTATGTAGTATGCAAATTATGTAAG
4527807 TTATGTGAGTATGCAAATTATGTAAG
1 TTATGT-AGTATGCAAATTATGTAAG
4527833 TTATG
1 TTATG
4527838 ATATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (25 bp):
TTATGTAGTATGCAAATTATGTAAG
Found at i:4528290 original size:33 final size:33
Alignment explanation
Indices: 4528248--4528313 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4528238 TAAAAAAGAG
4528248 TTGTTTTTGCGGCAATTTTAAAATGAAAATTAA
1 TTGTTTTTGCGGCAATTTTAAAATGAAAATTAA
* * *
4528281 TTGTTTTTGCTGCAATTTTAAGATGGAAATTAA
1 TTGTTTTTGCGGCAATTTTAAAATGAAAATTAA
4528314 AAAAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (33 bp):
TTGTTTTTGCGGCAATTTTAAAATGAAAATTAA
Found at i:4528996 original size:12 final size:12
Alignment explanation
Indices: 4528979--4529005 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4528969 AACTTGCAAC
4528979 AACATTAACCAG
1 AACATTAACCAG
4528991 AACATTAACCAG
1 AACATTAACCAG
4529003 AAC
1 AAC
4529006 TTGCAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.15
Consensus pattern (12 bp):
AACATTAACCAG
Found at i:4530311 original size:125 final size:124
Alignment explanation
Indices: 4530129--4530408 Score: 327
Period size: 125 Copynumber: 2.2 Consensus size: 124
4530119 GTTGTTCTGA
* *
4530129 ACAATTTTTAATACATTGTTGCGGCGTTTTTAGACAAAACGCCACTGATGCTTACCTTTTGCGGC
1 ACAATTTTTAATACATTGTTGCGGCGTTTTTAAACAAAACGCCACTGATGCATACCTTTTGCGGC
* * * * * *
4530194 GATTCT-GAG-AAAATGCTACTAAAAAGTTAAAATCTTGTAAGCAAAC-GACGCTGTTTTTGT
66 G-TTCTGGAGAAAAATGCCACTAAAAA-TCAAAATCCTGTAACCAAACAG-CGCCG-TATTGT
* * *
4530254 ACACTTTTTAATACATTGTTGCGGCGTTTTTATAAC-AAATGCCGCT-ATTGCATACCTTTTGCG
1 ACAATTTTTAATACATTGTTGCGGCGTTTTTA-AACAAAACGCCACTGA-TGCATACCTTTTGCG
* *
4530317 GCGTTGTGGAGAAAAATGCCACTAAAAATCAAATTCCTGTAACCAAACAGCGCCGTATTGT
64 GCGTTCTGGAGAAAAATGCCACTAAAAATCAAAATCCTGTAACCAAACAGCGCCGTATTGT
* * *
4530378 ACAATTTTTAAGACATTGTTGTGACGTTTTT
1 ACAATTTTTAATACATTGTTGCGGCGTTTTT
4530409 GGTCCAAACG
Statistics
Matches: 133, Mismatches: 17, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
124 36 0.27
125 79 0.59
126 18 0.14
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (124 bp):
ACAATTTTTAATACATTGTTGCGGCGTTTTTAAACAAAACGCCACTGATGCATACCTTTTGCGGC
GTTCTGGAGAAAAATGCCACTAAAAATCAAAATCCTGTAACCAAACAGCGCCGTATTGT
Found at i:4530778 original size:16 final size:15
Alignment explanation
Indices: 4530712--4530779 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
4530702 ATTAGACCAA
*
4530712 AAAAACCCTAAACCT
1 AAAACCCCTAAACCT
*
4530727 AAGA-CCCTAAACACCT
1 AAAACCCCT-AA-ACCT
*
4530743 GAAAACACCTAAATCCT
1 -AAAACCCCTAAA-CCT
4530760 AAAACCCCTAAACCAT
1 AAAACCCCTAAACC-T
4530776 AAAA
1 AAAA
4530780 TTTAAACCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.09
15 7 0.16
16 21 0.49
17 8 0.19
18 3 0.07
ACGTcount: A:0.51, C:0.32, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAACCCCTAAACCT
Found at i:4530845 original size:7 final size:7
Alignment explanation
Indices: 4530714--4530948 Score: 93
Period size: 7 Copynumber: 32.4 Consensus size: 7
4530704 TAGACCAAAA
4530714 AAACCCT
1 AAACCCT
4530721 AAA-CCT
1 AAACCCT
4530727 AAGACCCT
1 AA-ACCCT
4530735 AAACACCT
1 AAAC-CCT
4530743 GAAAACACCT
1 --AAAC-CCT
*
4530753 AAATCCT
1 AAACCCT
4530760 AAAACCCCT
1 -AAA-CCCT
*
4530769 AAACCAT
1 AAACCCT
***
4530776 AAAATTT
1 AAACCCT
4530783 AAACCCT
1 AAACCCT
* *
4530790 AATCTCT
1 AAACCCT
*
4530797 ATACCCT
1 AAACCCT
4530804 AAACCCTT
1 AAACCC-T
4530812 AAACCCT
1 AAACCCT
*
4530819 AATCCCT
1 AAACCCT
*
4530826 AAATTACCAT
1 -AA--ACCCT
4530836 AAACCCT
1 AAACCCT
*
4530843 AAACCTT
1 AAACCCT
**
4530850 AAACTAT
1 AAACCCT
4530857 AAA-CCT
1 AAACCCT
** *
4530863 CCACCAT
1 AAACCCT
4530870 ATTAA--CT
1 A--AACCCT
**
4530877 AAACGTT
1 AAACCCT
*
4530884 AAACCTT
1 AAACCCT
4530891 AAACCCT
1 AAACCCT
4530898 AAACCCT
1 AAACCCT
*
4530905 AAACCTT
1 AAACCCT
*
4530912 AAACCCC
1 AAACCCT
*
4530919 AAACCAT
1 AAACCCT
*
4530926 AAA-CAT
1 AAACCCT
* *
4530932 ACATCCT
1 AAACCCT
4530939 AAACCCT
1 AAACCCT
4530946 AAA
1 AAA
4530949 TATAGATATT
Statistics
Matches: 169, Mismatches: 42, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.01
6 12 0.07
7 112 0.66
8 26 0.15
9 6 0.04
10 11 0.07
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:4531100 original size:7 final size:7
Alignment explanation
Indices: 4531088--4531161 Score: 87
Period size: 7 Copynumber: 10.6 Consensus size: 7
4531078 CATTATATCA
4531088 TAAACCT
1 TAAACCT
4531095 TAAACCT
1 TAAACCT
*
4531102 TAAACCA
1 TAAACCT
*
4531109 TAAACGT
1 TAAACCT
4531116 TAAACCT
1 TAAACCT
*
4531123 TAAATAC-
1 TAAA-CCT
*
4531130 TAACCCT
1 TAAACCT
*
4531137 TAAACCC
1 TAAACCT
4531144 TAAACCT
1 TAAACCT
4531151 TAAACCT
1 TAAACCT
4531158 TAAA
1 TAAA
4531162 ACCATAAAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
6 1 0.02
7 53 0.96
8 1 0.02
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:4540633 original size:21 final size:22
Alignment explanation
Indices: 4540590--4540637 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4540580 CCGTAAAAAT
* *
4540590 TATTAATTATTGTAAGTAGTAA
1 TATTAAATATTGTAAGCAGTAA
4540612 TATTAAATATTGTAA-CAGTAA
1 TATTAAATATTGTAAGCAGTAA
4540633 TATTA
1 TATTA
4540638 GTTACTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (22 bp):
TATTAAATATTGTAAGCAGTAA
Found at i:4549336 original size:25 final size:26
Alignment explanation
Indices: 4549282--4549336 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
4549272 TACTGAATTT
*
4549282 TGTTTAATGATGCTTTATTTGATACA
1 TGTTTAATGATGCTTTATTAGATACA
4549308 -GTTTAATG-TGCTTT-TTAGATCACA
1 TGTTTAATGATGCTTTATTAGAT-ACA
4549332 TGTTT
1 TGTTT
4549337 CGGATGAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 5 0.19
24 9 0.35
25 12 0.46
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (26 bp):
TGTTTAATGATGCTTTATTAGATACA
Found at i:4550486 original size:46 final size:46
Alignment explanation
Indices: 4550405--4550723 Score: 233
Period size: 46 Copynumber: 7.1 Consensus size: 46
4550395 TTATTGCTGT
* * * * *
4550405 AATTGAGGTGTATAAATGTTGTTAATAG-AGATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCA
* * * *
4550451 AATTGAAGTGTTTAAATGCTATAAATTAAAGTGTTAAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* *
4550497 AATTGAAGTATTTAAATGCTGTGAATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* *
4550543 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTTAA--G-T---
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
* * * * * * *
4550584 -ATTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGTTGTA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCA
* * * * * * * *
4550629 AGTTGAGGTGTTTAAATGCTATAAATTGAAGTATTTAATTGTTGTA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* ** * * * *
4550675 AATTGAGGTACTGAAATGATGTAAATCGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
4550721 AAT
1 AAT
4550724 AATATATGAT
Statistics
Matches: 218, Mismatches: 44, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.02
40 26 0.12
41 1 0.00
42 1 0.00
44 1 0.00
45 1 0.00
46 176 0.81
47 7 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (46 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
Found at i:4550578 original size:23 final size:23
Alignment explanation
Indices: 4550362--4550712 Score: 199
Period size: 23 Copynumber: 15.6 Consensus size: 23
4550352 GTATTGCAAT
* *
4550362 TTGAAGTGTTT-AGTAGTTGGAAA
1 TTGAAGTGTTTAAAT-GTTGTAAA
* * *
4550385 TTG-AGATGTTTTATTGCTGT-AA
1 TTGAAG-TGTTTAAATGTTGTAAA
* * *
4550407 TTGAGGTGTATAAATGTTGTTAA
1 TTGAAGTGTTTAAATGTTGTAAA
* * *
4550430 TAG-AGATG-TTAAAGTGCTGCAAA
1 TTGAAG-TGTTTAAA-TGTTGTAAA
* *
4550453 TTGAAGTGTTTAAATGCTATAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* * *
4550476 TTAAAGTGTTAAAATGTTGCAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* * *
4550499 TTGAAGTATTTAAATGCTGTGAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
4550522 TTGAAGTG-TTAAAGTGCTGCAAA
1 TTGAAGTGTTTAAA-TGTTGTAAA
4550545 TTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
*
4550568 TTGAAGTGTTTTAA----GT--A
1 TTGAAGTGTTTAAATGTTGTAAA
* * *
4550585 TTGAGGTGTATAAATGTTGTTAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
4550608 TTG-GGATG-TTAAAGTGTTGTAAG
1 TTGAAG-TGTTTAAA-TGTTGTAAA
* * *
4550631 TTGAGGTGTTTAAATGCTATAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
4550654 TTGAAGTATTTAATTGTTGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* ** * *
4550677 TTGAGGTACTGAAATGATGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
*
4550700 TCGAAGTGTTTAA
1 TTGAAGTGTTTAA
4550713 GTGCTGCAAA
Statistics
Matches: 250, Mismatches: 58, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
17 12 0.05
19 2 0.01
21 2 0.01
22 33 0.13
23 180 0.72
24 21 0.08
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (23 bp):
TTGAAGTGTTTAAATGTTGTAAA
Found at i:4551268 original size:5 final size:5
Alignment explanation
Indices: 4551258--4551284 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4551248 CAAAAACACA
4551258 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
4551285 TTGGGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:4566023 original size:22 final size:23
Alignment explanation
Indices: 4565996--4566044 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
4565986 TATATTTTAT
*
4565996 TTCAAATGTTTCATATT-TACAC
1 TTCAAATGTTCCATATTATACAC
4566018 TTCAAATGTTCCATATTCATACAC
1 TTCAAATGTTCCATATT-ATACAC
4566042 TTC
1 TTC
4566045 TCGATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 16 0.67
24 8 0.33
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.43
Consensus pattern (23 bp):
TTCAAATGTTCCATATTATACAC
Found at i:4568616 original size:12 final size:12
Alignment explanation
Indices: 4568601--4568639 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4568591 TTAAAACATA
4568601 ATTATAAATATC
1 ATTATAAATATC
* *
4568613 ATTA-AAACATA
1 ATTATAAATATC
4568624 ATTATAAATATC
1 ATTATAAATATC
4568636 ATTA
1 ATTA
4568640 ATAACATCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTATAAATATC
Found at i:4568616 original size:23 final size:23
Alignment explanation
Indices: 4568590--4568646 Score: 105
Period size: 23 Copynumber: 2.4 Consensus size: 23
4568580 ATAGAAATAA
4568590 ATTAAAACATAATTATAAATATC
1 ATTAAAACATAATTATAAATATC
4568613 ATTAAAACATAATTATAAATATC
1 ATTAAAACATAATTATAAATATC
4568636 ATTAATAACAT
1 ATTAA-AACAT
4568647 CACAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTAAAACATAATTATAAATATC
Found at i:4571045 original size:3 final size:3
Alignment explanation
Indices: 4571037--4571165 Score: 168
Period size: 3 Copynumber: 42.0 Consensus size: 3
4571027 NNNATTTCTC
4571037 TAT TAT TAT TATT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4571084 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* ** * * *
4571130 TAG TAT TAT TAT TGG TAT TGT AAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4571166 GTACATACAA
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
3 100 0.92
4 9 0.08
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4571752 original size:13 final size:14
Alignment explanation
Indices: 4571718--4571754 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
4571708 TGCTTTTATA
4571718 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
4571733 TAT-TTATTT-GTT
1 TATATTATTTCGTT
4571745 TATATTATTT
1 TATATTATTT
4571755 TTATGCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:4575976 original size:21 final size:21
Alignment explanation
Indices: 4575935--4575976 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4575925 GGTTGTAAGT
* *
4575935 AGTAATATTAATTATTGTAAC
1 AGTAATATTAATTACTATAAC
*
4575956 AGTAATATTAGTTACTATAAC
1 AGTAATATTAATTACTATAAC
4575977 GGTGATGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
AGTAATATTAATTACTATAAC
Found at i:4579794 original size:2 final size:2
Alignment explanation
Indices: 4579787--4579816 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4579777 CTCATACTTT
4579787 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4579817 GATAGGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4583081 original size:26 final size:26
Alignment explanation
Indices: 4583052--4583148 Score: 158
Period size: 26 Copynumber: 3.7 Consensus size: 26
4583042 CACCAATATC
4583052 GCAGCAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
*
4583078 GCAGTAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
* *
4583104 GCAGCAAAGCTGCCAGTAACAGTGAC
1 GCAGCAAAGCTGCCAGTAATAGTGAT
*
4583130 GCAGCAAAGTTGCCAGTAA
1 GCAGCAAAGCTGCCAGTAA
4583149 CAGTATATGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTGAT
Found at i:4583463 original size:26 final size:27
Alignment explanation
Indices: 4583326--4583576 Score: 272
Period size: 27 Copynumber: 9.3 Consensus size: 27
4583316 GGGTATAGCA
* *
4583326 GTCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
4583353 GTCATTTTA-CCTTGCCAGGGTATTTCA
1 GTCATTTTACCCTT-CGAGGGTATTTCG
* * * **
4583380 GTAATTCTACCCTGCGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
4583407 GTTATTTTACCATTTGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
4583434 GTCATTTTACCCTT-AAGGATATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
4583460 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
4583487 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
4583514 ATCATTTTACCTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
4583541 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
4583568 ATTATTTTA
1 GTCATTTTA
4583577 GGCCCATTAC
Statistics
Matches: 185, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 25 0.14
27 157 0.85
28 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:4583498 original size:107 final size:107
Alignment explanation
Indices: 4583326--4583554 Score: 291
Period size: 107 Copynumber: 2.1 Consensus size: 107
4583316 GGGTATAGCA
** * *
4583326 GTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTGCCAGGGTATTTCAGTAATTCTACC
1 GTCATTTTACCC-TTAAGGATATTTCAGTCATTTTACCTTGCCAGGGTATTTCAGTAATTCTACC
* * *
4583391 CTGCGAGGGTATTTTAG-TTATTTTACCATTTGGGGGTATTTTG
65 CTGCGAGGGTA-TTTAGATCATTTTACCATTTGAGGGTATTTCG
* * * *
4583434 GTCATTTTACCCTTAAGGATATTTCAGTCATTTTACCCTT-CGAGGGTATTTCGGTTATTTTACC
1 GTCATTTTACCCTTAAGGATATTTCAGTCATTTTA-CCTTGCCAGGGTATTTCAGTAATTCTACC
* * *
4583498 CTTCGAGGGTATTTCGATCATTTTACCTTTTGAGGGTATTTCG
65 CTGCGAGGGTATTTAGATCATTTTACCATTTGAGGGTATTTCG
4583541 GTCATTTTACCCTT
1 GTCATTTTACCCTT
4583555 CGAGGGTATT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
106 4 0.04
107 85 0.81
108 16 0.15
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (107 bp):
GTCATTTTACCCTTAAGGATATTTCAGTCATTTTACCTTGCCAGGGTATTTCAGTAATTCTACCC
TGCGAGGGTATTTAGATCATTTTACCATTTGAGGGTATTTCG
Found at i:4583564 original size:81 final size:81
Alignment explanation
Indices: 4583329--4583576 Score: 327
Period size: 81 Copynumber: 3.1 Consensus size: 81
4583319 TATAGCAGTC
*** * * *
4583329 ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTGCCAGGGTATTTCAGTAATTCTACCCTG
1 ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCTT
**
4583394 CGAGGGTATTTTAGTT
66 CGAGGGTATTTCGGTT
* * * *
4583410 ATTTTACCATTTGGGGGTATTTTGGTCATTTTACC-CTTAAGGATATTTCAGTCATTTTACCCTT
1 ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCTT
4583474 CGAGGGTATTTCGGTT
66 CGAGGGTATTTCGGTT
* * * * *
4583490 ATTTTACCCTTCGAGGGTATTTCGATCATTTTACCTTTTGAGGGTATTTCGGTCATTTTACCCTT
1 ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCTT
*
4583555 CGAGGGTATTTCGATT
66 CGAGGGTATTTCGGTT
4583571 ATTTTA
1 ATTTTA
4583577 GGCCCATTAC
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 65 0.45
81 79 0.55
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCTT
CGAGGGTATTTCGGTT
Found at i:4584283 original size:34 final size:34
Alignment explanation
Indices: 4584215--4584283 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
4584205 GAAGAGGGAG
* *
4584215 AGAAAGGCAATATTCGGCCAAGAGAGAAGCAGGA
1 AGAAAGGCAATATTCGGCCAAAAGAGAAACAGGA
*
4584249 AGAAAGGCAATATTCGGCCACAAAGA-AAATAGGA
1 AGAAAGGCAATATTCGGCCA-AAAGAGAAACAGGA
4584283 A
1 A
4584284 AGAACCAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.48, C:0.14, G:0.28, T:0.10
Consensus pattern (34 bp):
AGAAAGGCAATATTCGGCCAAAAGAGAAACAGGA
Found at i:4587939 original size:21 final size:21
Alignment explanation
Indices: 4587898--4587940 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4587888 AATAAAGTAG
*
4587898 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
4587919 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
4587940 A
1 A
4587941 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:4587991 original size:38 final size:38
Alignment explanation
Indices: 4587919--4587999 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 38
4587909 TTTTTATAGT
*
4587919 ATTATATATTATGATTTTAGTAAATTCATATAATAATA
1 ATTATATATTATAATTTTAGTAAATTCATATAATAATA
*
4587957 ATTATAT-TTATAATTTTATTAAATT-ATATTTAATAATA
1 ATTATATATTATAATTTTAGTAAATTCATA--TAATAATA
4587995 ATTAT
1 ATTAT
4588000 GTTAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 3 0.08
37 16 0.41
38 20 0.51
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (38 bp):
ATTATATATTATAATTTTAGTAAATTCATATAATAATA
Found at i:4588253 original size:16 final size:16
Alignment explanation
Indices: 4588232--4588271 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4588222 TTGAATTACT
*
4588232 AATTACAGCTTTATTC
1 AATTACAGCTCTATTC
4588248 AATTACAGCTCTATTC
1 AATTACAGCTCTATTC
*
4588264 CATTACAG
1 AATTACAG
4588272 TGAACCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (16 bp):
AATTACAGCTCTATTC
Found at i:4592650 original size:29 final size:29
Alignment explanation
Indices: 4592608--4592680 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
4592598 CTACACTTGG
* *
4592608 AACAAAATGCAAGAAATCTATTTGCATTA
1 AACAAAATGTAAGAAATCTATGTGCATTA
*
4592637 AACAAAATGTAAGAAATCTATGTGTATTA
1 AACAAAATGTAAGAAATCTATGTGCATTA
4592666 AACAAAATGTAAGAA
1 AACAAAATGTAAGAA
4592681 CACATGTGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (29 bp):
AACAAAATGTAAGAAATCTATGTGCATTA
Found at i:4597670 original size:319 final size:319
Alignment explanation
Indices: 4597086--4597728 Score: 1259
Period size: 319 Copynumber: 2.0 Consensus size: 319
4597076 AAAAAGTTTG
4597086 ACTCCAGCATGTTGAGTATTGATTTTTCTCGAAGTATAACAGTTGTGTTTATCTACAATGTCTTG
1 ACTCCAGCATGTTGAGTATTGATTTTTCTCGAAGTATAACAGTTGTGTTTATCTACAATGTCTTG
4597151 ATGATGGTTCTTTTATATATTTGCTACTTTATGTTGATGATATGTTAATTGCGGCTAAGAATCCA
66 ATGATGGTTCTTTTATATATTTGCTACTTTATGTTGATGATATGTTAATTGCGGCTAAGAATCCA
4597216 TTTGAAATTGATAATCTTAAAACCATGCTTAACTCTAAGTTTGAGATGAAGGATTTAGGTGTAGC
131 TTTGAAATTGATAATCTTAAAACCATGCTTAACTCTAAGTTTGAGATGAAGGATTTAGGTGTAGC
*
4597281 AAAGAAAATTTTGGGGATGAAAATTTTGAGAGAAAGACATTCTGAGAAATTATTTTTATTCCTAC
196 AAAGAAAATTTTGGGGATGAAAATTTTGAGAGAAAGACATTCCGAGAAATTATTTTTATTCCTAC
4597346 AAAGGTACATCAAGAAGATCCTTGAGAGATTTGAGATGCAAGATGCAAAACAAGTATAT
261 AAAGGTACATCAAGAAGATCCTTGAGAGATTTGAGATGCAAGATGCAAAACAAGTATAT
*
4597405 ACTCTAGCATGTTGAGTATTGATTTTTCTCGAAGTATAACAGTTGTGTTTATCTACAATGTCTTG
1 ACTCCAGCATGTTGAGTATTGATTTTTCTCGAAGTATAACAGTTGTGTTTATCTACAATGTCTTG
4597470 ATGATGGTTCTTTTATATATTTGCTACTTTATGTTGATGATATGTTAATTGCGGCTAAGAATCCA
66 ATGATGGTTCTTTTATATATTTGCTACTTTATGTTGATGATATGTTAATTGCGGCTAAGAATCCA
4597535 TTTGAAATTGATAATCTTAAAACCATGCTTAACTCTAAGTTTGAGATGAAGGATTTAGGTGTAGC
131 TTTGAAATTGATAATCTTAAAACCATGCTTAACTCTAAGTTTGAGATGAAGGATTTAGGTGTAGC
*
4597600 AAAGAAAATTTTGGGGATGAAAATTTTGAGAGATAGACATTCCGAGAAATTATTTTTATTCCTAC
196 AAAGAAAATTTTGGGGATGAAAATTTTGAGAGAAAGACATTCCGAGAAATTATTTTTATTCCTAC
4597665 AAAGGTACATCAAGAAGATCCTTGAGAGATTTGAGATGCAAGATGCAAAACAAGTATAT
261 AAAGGTACATCAAGAAGATCCTTGAGAGATTTGAGATGCAAGATGCAAAACAAGTATAT
4597724 ACTCC
1 ACTCC
4597729 TTTAATTGTA
Statistics
Matches: 320, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 320 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (319 bp):
ACTCCAGCATGTTGAGTATTGATTTTTCTCGAAGTATAACAGTTGTGTTTATCTACAATGTCTTG
ATGATGGTTCTTTTATATATTTGCTACTTTATGTTGATGATATGTTAATTGCGGCTAAGAATCCA
TTTGAAATTGATAATCTTAAAACCATGCTTAACTCTAAGTTTGAGATGAAGGATTTAGGTGTAGC
AAAGAAAATTTTGGGGATGAAAATTTTGAGAGAAAGACATTCCGAGAAATTATTTTTATTCCTAC
AAAGGTACATCAAGAAGATCCTTGAGAGATTTGAGATGCAAGATGCAAAACAAGTATAT
Found at i:4599613 original size:22 final size:23
Alignment explanation
Indices: 4599571--4599613 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4599561 TTAAATAATA
*
4599571 AATTTTTATAATAAAAGTCTATT
1 AATTTTTATAATAAAAATCTATT
4599594 AATTTTTA-AA-AAATAATCTA
1 AATTTTTATAATAAA-AATCTA
4599614 GAGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 7 0.39
23 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTTTATAATAAAAATCTATT
Found at i:4611528 original size:19 final size:20
Alignment explanation
Indices: 4611483--4611532 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4611473 AAATAAAATA
**
4611483 TTTTTATTTATTTTGAAGAT
1 TTTTTATTTATTTACAAGAT
* *
4611503 GTCTTATTT-TTTACAAGAT
1 TTTTTATTTATTTACAAGAT
4611522 TTTTTATTTAT
1 TTTTTATTTAT
4611533 ATTTCTATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTTATTTATTTACAAGAT
Found at i:4612568 original size:26 final size:27
Alignment explanation
Indices: 4612537--4612595 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
4612527 TTTAGTTTCT
4612537 AAAAAT-ATTT-TTTATTTTCATTTTTA
1 AAAAATAATTTATTT-TTTTCATTTTTA
* *
4612563 GAAAATAAATTTATTTTTTTTATTTTTA
1 AAAAAT-AATTTATTTTTTTCATTTTTA
4612591 AAAAA
1 AAAAA
4612596 ATTAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.19
28 19 0.70
29 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
AAAAATAATTTATTTTTTTCATTTTTA
Done.