Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 33 of 106
Found at i:6185319 original size:13 final size:13
Alignment explanation
Indices: 6185291--6185342 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
6185281 AAGAGAGAAG
*
6185291 AAGAAAGGAAGAAA
1 AAGAAA-GAAGGAA
6185305 AAGAAAGAAGGAA
1 AAGAAAGAAGGAA
*
6185318 AAGAACA-AA-GAG
1 AAGAA-AGAAGGAA
6185330 AAGAAAGAAGGAA
1 AAGAAAGAAGGAA
6185343 GAAGGATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.03
12 9 0.28
13 15 0.47
14 7 0.22
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAGGAA
Found at i:6185607 original size:22 final size:22
Alignment explanation
Indices: 6185574--6185632 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 22
6185564 AAATGAACTC
6185574 TTTTATCA-TATAATTAAAAATA
1 TTTTAT-ATTATAATTAAAAATA
* *
6185596 TTTTATATTATAA--AATATTA
1 TTTTATATTATAATTAAAAATA
*
6185616 TTTTAAATTA-AATTAAA
1 TTTTATATTATAATTAAA
6185633 TTGAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 3 0.10
22 11 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTATATTATAATTAAAAATA
Found at i:6187291 original size:2 final size:2
Alignment explanation
Indices: 6187284--6187328 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
6187274 GTGAAAATTT
* * *
6187284 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TG TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6187326 TA T
1 TA T
6187329 TAGTTCTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6188379 original size:47 final size:47
Alignment explanation
Indices: 6188325--6188419 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
6188315 TGATTTGTGT
*
6188325 AAGCTATGTTAAAATTGT-CATGTTATAGATGCATATTTTATGCTGAG
1 AAGCTATGTTAAAATT-TCCATGTCATAGATGCATATTTTATGCTGAG
*
6188372 AAGCTATGTTAAAATTTCCATGTCATAGATGCCTATTTTATGCTGAG
1 AAGCTATGTTAAAATTTCCATGTCATAGATGCATATTTTATGCTGAG
6188419 A
1 A
6188420 TGGCTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 44 0.98
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (47 bp):
AAGCTATGTTAAAATTTCCATGTCATAGATGCATATTTTATGCTGAG
Found at i:6193752 original size:31 final size:31
Alignment explanation
Indices: 6193683--6193760 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
6193673 TATATTCAAT
* *
6193683 TGAAATTTGAAATTTGGTACTTATATTCATA
1 TGAAATTTGAAATTTAGTACTTATAGTCATA
* * *
6193714 -CAGAATTTGAAATTTAGTTCTTATAGTCGTA
1 TGA-AATTTGAAATTTAGTACTTATAGTCATA
*
6193745 TGAAATTTAAAATTTA
1 TGAAATTTGAAATTTA
6193761 ATCTTTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (31 bp):
TGAAATTTGAAATTTAGTACTTATAGTCATA
Found at i:6193769 original size:31 final size:30
Alignment explanation
Indices: 6193717--6193791 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 30
6193707 ATTCATACAG
* * *
6193717 AATTTGAAATTTAGTTCTTATAGTCGTA-TGA
1 AATTTAAAATTTAATTCTTATAAT--TACTGA
6193748 AATTTAAAATTTAA-TCTTTATAATTACTTGA
1 AATTTAAAATTTAATTC-TTATAATTAC-TGA
6193779 AATTTAAAATTTA
1 AATTTAAAATTTA
6193792 GTTTTTCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 2 0.05
30 2 0.05
31 34 0.89
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (30 bp):
AATTTAAAATTTAATTCTTATAATTACTGA
Found at i:6198082 original size:2 final size:2
Alignment explanation
Indices: 6198075--6198104 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6198065 GCATACATAC
6198075 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
6198105 GAAAGCTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6199898 original size:13 final size:13
Alignment explanation
Indices: 6199875--6199925 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
6199865 TATTTTGGTT
6199875 TTTATTTTATTTTA
1 TTTA-TTTATTTTA
6199889 TTTATTTA-TTTA
1 TTTATTTATTTTA
* *
6199901 ATTATTT-TGTTTG
1 TTTATTTAT-TTTA
6199914 TTTATTTATTTT
1 TTTATTTATTTT
6199926 TTAAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 10 0.32
13 16 0.52
14 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:6199907 original size:21 final size:20
Alignment explanation
Indices: 6199881--6199928 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
6199871 GGTTTTTATT
6199881 TTATTTTATTTATTTATTTAA
1 TTATTTTATTTATTTATTT-A
* *
6199902 TTATTTTGTTTGTTTATTTA
1 TTATTTTATTTATTTATTTA
6199922 TT-TTTTA
1 TTATTTTA
6199929 AATATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.17
20 3 0.12
21 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (20 bp):
TTATTTTATTTATTTATTTA
Found at i:6202403 original size:18 final size:18
Alignment explanation
Indices: 6202380--6202424 Score: 83
Period size: 17 Copynumber: 2.6 Consensus size: 18
6202370 ACAATAGTTC
6202380 ACATACCCTGTAGGATAT
1 ACATACCCTGTAGGATAT
6202398 ACATA-CCTGTAGGATAT
1 ACATACCCTGTAGGATAT
6202415 ACATACCCTG
1 ACATACCCTG
6202425 AAATGTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (18 bp):
ACATACCCTGTAGGATAT
Found at i:6209232 original size:18 final size:19
Alignment explanation
Indices: 6209211--6209251 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
6209201 AAAATGAGTT
6209211 AAAAAT-AAAATAAAATCA
1 AAAAATAAAAATAAAATCA
*
6209229 AAAAATAAAAATAAAATGA
1 AAAAATAAAAATAAAATCA
6209248 AAAA
1 AAAA
6209252 GGAAACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAATCA
Found at i:6210067 original size:18 final size:18
Alignment explanation
Indices: 6210034--6210089 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
6210024 AAAGAAAAAT
*
6210034 AATAATAATAATAATAACA
1 AATATTAAT-ATAATAACA
* *
6210053 AATTTTAATATAATATCA
1 AATATTAATATAATAACA
*
6210071 TATATT-ATACTAATAACA
1 AATATTAATA-TAATAACA
6210089 A
1 A
6210090 TAATAGTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 3 0.10
18 19 0.66
19 7 0.24
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATTAATATAATAACA
Found at i:6210137 original size:45 final size:48
Alignment explanation
Indices: 6210034--6210137 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 48
6210024 AAAGAAAAAT
** * *
6210034 AATAATAATAATAATAACAAATTTTAATATAATATCATATATTATACT
1 AATAATAATAATAATAACAAATAATAATATAATATCATATAATATACC
* *
6210082 AATAACAATAATAGTAA-AAATAATAATATAATA-C-TATAATATAACC
1 AATAATAATAATAATAACAAATAATAATATAATATCATATAATAT-ACC
6210128 AA-AATAATAA
1 AATAATAATAA
6210138 AAATGGTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 14 0.29
46 5 0.10
47 14 0.29
48 15 0.31
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.33
Consensus pattern (48 bp):
AATAATAATAATAATAACAAATAATAATATAATATCATATAATATACC
Found at i:6210488 original size:63 final size:63
Alignment explanation
Indices: 6210321--6210488 Score: 187
Period size: 64 Copynumber: 2.6 Consensus size: 63
6210311 GAATTTGGAG
* * *
6210321 ATGAAGCGACCAAAACTAAGTCGAAGTAGAAAATAAATGACTGGGATGAAACCACGAGTCAGAA
1 ATGAAGCGACC-AAACTAAGTCGAGGTAGAAAATAAATGATTGGGATAAAACCACGAGTCAGAA
* * * * *
6210385 GTGAAGTGACTTAAACCAAGTTGAGGTTA-AAAATAAATGATTGGGATAAAACCACGAGTCA-AA
1 ATGAAGCGAC-CAAACTAAGTCGAGG-TAGAAAATAAATGATTGGGATAAAACCACGAGTCAGAA
* * *
6210448 ATGAAGCAACCAAGACTAAGTCGAGGTCGAAGATAAATGAT
1 ATGAAGCGACCAA-ACTAAGTCGAGGTAGAAAATAAATGAT
6210489 CAGGATGATA
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
62 3 0.04
63 30 0.36
64 49 0.58
65 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (63 bp):
ATGAAGCGACCAAACTAAGTCGAGGTAGAAAATAAATGATTGGGATAAAACCACGAGTCAGAA
Found at i:6210650 original size:63 final size:63
Alignment explanation
Indices: 6210540--6210682 Score: 198
Period size: 63 Copynumber: 2.3 Consensus size: 63
6210530 AAAGATCAAG
* * * *
6210540 TGACCGAGATAAAATCATGAGTTAAAATGAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAA
1 TGACCGAGATGAAATCACGAGTCAAAATGAAACGACCAAGATCGAGTCGAGGTCAAAAATAAA
** *
6210603 TGATTGAGATGAAATCACGAGTCAAAATGAAATGACCAAGA-CAGAGTCGAGGTCAAAAATAAA
1 TGACCGAGATGAAATCACGAGTCAAAATGAAACGACCAAGATC-GAGTCGAGGTCAAAAATAAA
*
6210666 TGACCGGGATGAAATCA
1 TGACCGAGATGAAATCA
6210683 TGAATCATGA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
62 1 0.01
63 68 0.99
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.17
Consensus pattern (63 bp):
TGACCGAGATGAAATCACGAGTCAAAATGAAACGACCAAGATCGAGTCGAGGTCAAAAATAAA
Found at i:6210961 original size:119 final size:118
Alignment explanation
Indices: 6210608--6210962 Score: 381
Period size: 119 Copynumber: 2.9 Consensus size: 118
6210598 ATAAATGATT
*
6210608 GAGATGAAATCACGAGTCAAAATGAAATGACCAAGACAGAGTCGAGGTCAAAAATAAATGACCGG
1 GAGATGAAATCATGAGTCAAAATGAAATGACCAAGACAGAGTCGAGGTCAAAAATAAAT------
* * * * * * *
6210673 GATGAAATCATGAATCATGAATCATATTAAATGAGTTGGATTGTGCCAAGATCAAGTGACC
60 GATGAGAT-A-AAACCATGAATCATATGAAATGATTTAGATTGAGCCAAGATCAAGTGACC
* * * * * *
6210734 GAAATGAAATCATGAGTCAAAATGAAACGACCAAGACGGACTCGAGGTCAAAAATAAACGATCAG
1 GAGATGAAATCATGAGTCAAAATGAAATGACCAAGACAGAGTCGAGGTCAAAAATAAATGATGA-
* * *
6210799 GATAAAACCATGAATCATATGAAATGATCTAGACTGAACCAAGATCAAGTGACC
65 GATAAAACCATGAATCATATGAAATGATTTAGATTGAGCCAAGATCAAGTGACC
* * *
6210853 -AGGATGAAATCATGAGTCAAAATGAAGTGACCAAGATC-GAGTCAAGGTAAAAAATAAATGATT
1 GA-GATGAAATCATGAGTCAAAATGAAATGACCAAGA-CAGAGTCGAGGTCAAAAATAAATGA-T
* * *
6210916 GAGATAAAACCATGAGTCATAAGAAATGATTTAGATTGAGTCAAGAT
63 GAGATAAAACCATGAATCATATGAAATGATTTAGATTGAGCCAAGAT
6210963 TGAGATGAGT
Statistics
Matches: 194, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
118 1 0.01
119 130 0.67
120 8 0.04
121 2 0.01
126 53 0.27
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (118 bp):
GAGATGAAATCATGAGTCAAAATGAAATGACCAAGACAGAGTCGAGGTCAAAAATAAATGATGAG
ATAAAACCATGAATCATATGAAATGATTTAGATTGAGCCAAGATCAAGTGACC
Found at i:6211998 original size:29 final size:26
Alignment explanation
Indices: 6211942--6211998 Score: 60
Period size: 28 Copynumber: 2.1 Consensus size: 26
6211932 TGTCGCATCA
**
6211942 ATTTTTTTTCCTTTTTTTTTCTTTGT
1 ATTTTTTTTCCTTTTTTTTTCTAAGT
*
6211968 ATTTTGTTTTCTCTTTTTTTTTGTGAAGT
1 ATTTT-TTTTC-CTTTTTTTTTCT-AAGT
6211997 AT
1 AT
6211999 AATGGCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 5 0.20
27 5 0.20
28 11 0.44
29 4 0.16
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (26 bp):
ATTTTTTTTCCTTTTTTTTTCTAAGT
Found at i:6212128 original size:66 final size:66
Alignment explanation
Indices: 6212022--6212145 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
6212012 CCCAACAAAT
* * * * * *
6212022 TTTCTTTATTTTCTTCTTTTTTAATGGAGCATATTGGCATTTTGCCCTATTAATTTTTTTTCTCT
1 TTTCTTTATTTTCTTCTTTTTTAATGGAACACATTAGCATTTTACCCCATCAATTTTTTTTCTCT
6212087 C
66 C
* **
6212088 TTTCTTT-TCTTTTTTCTTTTTTGGTGGAACACATTAGCATTTTACCCCATCAATTTTT
1 TTTCTTTAT-TTTCTTCTTTTTTAATGGAACACATTAGCATTTTACCCCATCAATTTTT
6212146 CTTTTTTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
65 1 0.02
66 47 0.98
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.57
Consensus pattern (66 bp):
TTTCTTTATTTTCTTCTTTTTTAATGGAACACATTAGCATTTTACCCCATCAATTTTTTTTCTCT
C
Found at i:6212158 original size:66 final size:66
Alignment explanation
Indices: 6212021--6212159 Score: 147
Period size: 66 Copynumber: 2.1 Consensus size: 66
6212011 TCCCAACAAA
* * * * * *
6212021 TTTTCTTTATTTTCTTCTTTTTTAATGGAGCATATTGGCATTTTGCCCTATTAATTTTTTTTCTC
1 TTTTCTTTATTTTCTTCTTTTTTAATGGAACACATTAGCATTTTACCCCATCAATTTTTTTTCTC
6212086 T
66 T
* * **
6212087 CTTTCTTT-TCTTTTTTCTTTTTTGGTGGAACACATTAGCATTTTACCCCATCAATTTTTCTTT-
1 TTTTCTTTAT-TTTCTTCTTTTTTAATGGAACACATTAGCATTTTACCCCATCAATTTTT-TTTC
*
6212150 TTT
64 TCT
6212153 TTTTCTT
1 TTTTCTT
6212160 AAGAAAAACA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
65 1 0.02
66 55 0.93
67 3 0.05
ACGTcount: A:0.14, C:0.17, G:0.08, T:0.60
Consensus pattern (66 bp):
TTTTCTTTATTTTCTTCTTTTTTAATGGAACACATTAGCATTTTACCCCATCAATTTTTTTTCTC
T
Found at i:6215001 original size:37 final size:37
Alignment explanation
Indices: 6214934--6215004 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
6214924 AAAGAAAGAT
* * * *
6214934 AAATGAATAATTAAGCAAGTATACATAATGAAAAGGA
1 AAATAAATAATAAAGCAAATATACACAATGAAAAGGA
6214971 AAATAAATAATAAAGCAAATATA-AGCAATGAAAA
1 AAATAAATAATAAAGCAAATATACA-CAATGAAAA
6215005 AAGAATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 28 0.97
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.20
Consensus pattern (37 bp):
AAATAAATAATAAAGCAAATATACACAATGAAAAGGA
Found at i:6217915 original size:43 final size:43
Alignment explanation
Indices: 6217868--6218009 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 43
6217858 TAGAGGAGTT
* *
6217868 TTATTTATTTTTCGAAAGTCATGAGCTTCTGTTTAGAAAAATC
1 TTATTTATTTTTCAAAAGTCATGAGCTTCTGTTTAGAAAAACC
* * *
6217911 TTATTTATTTTT-AAAAGTCGTTAAACTTCTGTTTAGAAAAACC
1 TTATTTATTTTTCAAAAGTC-ATGAGCTTCTGTTTAGAAAAACC
* * * * *
6217954 TTATTTATTCTTCAAAAGTCATTGAGCTTTTGCTTAGAACAGCC
1 TTATTTATTTTTCAAAAGTCA-TGAGCTTCTGTTTAGAAAAACC
6217998 TTATTTATTTTT
1 TTATTTATTTTT
6218010 TAAAGTTGTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 6 0.07
43 42 0.51
44 34 0.41
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (43 bp):
TTATTTATTTTTCAAAAGTCATGAGCTTCTGTTTAGAAAAACC
Found at i:6218032 original size:43 final size:43
Alignment explanation
Indices: 6217910--6218230 Score: 211
Period size: 43 Copynumber: 7.4 Consensus size: 43
6217900 TTAGAAAAAT
* * * * * * *
6217910 CTTATTTATTTTTAAAAGTCGTTAAACTTCTGTTTAGAAAAAC
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGC
** ** * * * *
6217953 CTTATTTATTCTTCAAAAGTCATTGAGCTTTTGCTTAGAACAGC
1 CTTATTTATT-TTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGC
*
6217997 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGATGAGC
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGC
* * * * * * *
6218040 TTTATTTATTTTTTAAAGTTTTTGAA-CCTTTACTTATAATAGT
1 CTTATTTATTTTTTAAAGTTGTT-AAGCCTCTGCTTAGAAGAGC
* * *
6218083 CTTATTT-TTTTTTAAAGTTGTTGAGTCTCTACTTA-AATGAGC
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGAA-GAGC
* * * *
6218125 CTTATTTATTTTTTAAAGTTGTTAAACCTCTACTCA-ATGGAGC
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGA-AGAGC
* * * ** * * *
6218168 TTTTTTTATTTTTCAAAGTCATTGAGCATCT-TTTCAGAAGAGC
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTT-AGAAGAGC
6218211 CTTATTTATTTTTTTAAAGT
1 CTTATTTA-TTTTTTAAAGT
6218231 AATTGAGCAT
Statistics
Matches: 218, Mismatches: 51, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.01
42 32 0.15
43 135 0.62
44 48 0.22
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (43 bp):
CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGC
Found at i:6218034 original size:87 final size:86
Alignment explanation
Indices: 6217868--6218104 Score: 226
Period size: 87 Copynumber: 2.8 Consensus size: 86
6217858 TAGAGGAGTT
* * * * * *
6217868 TTATTTATTTTTCGAAAGTCA-TGAGCTTCTGTTTAGAAAAATCTTATTTATTTTTAAAAGTCGT
1 TTATTTA-TTTTCAAAAGTCATTGAGCTTTTGCTTAGAAAAGTCTTATTTATTTTTTAAAGTTGT
* *
6217932 TAAACTTCTGTTTAGAAAAACC
65 TAAACCTCTGCTTAGAAAAACC
* *
6217954 TTATTTATTCTTCAAAAGTCATTGAGCTTTTGCTTAGAACAGCCTTATTTATTTTTTAAAGTTGT
1 TTATTTATT-TTCAAAAGTCATTGAGCTTTTGCTTAGAAAAGTCTTATTTATTTTTTAAAGTTGT
* ** * *
6218019 TAAGCCTCTGCTTAGATGAGCT
65 TAAACCTCTGCTTAGAAAAACC
** ** * * * * *
6218041 TTATTTATTTTTTAAAGTTTTTGAACCTTTACTTATAATAGTCTTATTT-TTTTTTAAAGTTGTT
1 TTATTTATTTTCAAAAGTCATTGAGCTTTTGCTTAGAAAAGTCTTATTTATTTTTTAAAGTTGTT
6218105 GAGTCTCTAC
Statistics
Matches: 124, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
85 17 0.14
86 47 0.38
87 60 0.48
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (86 bp):
TTATTTATTTTCAAAAGTCATTGAGCTTTTGCTTAGAAAAGTCTTATTTATTTTTTAAAGTTGTT
AAACCTCTGCTTAGAAAAACC
Found at i:6218123 original size:85 final size:86
Alignment explanation
Indices: 6217997--6218158 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 86
6217987 TTAGAACAGC
* * * *
6217997 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGATGAGCTTTATTTATTTTTTAAAGTTTT
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTACTTAAATGAGCCTTATTTATTTTTTAAAGTTGT
* *
6218062 TGAACCTTTACTTATAATAGT
66 TAAACCTCTACTTATAATAGT
* *
6218083 CTTATTT-TTTTTTAAAGTTGTTGAGTCTCTACTTAAATGAGCCTTATTTATTTTTTAAAGTTGT
1 CTTATTTATTTTTTAAAGTTGTTAAGCCTCTACTTAAATGAGCCTTATTTATTTTTTAAAGTTGT
6218147 TAAACCTCTACT
66 TAAACCTCTACT
6218159 CAATGGAGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
85 61 0.90
86 7 0.10
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (86 bp):
CTTATTTATTTTTTAAAGTTGTTAAGCCTCTACTTAAATGAGCCTTATTTATTTTTTAAAGTTGT
TAAACCTCTACTTATAATAGT
Found at i:6218180 original size:85 final size:84
Alignment explanation
Indices: 6217997--6218230 Score: 219
Period size: 85 Copynumber: 2.7 Consensus size: 84
6217987 TTAGAACAGC
* * * *
6217997 CTTA-TTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGATGAGCTTTATTTATTTTTTAAAGTTT
1 CTTATTTTA-TTTTTAAAGTTGTTGAG-CTCT-CTTAAATGAGCCTTATTTATTTTTTAAAGTTG
* * *
6218061 TTGAACCTTTACTTATAATAGT
63 TTAAACCTCTACTTACAATAGT
6218083 CTTATTTT-TTTTTAAAGTTGTTGAGTCTCTACTTAAATGAGCCTTATTTATTTTTTAAAGTTGT
1 CTTATTTTATTTTTAAAGTTGTTGAG-CTCT-CTTAAATGAGCCTTATTTATTTTTTAAAGTTGT
6218147 TAAACCTCTAC-T-CAATGGAG-
64 TAAACCTCTACTTACAAT--AGT
* ** *
6218167 CTTTTTTTATTTTTCAAAGTCATTGAGCATCTTTTCAGAA-GAGCCTTATTTATTTTTTTAAAGT
1 CTTATTTTATTTTT-AAAGTTGTTGAGC-TCTCTT-A-AATGAGCCTTATTTA-TTTTTTAAAGT
6218231 AATTGAGCAT
Statistics
Matches: 126, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
83 3 0.02
84 8 0.06
85 69 0.55
86 30 0.24
87 16 0.13
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (84 bp):
CTTATTTTATTTTTAAAGTTGTTGAGCTCTCTTAAATGAGCCTTATTTATTTTTTAAAGTTGTTA
AACCTCTACTTACAATAGT
Found at i:6218215 original size:128 final size:129
Alignment explanation
Indices: 6217994--6218230 Score: 302
Period size: 128 Copynumber: 1.8 Consensus size: 129
6217984 TGCTTAGAAC
* * * *
6217994 AGCCTTATTTATTTTTTAAAGTTGTTAAGCCTCTGCTTAGATGAGCTTTATTTATTTTTTAAAGT
1 AGCCTTATTTATTTTTTAAAGTTGTTAAACCTCTACTCAGATGAGCTTTATTTATTTTTCAAAGT
** * * * *
6218059 TTTTGAACCTTTACTTATAATAGTCTTA-TT-TTTTTTTAAAGTTGTTGAGTCTCTACTTAAATG
66 CATTGAACCTTTA-TCAGAAGAGCCTTATTTATTTTTTTAAAGTTGTTGAGTCTCTACTTAAATG
*
6218122 AGCCTTATTTATTTTTTAAAGTTGTTAAACCTCTACTCA-ATGGAGCTTTTTTTATTTTTCAAAG
1 AGCCTTATTTATTTTTTAAAGTTGTTAAACCTCTACTCAGAT-GAGCTTTATTTATTTTTCAAAG
*
6218186 TCATTGAGCATCTTT-TCAGAAGAGCCTTATTTATTTTTTTAAAGT
65 TCATTGA--ACCTTTATCAGAAGAGCCTTATTTATTTTTTTAAAGT
6218231 AATTGAGCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
127 2 0.02
128 71 0.77
129 2 0.02
130 17 0.18
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (129 bp):
AGCCTTATTTATTTTTTAAAGTTGTTAAACCTCTACTCAGATGAGCTTTATTTATTTTTCAAAGT
CATTGAACCTTTATCAGAAGAGCCTTATTTATTTTTTTAAAGTTGTTGAGTCTCTACTTAAATG
Found at i:6219232 original size:4 final size:4
Alignment explanation
Indices: 6219223--6219258 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
6219213 TGATTTTTTG
*
6219223 ATTT ATTT ATTT AGTT ATTTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATT
6219259 AGTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:6219246 original size:17 final size:17
Alignment explanation
Indices: 6219224--6219258 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6219214 GATTTTTTGA
6219224 TTTATTTATTTAGTTAT
1 TTTATTTATTTAGTTAT
*
6219241 TTTATTTATTTATTTAT
1 TTTATTTATTTAGTTAT
6219258 T
1 T
6219259 AGTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTAGTTAT
Found at i:6219601 original size:26 final size:23
Alignment explanation
Indices: 6219545--6219602 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
6219535 ACCCAATGGT
*
6219545 AAAATTTTTAAAAATTTTAAATG
1 AAAATTTTTAAAAATTCTAAATG
*
6219568 ACAAATTTCTTAAAAGATCTCTAAGTG
1 A-AAATTT-TTAAAA-AT-TCTAAATG
6219595 AAAATTTT
1 AAAATTTT
6219603 CTCCAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 6 0.21
25 7 0.24
26 8 0.28
27 7 0.24
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (23 bp):
AAAATTTTTAAAAATTCTAAATG
Found at i:6222460 original size:23 final size:26
Alignment explanation
Indices: 6222436--6222493 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
6222426 TGTTGTCATT
6222436 AATTTTTT-TA-AATATTTAAATTTAA
1 AATTTTTTATATAATATTTAAATTT-A
6222461 AATTTTTTAATATAATATTTAAATTATA
1 AATTTTTT-ATATAATATTTAAATT-TA
6222489 AATTT
1 AATTT
6222494 ATTAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.28
27 2 0.07
28 18 0.62
29 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTTTTTATATAATATTTAAATTTA
Found at i:6222481 original size:28 final size:27
Alignment explanation
Indices: 6222446--6222505 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
6222436 AATTTTTTTA
*
6222446 AATATTTAAATT-TAAAATTTTTTAATAT
1 AATATTTAAATTAT-AAATTTATTAAT-T
6222474 AATATTTAAATTATAAATTTATTAATT
1 AATATTTAAATTATAAATTTATTAATT
6222501 AATAT
1 AATAT
6222506 AGTTAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.20
28 23 0.77
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATATTTAAATTATAAATTTATTAATT
Found at i:6222682 original size:73 final size:73
Alignment explanation
Indices: 6222597--6222828 Score: 185
Period size: 73 Copynumber: 3.2 Consensus size: 73
6222587 ACATAAAAAA
*
6222597 AATT-TTAAAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTA
1 AATTATTACAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTA
6222661 ATCCATTG
66 ATCCATTG
* * ** * * **** *
6222669 AATTATTACAATTTTA-A-AATATCATTCAACCTTTTTTTTTCAA-ATAGTTTTTATT--TGGA-
1 AATTATTACAA-TTTAGATATTAT-ATTAAATATTTTATTAT-AATATAAAAATCATTCAT-GAT
* *
6222728 ATTTATTCAAGATT-
62 A-TTAATC--CATTG
*
6222742 AATTTGTTTA-AATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATAT
1 AA-TT-ATTACAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATAT
6222806 TAATCCATTG
64 TAATCCATTG
6222816 AATTATTACAATT
1 AATTATTACAATT
6222829 CTAAAATATC
Statistics
Matches: 113, Mismatches: 29, Indels: 35
0.64 0.16 0.20
Matches are distributed among these distances:
71 2 0.02
72 18 0.16
73 42 0.37
74 35 0.31
75 14 0.12
76 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (73 bp):
AATTATTACAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTA
ATCCATTG
Found at i:6222763 original size:147 final size:147
Alignment explanation
Indices: 6222604--6222897 Score: 561
Period size: 147 Copynumber: 2.0 Consensus size: 147
6222594 AAAAATTTTA
6222604 AAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTAATCCATTG
1 AAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTAATCCATTG
* *
6222669 AATTATTACAATTTTAAAATATCATTCAACCTTTTTTTTTCAAATAGTTTTTATTTGGAATTTAT
66 AATTATTACAATTCTAAAATATCAATCAACCTTTTTTTTTCAAATAGTTTTTATTTGGAATTTAT
6222734 TCAAGATTAATTTGTTT
131 TCAAGATTAATTTGTTT
6222751 AAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTAATCCATTG
1 AAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTAATCCATTG
6222816 AATTATTACAATTCTAAAATATCAATCAACCTTTTTTTTTCAAATAGTTTTTATTTGGAATTTAT
66 AATTATTACAATTCTAAAATATCAATCAACCTTTTTTTTTCAAATAGTTTTTATTTGGAATTTAT
*
6222881 TCGAGATTAATTTGTTT
131 TCAAGATTAATTTGTTT
6222898 GTATAAAATT
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (147 bp):
AAATTTAGATATTATATTAAATATTTTATTATAATATAAAAATCATTCATGATATTAATCCATTG
AATTATTACAATTCTAAAATATCAATCAACCTTTTTTTTTCAAATAGTTTTTATTTGGAATTTAT
TCAAGATTAATTTGTTT
Found at i:6222988 original size:20 final size:23
Alignment explanation
Indices: 6222932--6222989 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
6222922 TATTTTGATT
*
6222932 TTAATTGAATTAATTGATTTCGAA
1 TTAATTGAATTAATCGA-TTCGAA
*
6222956 TTAATTTAATTAATCGA-TCG-A
1 TTAATTGAATTAATCGATTCGAA
6222977 TT-ATTGAATTAAT
1 TTAATTGAATTAAT
6222990 TTTGATTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 10 0.32
21 3 0.10
22 3 0.10
24 15 0.48
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (23 bp):
TTAATTGAATTAATCGATTCGAA
Found at i:6223186 original size:12 final size:13
Alignment explanation
Indices: 6223163--6223191 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6223153 AATAATTTGG
6223163 TATTAGGATATTT
1 TATTAGGATATTT
6223176 TATTA-GATATTT
1 TATTAGGATATTT
6223188 TATT
1 TATT
6223192 TAATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTAGGATATTT
Found at i:6224526 original size:56 final size:57
Alignment explanation
Indices: 6224456--6224584 Score: 147
Period size: 56 Copynumber: 2.3 Consensus size: 57
6224446 AAGGCAAACA
* * * *
6224456 AAAAAATAATAATAAAGTCAT-GTAGACAATATAATAAAACCTAAAC-TAAAAAAGTG
1 AAAAAATAATAATAAAGACATAATAGAAAATATAACAAAACCTAAACTTAAAAAA-TG
* * * *
6224512 AAAAAATAACAATAAA-ACCTAATCGAAAATATAACAAGACCTAAACTTAAAAAATG
1 AAAAAATAATAATAAAGACATAATAGAAAATATAACAAAACCTAAACTTAAAAAATG
*
6224568 AAAAAAAAATAATAAAG
1 AAAAAATAATAATAAAG
6224585 CCTAAATTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
55 2 0.03
56 51 0.85
57 7 0.12
ACGTcount: A:0.64, C:0.10, G:0.07, T:0.19
Consensus pattern (57 bp):
AAAAAATAATAATAAAGACATAATAGAAAATATAACAAAACCTAAACTTAAAAAATG
Found at i:6224589 original size:56 final size:56
Alignment explanation
Indices: 6224483--6224589 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
6224473 TCATGTAGAC
* *
6224483 AATATAATAAAACCTAAACTAAAAAAGTGAAAAAATAACAATAAAACCTAATCGAA
1 AATATAACAAAACCTAAACTAAAAAAGTGAAAAAAAAACAATAAAACCTAATCGAA
* * *
6224539 AATATAACAAGACCTAAACTTAAAAAA-TGAAAAAAAAATAATAAAGCCTAA
1 AATATAACAAAACCTAAAC-TAAAAAAGTGAAAAAAAAACAATAAAACCTAA
6224590 ATTAATAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
56 38 0.84
57 7 0.16
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (56 bp):
AATATAACAAAACCTAAACTAAAAAAGTGAAAAAAAAACAATAAAACCTAATCGAA
Found at i:6228455 original size:13 final size:13
Alignment explanation
Indices: 6228437--6228461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6228427 TTTGTCAAAA
6228437 TAATTTTTAATTT
1 TAATTTTTAATTT
6228450 TAATTTTTAATT
1 TAATTTTTAATT
6228462 AAAGATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAATTTTTAATTT
Found at i:6229016 original size:168 final size:168
Alignment explanation
Indices: 6228738--6229078 Score: 655
Period size: 168 Copynumber: 2.0 Consensus size: 168
6228728 ATAGAGAGAA
6228738 AGAAGTGAAAATAGCCCGCATACAAGCATTCTAAAGGACATAATCACAATAAGCAACACCTCTTG
1 AGAAGTGAAAATAGCCCGCATACAAGCATTCTAAAGGACATAATCACAATAAGCAACACCTCTTG
*
6228803 AGACATATTTTTATCTCAGAATACCTTTAACAGCTTCACTAGTTTCAGTATTTAATGATTCTAAA
66 AGACATACTTTTATCTCAGAATACCTTTAACAGCTTCACTAGTTTCAGTATTTAATGATTCTAAA
6228868 AAGCAAGAAAATTTGAAAAAAAGTTCATTTAAAGTAAC
131 AAGCAAGAAAATTTGAAAAAAAGTTCATTTAAAGTAAC
*
6228906 AGAAGTGAAAATAGCCCGCATACAAGCATTCTAAATGACATAATCACAATAAGCAACACCTCTTG
1 AGAAGTGAAAATAGCCCGCATACAAGCATTCTAAAGGACATAATCACAATAAGCAACACCTCTTG
*
6228971 AGACATACTTTTATCTCAGAATACCTTTAACAGCTTCACTAGTTTCAGTCTTTAATGATTCTAAA
66 AGACATACTTTTATCTCAGAATACCTTTAACAGCTTCACTAGTTTCAGTATTTAATGATTCTAAA
6229036 AAGCAAGAAAATTTGAAAAAAAGTTCATTTAAAGTAAC
131 AAGCAAGAAAATTTGAAAAAAAGTTCATTTAAAGTAAC
6229074 AGAAG
1 AGAAG
6229079 ATTCAAATGC
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 170 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.28
Consensus pattern (168 bp):
AGAAGTGAAAATAGCCCGCATACAAGCATTCTAAAGGACATAATCACAATAAGCAACACCTCTTG
AGACATACTTTTATCTCAGAATACCTTTAACAGCTTCACTAGTTTCAGTATTTAATGATTCTAAA
AAGCAAGAAAATTTGAAAAAAAGTTCATTTAAAGTAAC
Found at i:6232798 original size:84 final size:84
Alignment explanation
Indices: 6232696--6232858 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
6232686 CATTCTAGAT
* * * * ** *
6232696 AAGATTCGTAAGTTTTTCGAGTTGAATCTGTTTTAGAGTTGATATTTGTAAGACCTC-CGAATGT
1 AAGATTCGTAAGTCTTTCGAGCTAAATCTGTTCTAGAGTCAAGATTTGTAAGACCTCTCG-ATGT
6232760 AATCT-TCAAGTCTTTCAGGC
65 AATCTCT-AAGTCTTTCAGGC
* * * *
6232780 AAGATTGGTAAGTCTTTCGAGCTAAATTTGTTCTAGAGTCAAGATTTGTAAGACTTCTTGATGTA
1 AAGATTCGTAAGTCTTTCGAGCTAAATCTGTTCTAGAGTCAAGATTTGTAAGACCTCTCGATGTA
6232845 ATCTCTAAGTCTTT
66 ATCTCTAAGTCTTT
6232859 AGACAGATCT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 64 0.97
85 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (84 bp):
AAGATTCGTAAGTCTTTCGAGCTAAATCTGTTCTAGAGTCAAGATTTGTAAGACCTCTCGATGTA
ATCTCTAAGTCTTTCAGGC
Found at i:6239972 original size:7 final size:7
Alignment explanation
Indices: 6239956--6240002 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
6239946 TTAAGTTAAA
6239956 TTAAATT
1 TTAAATT
*
6239963 TTATATT
1 TTAAATT
*
6239970 TTACA-T
1 TTAAATT
6239976 TTAAATT
1 TTAAATT
6239983 TTAAATT
1 TTAAATT
*
6239990 TTATATT
1 TTAAATT
*
6239997 TAAAAT
1 TTAAAT
6240003 AAATTTAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (7 bp):
TTAAATT
Found at i:6239979 original size:20 final size:20
Alignment explanation
Indices: 6239956--6240000 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6239946 TTAAGTTAAA
*
6239956 TTAAATTTTATATTTTACAT
1 TTAAATTTTAAATTTTACAT
*
6239976 TTAAATTTTAAATTTTATAT
1 TTAAATTTTAAATTTTACAT
6239996 TTAAA
1 TTAAA
6240001 ATAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAATTTTAAATTTTACAT
Found at i:6240692 original size:36 final size:33
Alignment explanation
Indices: 6240648--6240740 Score: 127
Period size: 32 Copynumber: 2.8 Consensus size: 33
6240638 TTTAAGATAA
6240648 AAATAAATTTTATTATTATATAGTAAATTAATTAAT
1 AAATAAATTTTATTATT-TAT-GT-AATTAATTAAT
6240684 AAATAAATTTTATTA-TTATGTAATTAATTAAT
1 AAATAAATTTTATTATTTATGTAATTAATTAAT
*
6240716 AAATAATTTTTAATTATTTAT-TAAT
1 AAATAAATTTT-ATTATTTATGTAAT
6240741 AAAATTATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
32 21 0.39
33 10 0.19
34 7 0.13
35 1 0.02
36 15 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (33 bp):
AAATAAATTTTATTATTTATGTAATTAATTAAT
Found at i:6244828 original size:17 final size:18
Alignment explanation
Indices: 6244808--6244841 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6244798 ATTAATCAAT
6244808 AAAATTTATA-ATTTTGA
1 AAAATTTATATATTTTGA
6244825 AAAATTTATATATTTTG
1 AAAATTTATATATTTTG
6244842 TTAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
AAAATTTATATATTTTGA
Found at i:6245012 original size:33 final size:33
Alignment explanation
Indices: 6244975--6245041 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6244965 GGGATAAGAT
*
6244975 TAAACCATTTTTTCTTTTTTTAACTTTTCTTTC
1 TAAACCATTTTTTCTTTTTTTAACTTCTCTTTC
6245008 TAAACCATTTTTTCTTTTTTTAACTTCTCTTTC
1 TAAACCATTTTTTCTTTTTTTAACTTCTCTTTC
6245041 T
1 T
6245042 CATCCCTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.19, G:0.00, T:0.63
Consensus pattern (33 bp):
TAAACCATTTTTTCTTTTTTTAACTTCTCTTTC
Found at i:6246180 original size:28 final size:28
Alignment explanation
Indices: 6246144--6246375 Score: 129
Period size: 28 Copynumber: 8.5 Consensus size: 28
6246134 ATTAATAATA
6246144 TAAT-AATATTAATATAATAATATTTAT
1 TAATAAATATTAATATAATAATATTTAT
*
6246171 TTATAAATATT-ATATTAATAATA-TTAT
1 TAATAAATATTAATA-TAATAATATTTAT
* * *
6246198 TATATGAATA--AATA-AATGATATTAAT
1 TA-ATAAATATTAATATAATAATATTTAT
* * *
6246224 AAATAATGTATT-ATATTAATAATA-TAAT
1 TAATAA-ATATTAATA-TAATAATATTTAT
*
6246252 TTAT-AATA--AATATAATAATATTTAT
1 TAATAAATATTAATATAATAATATTTAT
* *
6246277 TAATATATTATTAATAT-ATCATATTATAT
1 TAATA-AATATTAATATAATAATATT-TAT
* * *
6246306 TAATAAATAATATATTATACTAATA-ATAT
1 TAATAAAT-AT-TAATATAATAATATTTAT
*
6246335 T-ATTAATA-TAATATAAT-ATGATTTAT
1 TAATAAATATTAATATAATAAT-ATTTAT
6246361 ATAATAAATA-TAATA
1 -TAATAAATATTAATA
6246376 GTTTTAATTA
Statistics
Matches: 155, Mismatches: 26, Indels: 47
0.68 0.11 0.21
Matches are distributed among these distances:
24 10 0.06
25 26 0.17
26 11 0.07
27 23 0.15
28 51 0.33
29 25 0.16
30 5 0.03
31 4 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (28 bp):
TAATAAATATTAATATAATAATATTTAT
Found at i:6246250 original size:5 final size:5
Alignment explanation
Indices: 6246242--6246375 Score: 64
Period size: 5 Copynumber: 26.2 Consensus size: 5
6246232 TATTATATTA
* *
6246242 ATAAT ATAATTT ATAAT A-AAT ATAAT AATATTT ATTAAT ATATT ATTAAT
1 ATAAT ATAA--T ATAAT ATAAT ATAAT -ATA-AT A-TAAT ATAAT A-TAAT
* * * * *
6246292 AT-AT CATATT ATATT AATAA- ATAAT ATATT ATACT AATAAT ATTAT
1 ATAAT -ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
* *
6246338 -TAAT ATAAT ATAAT ATGAT -TTAT ATAAT A-AAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
6246376 GTTTTAATTA
Statistics
Matches: 100, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
4 20 0.20
5 54 0.54
6 18 0.18
7 8 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (5 bp):
ATAAT
Found at i:6246360 original size:23 final size:22
Alignment explanation
Indices: 6246317--6246390 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 22
6246307 AATAAATAAT
*
6246317 ATATTATACTAATA-ATATTATTA
1 ATATAATA-TAATAGAT-TTATTA
6246340 ATATAATATAATATGATTTATATA
1 ATATAATATAATA-GATTTAT-TA
*
6246364 ATA-AATATAATAGTTTTAATTA
1 ATATAATATAATAGATTT-ATTA
6246386 ATATA
1 ATATA
6246391 TTATTTGTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
22 14 0.32
23 23 0.52
24 7 0.16
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (22 bp):
ATATAATATAATAGATTTATTA
Found at i:6246387 original size:107 final size:102
Alignment explanation
Indices: 6246130--6246395 Score: 262
Period size: 102 Copynumber: 2.6 Consensus size: 102
6246120 AGGCTCCATT
* * * *
6246130 TATTAT-T-AATAATATAA-TAATATTAATATAATAATATTTATTTATAAATAT-TATATTAATA
1 TATTATATAAATAATATAATTTATAATAA-AT-ATAATA-ATATTTATTAATATAT-TATTAATA
6246191 ATATTATTATATGAATAAATAAATGATATTAATAAATAATG
62 ATATTATTATATGAATAAATAAATGATATTAATAAATAATG
*
6246232 TATTATATTAATAATATAATTTATAATAAATATAATAATATTTATTAATATATTATTAAT-ATAT
1 TATTATATAAATAATATAATTTATAATAAATATAATAATATTTATTAATATATTATTAATAATAT
* *
6246296 CATATTATATTAATAAAT-AAT-ATATT-ATACTAATAATAT
66 --TATTATATGAATAAATAAATGATATTAATA--AATAAT-G
* *
6246335 TATTAATATAATATAATATGATTTATATAATAAATATAATAGT-TTTAATTAATATATTATT
1 TATT-ATATAA-ATAATAT-AATT-TATAATAAATATAATAATATTT-ATTAATATATTATT
6246396 TGTTAATATA
Statistics
Matches: 141, Mismatches: 9, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
100 3 0.02
101 9 0.06
102 34 0.24
103 27 0.19
104 17 0.12
105 14 0.10
106 6 0.04
107 31 0.22
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (102 bp):
TATTATATAAATAATATAATTTATAATAAATATAATAATATTTATTAATATATTATTAATAATAT
TATTATATGAATAAATAAATGATATTAATAAATAATG
Found at i:6246418 original size:53 final size:52
Alignment explanation
Indices: 6246197--6246432 Score: 150
Period size: 53 Copynumber: 4.4 Consensus size: 52
6246187 AATAATATTA
* * **
6246197 TTATATGAATAAATA-AATGATATTAATAAATA-ATGTATTATATTAATA-ATATAA
1 TTATAT-AATAAATATAAT-ATTTTAATTAATATAT-TATT-TATTAATATA-ATGT
* * *
6246251 TT-TATAATAAATATAATAATATTT-ATTAATATATTA-TTAAT-ATATCAT-A
1 TTATATAATAAATATAAT-AT-TTTAATTAATATATTATTTATTAATATAATGT
* * *
6246300 TTATATTAAT-AA-ATAATATATTATACTAATAATATTATTAATATAATATAATATGAT
1 TTATA-TAATAAATATAATATTTTA-ATTAAT-ATATTATTTAT-TAATAT-A-ATG-T
*
6246357 TTATATAATAAATATAATAGTTTTAATTAATATATTATTTGTTAATATAATGT
1 TTATATAATAAATATAATA-TTTTAATTAATATATTATTTATTAATATAATGT
* *
6246410 TTATATAATAAAAATATTATTTT
1 TTATATAATAAATATAATATTTT
6246433 GTAATATAAT
Statistics
Matches: 146, Mismatches: 17, Indels: 40
0.72 0.08 0.20
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 13 0.09
50 15 0.10
51 9 0.06
52 14 0.10
53 38 0.26
54 9 0.06
55 3 0.02
56 10 0.07
57 16 0.11
58 11 0.08
59 4 0.03
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (52 bp):
TTATATAATAAATATAATATTTTAATTAATATATTATTTATTAATATAATGT
Found at i:6246668 original size:19 final size:19
Alignment explanation
Indices: 6246644--6246682 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6246634 TTTCAATTTT
6246644 AAAAAATAAAAACAAAAAC
1 AAAAAATAAAAACAAAAAC
* *
6246663 AAAAAATAGAAATAAAAAC
1 AAAAAATAAAAACAAAAAC
6246682 A
1 A
6246683 TATGACCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (19 bp):
AAAAAATAAAAACAAAAAC
Found at i:6249758 original size:8 final size:8
Alignment explanation
Indices: 6249745--6249778 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
6249735 AAAAGATATA
6249745 AAAAAATC
1 AAAAAATC
6249753 AAAAAATC
1 AAAAAATC
6249761 --AAAATC
1 AAAAAATC
6249767 AAAAAATC
1 AAAAAATC
6249775 AAAA
1 AAAA
6249779 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:6249766 original size:14 final size:14
Alignment explanation
Indices: 6249747--6249779 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
6249737 AAGATATAAA
6249747 AAAATCAAAAAATC
1 AAAATCAAAAAATC
6249761 AAAATCAAAAAATC
1 AAAATCAAAAAATC
6249775 AAAAT
1 AAAAT
6249780 TTTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATCAAAAAATC
Found at i:6255937 original size:18 final size:17
Alignment explanation
Indices: 6255916--6255956 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 17
6255906 AAAGAGGAAA
6255916 AAAAAAAAAATGAAAGAC
1 AAAAAAAAAAT-AAAGAC
6255934 AAAATAAAAAATAAAGAC
1 AAAA-AAAAAATAAAGAC
6255952 AAAAA
1 AAAAA
6255957 TTTCTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAATAAAGAC
Found at i:6255956 original size:19 final size:20
Alignment explanation
Indices: 6255914--6255957 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
6255904 AAAAAGAGGA
*
6255914 AAAAAAAAAAAATGAAAGAC
1 AAAAATAAAAAATGAAAGAC
6255934 -AAAATAAAAAAT-AAAGAC
1 AAAAATAAAAAATGAAAGAC
6255952 AAAAAT
1 AAAAAT
6255958 TTCTTCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.09
Consensus pattern (20 bp):
AAAAATAAAAAATGAAAGAC
Found at i:6256080 original size:13 final size:13
Alignment explanation
Indices: 6256062--6256086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6256052 TTTTTAATAT
6256062 TTTATTTATCTTA
1 TTTATTTATCTTA
6256075 TTTATTTATCTT
1 TTTATTTATCTT
6256087 TTAATCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTATCTTA
Found at i:6256097 original size:32 final size:33
Alignment explanation
Indices: 6256034--6256102 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
6256024 TTAAACCTAA
* *
6256034 TTATCTTATTTTTTATATTTTTTAATATTTTAT
1 TTATCTTATTTATTATATCTTTTAATATTTTAT
*
6256067 TTATCTTATTTATT-TATCTTTTAATCTTTTAT
1 TTATCTTATTTATTATATCTTTTAATATTTTAT
6256099 TTAT
1 TTAT
6256103 TTGGTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (33 bp):
TTATCTTATTTATTATATCTTTTAATATTTTAT
Found at i:6256655 original size:15 final size:15
Alignment explanation
Indices: 6256622--6256656 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6256612 TGAATTTCTG
*
6256622 TAGGGTTTTGCTTTA
1 TAGGGTTTTGCATTA
*
6256637 TAGGGTTTTGCATTC
1 TAGGGTTTTGCATTA
6256652 TAGGG
1 TAGGG
6256657 ATTTCTGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.09, G:0.31, T:0.46
Consensus pattern (15 bp):
TAGGGTTTTGCATTA
Found at i:6256815 original size:21 final size:21
Alignment explanation
Indices: 6256763--6256820 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
6256753 GTTAAAGAAT
* *
6256763 TTCACCGATTTTTGAAAATTC
1 TTCACCGATTTTTGGAAATTA
* * * *
6256784 TTTACCCATTTTTGGGATTTA
1 TTCACCGATTTTTGGAAATTA
6256805 TTCACCGATTTTTGGA
1 TTCACCGATTTTTGGA
6256821 TGCCTATGAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (21 bp):
TTCACCGATTTTTGGAAATTA
Found at i:6258671 original size:17 final size:16
Alignment explanation
Indices: 6258647--6258693 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
6258637 TTCATGCAAC
6258647 TCAT-TCATTCATAGA
1 TCATATCATTCATAGA
**
6258662 TCATTATCATTCATTTA
1 TCA-TATCATTCATAGA
6258679 TCATATCATTGCATA
1 TCATATCATT-CATA
6258694 ATAGAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 8 0.31
17 15 0.58
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (16 bp):
TCATATCATTCATAGA
Found at i:6261874 original size:20 final size:20
Alignment explanation
Indices: 6261841--6261879 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6261831 AAGATTTCTT
* *
6261841 GAATGTGAACCTTTAAACTC
1 GAATGAGAAACTTTAAACTC
*
6261861 GAATGAGAAACTTTGAACT
1 GAATGAGAAACTTTAAACT
6261880 TTTGGATGTG
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:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (20 bp):
GAATGAGAAACTTTAAACTC
Found at i:6262194 original size:41 final size:40
Alignment explanation
Indices: 6262137--6262233 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 40
6262127 TTGTCGAGGG
*
6262137 GCATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAAAGGA
1 GCATTTA-TTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGA
*
6262178 GCATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGA
1 GCA-TTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGA
6262219 GCATTTA-TTTTCAAA
1 GCATTTATTTTTCAAA
6262234 AGTCATTGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
39 8 0.15
40 4 0.08
41 37 0.70
42 4 0.08
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (40 bp):
GCATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGA
Found at i:6262254 original size:40 final size:41
Alignment explanation
Indices: 6262132--6262260 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 41
6262122 CATGATTGTC
* ** *
6262132 GAGGGGCA-TTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTA-TTTTTCAAAGTCATGGAGCCTCTGTTTA
* ** * *
6262173 AAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTA
1 GAGGAGCATTTTATTTTTCAAAGTCATGGAGCCTCTGTTTA
* *
6262214 GAGGAGCA-TTTA-TTTTCAAAAGTCATTGAGTCTCTGTTTA
1 GAGGAGCATTTTATTTTTC-AAAGTCATGGAGCCTCTGTTTA
6262254 GAGGAGC
1 GAGGAGC
6262261 TTTGTTTACT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.07
40 27 0.36
41 40 0.53
42 4 0.05
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.40
Consensus pattern (41 bp):
GAGGAGCATTTTATTTTTCAAAGTCATGGAGCCTCTGTTTA
Found at i:6267854 original size:9 final size:9
Alignment explanation
Indices: 6267849--6267941 Score: 56
Period size: 8 Copynumber: 10.3 Consensus size: 9
6267839 GGGAAAAAGG
6267849 AAAAAATGA
1 AAAAAATGA
6267858 AAAAAATG-
1 AAAAAATGA
6267866 -AAAAATGA
1 AAAAAATGA
*
6267874 AGAATGAACGAAGA
1 A-AA--AA--ATGA
6267888 AAAAAATGA
1 AAAAAATGA
6267897 CAAAAAAT-A
1 -AAAAAATGA
6267906 AAAAAA--A
1 AAAAAATGA
6267913 AAAAAATG-
1 AAAAAATGA
*
6267921 AAAGAAT-A
1 AAAAAATGA
6267929 AAAAAGATGA
1 AAAAA-ATGA
6267939 AAA
1 AAA
6267942 GAAGAGAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
7 14 0.21
8 16 0.24
9 14 0.21
10 13 0.19
11 2 0.03
12 2 0.03
13 2 0.03
14 4 0.06
ACGTcount: A:0.75, C:0.02, G:0.13, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:6267911 original size:41 final size:39
Alignment explanation
Indices: 6267841--6267941 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 39
6267831 AATGAAAAGG
* * ** *
6267841 GAAA-AAGGAAAAAATGAAAAAAATGAAAAATGAAGAAT
1 GAAAGAAGAAAAAAATGAAAAAAATAAAAAAAAAAAAAT
*
6267879 GAACGAAGAAAAAAATGACAAAAAATAAAAAAAAAAAAAAT
1 GAAAGAAGAAAAAAATGA-AAAAAAT-AAAAAAAAAAAAAT
*
6267920 GAAAGAATAAAAAAGATGAAAA
1 GAAAGAAGAAAAAA-ATGAAAA
6267942 GAAGAGAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.06
39 12 0.24
40 7 0.14
41 25 0.49
42 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (39 bp):
GAAAGAAGAAAAAAATGAAAAAAATAAAAAAAAAAAAAT
Found at i:6267928 original size:23 final size:24
Alignment explanation
Indices: 6267842--6267933 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
6267832 ATGAAAAGGG
* **
6267842 AAAAAGGAAAAAATGAAAAAAATG
1 AAAAATGAAAAAATGAAAAAAAAA
* ** *
6267866 AAAAATG-AAGAATGAACGAAGAA
1 AAAAATGAAAAAATGAAAAAAAAA
6267889 AAAAATGACAAAAAAT-AAAAAAAAA
1 AAAAATG--AAAAAATGAAAAAAAAA
*
6267914 AAAAATGAAAGAAT-AAAAAA
1 AAAAATGAAAAAATGAAAAAA
6267934 GATGAAAAGA
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
23 29 0.55
24 6 0.11
25 13 0.25
26 5 0.09
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (24 bp):
AAAAATGAAAAAATGAAAAAAAAA
Found at i:6267944 original size:18 final size:17
Alignment explanation
Indices: 6267898--6267940 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6267888 AAAAAATGAC
*
6267898 AAAAAAT-AAA-AAAAA
1 AAAAAATGAAAGAATAA
6267913 AAAAAATGAAAGAATAA
1 AAAAAATGAAAGAATAA
*
6267930 AAAAGATGAAA
1 AAAAAATGAAA
6267941 AGAAGAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 3 0.12
17 14 0.58
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAATGAAAGAATAA
Found at i:6268825 original size:78 final size:79
Alignment explanation
Indices: 6268620--6268842 Score: 270
Period size: 79 Copynumber: 2.8 Consensus size: 79
6268610 GATCAAATAG
*
6268620 TGAGAATAATGTGGACCAATGGATGAAATTCATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAA
1 TGAGAATAATGTGGACCAATGGATAAAATTCATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAA
6268685 TAGCAATCAAGTGA
66 TAGCAATCAAGTGA
* ** * * * * * * *
6268699 TGA-ACACAATGTGGATTAATTGACAGAAGTCATTCTTGAATGGCTAGTGTTGAAAAGTCTGTGA
1 TGAGA-ATAATGTGGACCAATGGATAAAATTCATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGA
**
6268763 ATAGTGAT-AAGTGA
65 ATAGCAATCAAGTGA
* * * *
6268777 TGAGAATAATGTAGACCAAAGGATAAAATTTATTCTTGAATGGTTAGTGCTGAGAAGCCTGTGAA
1 TGAGAATAATGTGGACCAATGGATAAAATTCATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAA
6268842 T
66 T
6268843 TATGGTAAAA
Statistics
Matches: 115, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
78 57 0.50
79 58 0.50
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (79 bp):
TGAGAATAATGTGGACCAATGGATAAAATTCATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAA
TAGCAATCAAGTGA
Found at i:6269346 original size:46 final size:46
Alignment explanation
Indices: 6269290--6269701 Score: 228
Period size: 46 Copynumber: 9.5 Consensus size: 46
6269280 AAATCCTGAA
*
6269290 TTTTCTAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGACG
1 TTTTC-AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACG
* * *
6269337 TTTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCATTAAGACA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACG
6269383 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACG
* * * * *
6269426 TTTT-AAATGAAAATCTATAAGACATTTTCAAATGAAAATCTTT--GA-G
1 TTTTCAAATGAGAATCT-T-TGA-GTCTT-AAATGAGAATCTTTAAGACG
* * * *
6269472 TATT-GAATGAGAATCTTTAGGAAATCCTCAAATGAGAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTT--G-AGT-CTTAAATGAGAATCTTTAAGACG
**
6269518 TTTTC-------AATCTTTGAG-CTTAAATGAGAATCTTTAAGAAA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACG
** * *
6269556 TCATCAAATGAGAAACTTTGAAT-TTCAAATGAGAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTAAGACG
** * * *
6269599 -CCTCAAATAAGAATATTTGAGTCTTAAATGAGAATATTT--GA-G
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACG
* *
6269641 TTTTC-------AATCTTTGAGTCTTAAATGAGAATTTTTAAGGA-A
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAA-GACG
**
6269680 TCCTCAAATGAGAATCTTTGAG
1 TTTTCAAATGAGAATCTTTGAG
6269702 ATGTGAAACC
Statistics
Matches: 291, Mismatches: 41, Indels: 67
0.73 0.10 0.17
Matches are distributed among these distances:
35 16 0.05
36 26 0.09
37 3 0.01
38 4 0.01
39 5 0.02
40 7 0.02
42 44 0.15
43 9 0.03
44 6 0.02
45 14 0.05
46 150 0.52
47 7 0.02
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (46 bp):
TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACG
Found at i:6269413 original size:67 final size:64
Alignment explanation
Indices: 6269295--6269676 Score: 258
Period size: 67 Copynumber: 6.0 Consensus size: 64
6269285 CTGAATTTTC
* * *
6269295 TAAATGAGAATCTTTGAGTTTT-AAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTAAG
1 TAAATGAGAATCTTAGAATTTTCAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATCTTTAAG
6269359 TCT
62 TCT
*
6269362 TAAATGAGAATCATTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTGAGT
1 TAAATGAGAATC-TT-AGA-ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGT
*
6269427 TT
63 CT
* * * *
6269429 TAAATGAAAATCTATAAGACATTTTCAAATGAAAATCTTTGAGTATTGAATGAGAATCTTTAGGA
1 TAAATGAGAATCT-T-AGA-ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT---A
*
6269494 AATCCT
60 AGT-CT
* * *
6269500 CAAATGAGAATCTTTGAGTTTTC-------AATCTTTGAG-CTTAAATGAGAATCTTTAAGAAAT
1 TAAATGAGAATCTTAGAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG---T
6269557 CAT
63 C-T
* * * * * * * *
6269560 CAAATGAGAAACTTTGAA-TTTCAAATGAGAATCTTTGAGCCTCAAATAAGAATATTTGAGTCT
1 TAAATGAGAATCTTAGAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGTCT
* * * *
6269623 TAAATGAGAATATTTGAGTTTTC-------AATCTTTGAGTCTTAAATGAGAATTTTTAAG
1 TAAATGAGAATCTTAGAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
6269677 GAATCCTCAA
Statistics
Matches: 259, Mismatches: 34, Indels: 54
0.75 0.10 0.16
Matches are distributed among these distances:
57 28 0.11
59 5 0.02
60 33 0.13
61 10 0.04
63 15 0.06
64 6 0.02
66 11 0.04
67 101 0.39
68 11 0.04
69 6 0.02
70 7 0.03
71 26 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (64 bp):
TAAATGAGAATCTTAGAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGTCT
Found at i:6269503 original size:113 final size:110
Alignment explanation
Indices: 6269295--6269644 Score: 387
Period size: 113 Copynumber: 3.2 Consensus size: 110
6269285 CTGAATTTTC
* * *
6269295 TAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTAAGT
1 TAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAATCTTTGAGT
* **
6269360 CTTAAATGAGAATCATTAAGACATTTTCAAATGAGAATCTTTGAGTCT
66 -TTAAATGAGAATC-TTTAGA-ATCCTCAAATGAGAATCTTTGAGTCT
* *
6269408 TAAATGAGAATCTTTGAGTTTTAAATGAAAATCTATAAGACATTTTCAAATGAAAATCTTTGAGT
1 TAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAATCTTTGAGT
*
6269473 ATTGAATGAGAATCTTTAGGAAATCCTCAAATGAGAATCTTTGAGT-T
66 -TTAAATGAGAATCTTTA-G-AATCCTCAAATGAGAATCTTTGAGTCT
* * * ** *
6269520 T---T--CAATCTTTGAG-CTTAAATGAGAATCTTTAAGAAATCATCAAATGAGAAA-CTTTGAA
1 TAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGACATTTTCAAATGA-AAATCTTTGAG
* * *
6269578 TTTCAAATGAGAATCTTT-G-AGCCTCAAATAAGAATATTTGAGTCT
65 TTT-AAATGAGAATCTTTAGAATCCTCAAATGAGAATCTTTGAGTCT
*
6269623 TAAATGAGAATATTTGAGTTTT
1 TAAATGAGAATCTTTGAGTTTT
6269645 CAATCTTTGA
Statistics
Matches: 201, Mismatches: 25, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
102 21 0.10
103 2 0.01
104 1 0.00
105 2 0.01
106 49 0.24
107 13 0.06
108 9 0.04
109 3 0.01
112 5 0.02
113 95 0.47
114 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (110 bp):
TAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAATCTTTGAGT
TTAAATGAGAATCTTTAGAATCCTCAAATGAGAATCTTTGAGTCT
Found at i:6269604 original size:21 final size:21
Alignment explanation
Indices: 6269523--6269640 Score: 85
Period size: 21 Copynumber: 5.5 Consensus size: 21
6269513 TTGAGTTTTC
*
6269523 AATCTTTGAG-CTTAAATGAG
1 AATCTTTGAGCCTCAAATGAG
* *
6269543 AATCTTTAAGAAATCATCAAATGAG
1 AATCTTT--G--AGCCTCAAATGAG
* ***
6269568 AAACTTTGAATTTCAAATGAG
1 AATCTTTGAGCCTCAAATGAG
*
6269589 AATCTTTGAGCCTCAAATAAG
1 AATCTTTGAGCCTCAAATGAG
* * *
6269610 AATATTTGAGTCTTAAATGAG
1 AATCTTTGAGCCTCAAATGAG
*
6269631 AATATTTGAG
1 AATCTTTGAG
6269641 TTTTCAATCT
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
20 7 0.09
21 53 0.69
22 1 0.01
23 1 0.01
24 1 0.01
25 14 0.18
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (21 bp):
AATCTTTGAGCCTCAAATGAG
Found at i:6269606 original size:42 final size:42
Alignment explanation
Indices: 6269559--6269640 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
6269549 TAAGAAATCA
* *
6269559 TCAAATGAGAA-ACTTTGAAT-TTCAAATGAGAATCTTTGAGCC
1 TCAAATAAGAATA-TTTGAATCTT-AAATGAGAATATTTGAGCC
*
6269601 TCAAATAAGAATATTTGAGTCTTAAATGAGAATATTTGAG
1 TCAAATAAGAATATTTGAATCTTAAATGAGAATATTTGAG
6269641 TTTTCAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (42 bp):
TCAAATAAGAATATTTGAATCTTAAATGAGAATATTTGAGCC
Found at i:6270201 original size:43 final size:43
Alignment explanation
Indices: 6270132--6270227 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 43
6270122 GTCAAGGGGC
* *
6270132 ATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC-A
1 ATTTATTTTTCCAAAGTTGTGATGCCTCTGTTTAGAGGAGCTA
*
6270174 ATTTATTTTTCCAAAAGTTGTGATGCCTTTGTTTAGAGGAGCTTA
1 ATTTATTTTTCC-AAAGTTGTGATGCCTCTGTTTAGAGGAGC-TA
6270219 ATTTATTTT
1 ATTTATTTT
6270228 CAAAAATCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
42 11 0.23
43 27 0.56
45 10 0.21
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (43 bp):
ATTTATTTTTCCAAAGTTGTGATGCCTCTGTTTAGAGGAGCTA
Found at i:6270259 original size:43 final size:45
Alignment explanation
Indices: 6270132--6270260 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 45
6270122 GTCAAGGGGC
* * *
6270132 ATTTATTTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGC--A
1 ATTTATTTTTCCAAAAATTGTGATGCCTCTGTTTAGAGGAGCTTA
* *
6270174 ATTTATTTTTCCAAAAGTTGTGATGCCTTTGTTTAGAGGAGCTTA
1 ATTTATTTTTCCAAAAATTGTGATGCCTCTGTTTAGAGGAGCTTA
*
6270219 ATTTA-TTTT-CAAAAATCAT-TGA-GCCTCTGTTTAGATGAGCTT
1 ATTTATTTTTCCAAAAAT--TGTGATGCCTCTGTTTAGAGGAGCTT
6270261 TGTTTACTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
42 11 0.14
43 51 0.67
44 7 0.09
45 7 0.09
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (45 bp):
ATTTATTTTTCCAAAAATTGTGATGCCTCTGTTTAGAGGAGCTTA
Found at i:6278903 original size:144 final size:142
Alignment explanation
Indices: 6278678--6278945 Score: 296
Period size: 144 Copynumber: 1.9 Consensus size: 142
6278668 GTAACTCGAA
* * *
6278678 AGGTGTGAAATTACCAAACTACCACTTAGGTGTAATTTCGTAATTTAACATTCTCAAGATTAGTT
1 AGGTGTAAAATTACCAAAATACCACTTAAGTGTAATTTCGTAATTTAACATTCTCAAGATTAGTT
** *
6278743 TTTTGTAAAATCTTTCAGATTATGTTTTTATAATATTTGATG-ATTTTTGGTGCATTGAAAACCT
66 TTTTGTAAAATCTTTCAGATTATAATTTCAT-ATATTTGA-GAATTTTTGGTGC-TTGAAAACCT
6278807 TAGTAGCACCTTGAG
128 TAGTAGCACCTTGAG
* * **
6278822 AGGTGTAAAATTACCAAAATATCC-CTTAAAG-GTAATTTCGTAATTTGACTTTCTTGAGATT-G
1 AGGTGTAAAATTACCAAAATA-CCACTT-AAGTGTAATTTCGTAATTTAACATTCTCAAGATTAG
* * * *
6278884 ATTTTTTACG-AAAGT-TTTCATATTTTAATTTCATATATTTGAGAATTTTTTGTGCTTGAAAA
64 -TTTTTT--GTAAAATCTTTCAGATTATAATTTCATATATTTGAGAATTTTTGGTGCTTGAAAA
6278946 TTAAAAATAT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
142 8 0.08
143 19 0.18
144 68 0.65
145 8 0.08
146 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (142 bp):
AGGTGTAAAATTACCAAAATACCACTTAAGTGTAATTTCGTAATTTAACATTCTCAAGATTAGTT
TTTTGTAAAATCTTTCAGATTATAATTTCATATATTTGAGAATTTTTGGTGCTTGAAAACCTTAG
TAGCACCTTGAG
Found at i:6279374 original size:22 final size:21
Alignment explanation
Indices: 6279338--6279378 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6279328 CTTTTTCTTG
*
6279338 CATTTCATTACATTTTCATCC
1 CATTTCATAACATTTTCATCC
6279359 CATTTCCATAACATTTTCAT
1 CATTT-CATAACATTTTCAT
6279379 ATTGATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (21 bp):
CATTTCATAACATTTTCATCC
Found at i:6280192 original size:44 final size:44
Alignment explanation
Indices: 6280129--6280217 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
6280119 TTTTCATTTG
6280129 TTTTCACATACACATCTTATTTATAATTTAGTTTTATAAATGCC
1 TTTTCACATACACATCTTATTTATAATTTAGTTTTATAAATGCC
6280173 TTTTCACATACACATCTTATTTATAATTTAGTTTTATAAATGCC
1 TTTTCACATACACATCTTATTTATAATTTAGTTTTATAAATGCC
6280217 T
1 T
6280218 AGGTTTGTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.48
Consensus pattern (44 bp):
TTTTCACATACACATCTTATTTATAATTTAGTTTTATAAATGCC
Found at i:6280357 original size:14 final size:14
Alignment explanation
Indices: 6280327--6280401 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
6280317 TTATTCTATG
*
6280327 AAACCTTAAACCCT
1 AAACCTTAAATCCT
*
6280341 AAACCTTAAATCTT
1 AAACCTTAAATCCT
* **
6280355 AAA-ATCTAAATTTT
1 AAACCT-TAAATCCT
*
6280369 AAGTCC-TAAATCCT
1 AA-ACCTTAAATCCT
*
6280383 AAACCTTAAGTCCT
1 AAACCTTAAATCCT
6280397 AAACC
1 AAACC
6280402 CTTCTAAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
13 3 0.06
14 44 0.94
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.29
Consensus pattern (14 bp):
AAACCTTAAATCCT
Found at i:6280357 original size:21 final size:21
Alignment explanation
Indices: 6280333--6280403 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
6280323 TATGAAACCT
* *
6280333 TAAACCCTAAACCTTAAATCT
1 TAAACCCTAAACCTTAAGTCC
** **
6280354 TAAAATCTAAATTTTAAGTCC
1 TAAACCCTAAACCTTAAGTCC
*
6280375 TAAATCCTAAACCTTAAGTCC
1 TAAACCCTAAACCTTAAGTCC
6280396 TAAACCCT
1 TAAACCCT
6280404 TCTAAACCCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAGTCC
Found at i:6280422 original size:24 final size:24
Alignment explanation
Indices: 6280381--6280440 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
6280371 GTCCTAAATC
*
6280381 CTAAACCTTAAGTCCTAAACCCTT
1 CTAAACCTTAAATCCTAAACCCTT
* * *
6280405 CTAAACCCTAAATTCTAAACCTTT
1 CTAAACCTTAAATCCTAAACCCTT
*
6280429 CCAAACCTTAAA
1 CTAAACCTTAAA
6280441 CTTTCATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (24 bp):
CTAAACCTTAAATCCTAAACCCTT
Found at i:6282263 original size:21 final size:20
Alignment explanation
Indices: 6282219--6282262 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
6282209 TTTAAAACTT
* *
6282219 AAATTAGAAATTATAAGTTAA
1 AAATTAAAAATAATAA-TTAA
6282240 AAATTAAAAATAATAATTAA
1 AAATTAAAAATAATAATTAA
6282260 AAA
1 AAA
6282263 AATAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATTAAAAATAATAATTAA
Found at i:6282341 original size:17 final size:18
Alignment explanation
Indices: 6282321--6282360 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6282311 CAAGCAACTT
*
6282321 AAAAGCTCAAAAAAAAAA
1 AAAAGCGCAAAAAAAAAA
*
6282339 AAAAGGGCAAAAAAAAAA
1 AAAAGCGCAAAAAAAAAA
6282357 AAAA
1 AAAA
6282361 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAGCGCAAAAAAAAAA
Found at i:6283599 original size:22 final size:18
Alignment explanation
Indices: 6283557--6283593 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
6283547 AAAAAAAAAG
6283557 AATAATAAAATAATAATA
1 AATAATAAAATAATAATA
6283575 AATAATAAAAATAATAATA
1 AATAAT-AAAATAATAATA
6283594 CAAAATTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAATAAAATAATAATA
Found at i:6283999 original size:19 final size:19
Alignment explanation
Indices: 6283975--6284015 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
6283965 CCTAAATGTT
6283975 TAAGTGAAACCTTAAACCC
1 TAAGTGAAACCTTAAACCC
*
6283994 TAAGTGAATCCTTAAACCC
1 TAAGTGAAACCTTAAACCC
6284013 TAA
1 TAA
6284016 AATGAGACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (19 bp):
TAAGTGAAACCTTAAACCC
Found at i:6284067 original size:19 final size:19
Alignment explanation
Indices: 6284026--6284081 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
6284016 AATGAGACCT
* * *
6284026 TAGGTGAAACCCTAAATCT
1 TAGGTAAAACCCTAAACCC
*
6284045 TAGGTAAAACCCTAAGCCC
1 TAGGTAAAACCCTAAACCC
*
6284064 TAGGTAAAACCTTAAACC
1 TAGGTAAAACCCTAAACC
6284082 GTAAAACTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.21
Consensus pattern (19 bp):
TAGGTAAAACCCTAAACCC
Found at i:6287407 original size:87 final size:88
Alignment explanation
Indices: 6287296--6287455 Score: 295
Period size: 87 Copynumber: 1.8 Consensus size: 88
6287286 TGCATACATG
*
6287296 TAATGAATGGTAATGGTAATAGTAATGGTTATACCATGCATTCTAATTCATGATTAATAAAAAGA
1 TAATGAATGGTAATGGTAACAGTAATGGTTATACCATGCATTCTAATTCATGATTAATAAAAAGA
6287361 GGTTTAAATAATAATAATAATAA
66 GGTTTAAATAATAATAATAATAA
*
6287384 TAAT-AATGGTAATGGTAACAGTAATGGTTATACCATGCATTCTAGTTCATGATTAATAAAAAGA
1 TAATGAATGGTAATGGTAACAGTAATGGTTATACCATGCATTCTAATTCATGATTAATAAAAAGA
6287448 GGTTTAAA
66 GGTTTAAA
6287456 GATAGTGAAG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 66 0.94
88 4 0.06
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (88 bp):
TAATGAATGGTAATGGTAACAGTAATGGTTATACCATGCATTCTAATTCATGATTAATAAAAAGA
GGTTTAAATAATAATAATAATAA
Found at i:6289682 original size:19 final size:18
Alignment explanation
Indices: 6289655--6289726 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 18
6289645 TGGAAGATGT
6289655 AAAAA-AAAAAAAAACAAC
1 AAAAACAAAAAAAAA-AAC
6289673 AAAAACAAAAAACAAAAAC
1 AAAAACAAAAAA-AAAAAC
*
6289692 AAAGTAA-AAAAAAGGAAAA-
1 AAA--AACAAAAAA-AAAAAC
*
6289711 AAAAACAAAAGAAAAA
1 AAAAACAAAAAAAAAA
6289727 GAAAAGGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.11
18 10 0.22
19 15 0.33
20 13 0.29
21 2 0.04
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.01
Consensus pattern (18 bp):
AAAAACAAAAAAAAAAAC
Found at i:6289703 original size:13 final size:13
Alignment explanation
Indices: 6289655--6289694 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6289645 TGGAAGATGT
6289655 AAAAAA-AAAAA-
1 AAAAAACAAAAAC
*
6289666 AAACAACAAAAAC
1 AAAAAACAAAAAC
6289679 AAAAAACAAAAAC
1 AAAAAACAAAAAC
6289692 AAA
1 AAA
6289695 GTAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 5 0.20
12 5 0.20
13 15 0.60
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:6289726 original size:16 final size:15
Alignment explanation
Indices: 6289655--6289731 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 15
6289645 TGGAAGATGT
6289655 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
*
6289670 AACAAAAACAAAAAAC
1 AA-AAAAAAAAAAAAC
*
6289686 AAAAACAAAGTAAAAA-
1 AAAAA-AAA-AAAAAAC
**
6289702 AAAGGAAAAAAAAAC
1 AAAAAAAAAAAAAAC
6289717 AAAAGAAAAAGAAAA
1 AAAA-AAAAA-AAAA
6289732 GGAAAGAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
14 5 0.10
15 11 0.23
16 23 0.48
17 9 0.19
ACGTcount: A:0.84, C:0.08, G:0.06, T:0.01
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:6289925 original size:96 final size:97
Alignment explanation
Indices: 6289734--6289917 Score: 226
Period size: 96 Copynumber: 1.9 Consensus size: 97
6289724 AAAGAAAAGG
* * ** *
6289734 AAAGAAAAAATGGTTATGATAACATGTACTTAAAAAATTCGAATAAATTTAAATAAAGTCTTAAC
1 AAAGAAAAAATGGTTATGACAACATGCACTTAAAAAATTCGAATAAATCCAAATAAAGACTTAAC
* * * *
6289799 CAATCCATAATTTTGGAAAGAAACAAAAGATA
66 AAATCAAAAATTTTGAAAAGAAACAAAAGATA
* * * * * *
6289831 AAAG-AAAAATTGTTATGACATCATGCATTTAGAAAATTTGAATAAATCCAAATAAAGACTTGAC
1 AAAGAAAAAATGGTTATGACAACATGCACTTAAAAAATTCGAATAAATCCAAATAAAGACTTAAC
6289895 AAATCAAAAATTTTGAAAAGAAA
66 AAATCAAAAATTTTGAAAAGAAA
6289918 ACCAAGATGC
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
96 68 0.94
97 4 0.06
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (97 bp):
AAAGAAAAAATGGTTATGACAACATGCACTTAAAAAATTCGAATAAATCCAAATAAAGACTTAAC
AAATCAAAAATTTTGAAAAGAAACAAAAGATA
Found at i:6290340 original size:8 final size:8
Alignment explanation
Indices: 6290327--6290371 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 8
6290317 GAAAAAGGTG
6290327 AGAAAAAA
1 AGAAAAAA
6290335 AGAAAAAA
1 AGAAAAAA
6290343 AGAAAAAAAA
1 AG--AAAAAA
6290353 AGAAAAAAA
1 AG-AAAAAA
6290362 AGGAAAAAA
1 A-GAAAAAA
6290371 A
1 A
6290372 AAGGAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 10 0.29
9 15 0.44
10 9 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:6290374 original size:20 final size:18
Alignment explanation
Indices: 6290329--6290385 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
6290319 AAAAGGTGAG
6290329 AAAAAAAGAAAAAAAGAA
1 AAAAAAAGAAAAAAAGAA
6290347 AAAAAAAGAAAAAAAAGGAA
1 AAAAAAAG-AAAAAAA-GAA
* *
6290367 AAAAAAAGGAAGAAAGAA
1 AAAAAAAGAAAAAAAGAA
6290385 A
1 A
6290386 TGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 12 0.34
19 12 0.34
20 11 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAGAA
Found at i:6290377 original size:11 final size:10
Alignment explanation
Indices: 6290329--6290374 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
6290319 AAAAGGTGAG
6290329 AAAAAAAG--
1 AAAAAAAGAA
6290337 AAAAAAAGAA
1 AAAAAAAGAA
6290347 AAAAAAAGAA
1 AAAAAAAGAA
*
6290357 AAAAAAGGAA
1 AAAAAAAGAA
6290367 AAAAAAAG
1 AAAAAAAG
6290375 GAAGAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 8 0.24
10 26 0.76
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:6290382 original size:19 final size:19
Alignment explanation
Indices: 6290329--6290382 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
6290319 AAAAGGTGAG
*
6290329 AAAAAAA-GAAAAAAAGAA
1 AAAAAAAGGAAAAAAGGAA
*
6290347 AAAAAAAGAAAAAAAAGGAA
1 AAAAAAAG-GAAAAAAGGAA
*
6290367 AAAAAAAGGAAGAAAG
1 AAAAAAAGGAAAAAAG
6290383 AAATGAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 7 0.23
19 6 0.20
20 17 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAGGAAAAAAGGAA
Found at i:6291461 original size:36 final size:36
Alignment explanation
Indices: 6291401--6291494 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
6291391 GGTGTCGGCC
* * * *
6291401 CAATCATTTTTTA-TTTTTGACTTGCGGTGTTTTC-
1 CAATTATTCTTTATTTTTTGACTTGCCGTGTTGTCT
*
6291435 CAGCTTATTCTTTATTTTTTGACTTGCCGTGTTGTCT
1 CA-ATTATTCTTTATTTTTTGACTTGCCGTGTTGTCT
* *
6291472 CAATTGTTCTTTATTATTTGACT
1 CAATTATTCTTTATTTTTTGACT
6291495 CGTGTTGTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 2 0.04
35 8 0.16
36 37 0.76
37 2 0.04
ACGTcount: A:0.15, C:0.16, G:0.14, T:0.55
Consensus pattern (36 bp):
CAATTATTCTTTATTTTTTGACTTGCCGTGTTGTCT
Found at i:6291504 original size:36 final size:36
Alignment explanation
Indices: 6291442--6291522 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
6291432 TTCCAGCTTA
* * *
6291442 TTCTTTATTTTTTGACTTGCCGTGTTGTCTCAATTG
1 TTCTTTATTATTTGACTCGCCGTGTTGTCTCAATCG
* * *
6291478 TTCTTTATTATTTGACTCG-TGTTGTTGTTTCAGTCG
1 TTCTTTATTATTTGACTCGCCG-TGTTGTCTCAATCG
6291514 TTCTTTATT
1 TTCTTTATT
6291523 TTTTAACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.11, C:0.15, G:0.16, T:0.58
Consensus pattern (36 bp):
TTCTTTATTATTTGACTCGCCGTGTTGTCTCAATCG
Found at i:6291554 original size:36 final size:36
Alignment explanation
Indices: 6291514--6291594 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
6291504 GTTTCAGTCG
* * *
6291514 TTCTTTATTTTTTAACTTGTAATGTTATCCTGGTCA
1 TTCTTTATTTTCTAACTTATAATGTCATCCTGGTCA
* * * *
6291550 TTCTTTATTTTCTAACTTATAGTGTCGTCTTGGTTA
1 TTCTTTATTTTCTAACTTATAATGTCATCCTGGTCA
6291586 TTCTTTATT
1 TTCTTTATT
6291595 ACTTGACTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (36 bp):
TTCTTTATTTTCTAACTTATAATGTCATCCTGGTCA
Found at i:6292381 original size:36 final size:36
Alignment explanation
Indices: 6291661--6292926 Score: 250
Period size: 36 Copynumber: 35.0 Consensus size: 36
6291651 ACTTGCACTA
** * *
6291661 TTGTCTTGGTTGTTTTTTATTTTTTGACTTACGGTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* ** * *
6291697 TTGTCTTGATTGTTCTTTATTTTTTGACTTGTGATG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* *** * * *
6291733 TTATCCCAGTCATTTTTTATTTTCTAACTTACT-GTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTA-TGGTG
* * ** * * * ** *
6291769 TTGTCCTAGTTGTTCTTTA--CTTTCAATTGCGGTA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* *
6291803 TTGT-TCTGGTCATTCTTTCTTTATTTTTTGACTTGTAGTG
1 TTGTCT-TGGTCA----TTCTTTATTTTTTGACTTATGGTG
* * *
6291843 TTGT-TCTAGTCATTTTTTATTTTTTAACTTAT-GTG
1 TTGTCT-TGGTCATTCTTTATTTTTTGACTTATGGTG
* * ** *
6291878 TTGTCTTAGACATTCTTTATTTTTCAACTTACGGTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * * *
6291914 TTGTCTCGGTCGTGCTTTATTTTTTGACTTATGGTA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
** * * *
6291950 TTGTCTAAGT-TTTTTTTA-TTTTTAACTTATGGTAG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGT-G
* * * * **
6291985 -TGTCCTGATC-GTCTTTTATTTTTTGAGTTGCGGTG
1 TTGTCTTGGTCATTC-TTTATTTTTTGACTTATGGTG
* * * * * * *
6292020 TTATCTTAGTAATTTTTTAGTTTTTGACTTGTGGTA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * * *** * **
6292056 TTGTTCTCGATCATTCTTTATTATCCAACTTGTAATG
1 TTG-TCTTGGTCATTCTTTATTTTTTGACTTATGGTG
*** ****
6292093 TTGTCTTGGTTGGT-TTTATTTTTTGACTTGCAATG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* ** * * * *
6292128 TTATCTCAGTCATTCTTTATTATTGGACTTACGGTA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * * *
6292164 TTGTCTCGATCATTTTTTTTATTTTTTGA-TGTATGGTA
1 TTGTCTTGGTCA--TTCTTTATTTTTTGACT-TATGGTG
* * ** * * * *
6292202 TTGTCCTGATTGTTCTTTATTGTTCGACTTGA-AGTA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTT-ATGGTG
* * * * *
6292238 TTATCCTGGTTATTCTTTATTTTTTAAC-TA-GCAATG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATG--GTG
* ** * *
6292274 TTGTCTTGGTCATTTTTTATTTTTCAACCTACGGTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * ** * *
6292310 TTGT-TTCGATCATTTTTTA-TTTTCCAATGTTTGGTG
1 TTGTCTT-GGTCATTCTTTATTTTTTGACT-TATGGTG
*
6292346 TTGTCTTGGTCGTTCTTTATTTTTTGACTTATGGTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
**** * ** *
6292382 TTGTCCCACTCGTTCTTTATTTTTTGACTGGTGATG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * **** *
6292418 TTATCCTAGTCGTTCATTCTTTATTTTTCT-ACTTGCAATA
1 TTGT-CT--T-GGTCATTCTTTATTTTT-TGACTTATGGTG
* * *
6292458 TTGTCTCGGTCGTTCTTTATTTTTAGA-TT-TGCGATG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATG-G-TG
* ** * ** * * * *
6292494 TTAT-TTCGGTTGTTCTTAATTACTTAACTTGTGATA
1 TTGTCTT-GGTCATTCTTTATTTTTTGACTTATGGTG
*** * *
6292530 TTGTCCCAGTCATTCTTTATTTTTTCACTTGTGGTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * ** * * * * *
6292566 TTATATCAGTCATTCTTTATTTTTTGTCCTACGATA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * * *
6292602 TTGTCTCGATCGTTCTTTATTTTTCTTGACTTATGATG
1 TTGTCTTGGTCATTCTTTA-TTTT-TTGACTTATGGTG
* * * * *
6292640 TTGTCCTGATCGTTCTTT-TTTTTTCAACTTAAGGTG
1 TTGTCTTGGTCATTCTTTATTTTTT-GACTTATGGTG
* * * * **
6292676 TTATCTTGATCATTTTTTTATTTTTTGACCTACAGTG
1 TTGTCTTGGTCA-TTCTTTATTTTTTGACTTATGGTG
* * * * * * *
6292713 TTCTCTTGGTCGTT-TGTTGTTTTCTAACTCACGGTG
1 TTGTCTTGGTCATTCT-TTATTTTTTGACTTATGGTG
* * *
6292749 TTATCTTGGTTATTCTTTATTTTTTAACTT-TAGGTG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTAT-GGTG
* * * * * *
6292785 TTATCCTGATCATTCTTTATTTTCTAAC--ATGCAATG
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATG--GTG
** * * * *
6292821 TTGTCTTGGTTGTT-TGTTATTTTCTAAC-TAGAGGTA
1 TTGTCTTGGTCATTCT-TTATTTTTTGACTTA-TGGTG
** *
6292857 TTGTC-CAGTCATTCTTTATTTTTTGACTTATGGTA
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
* * *
6292892 TTGTCTCGGTCACTCTATATTTTTTGACTTATGGT
1 TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGT
6292927 ATTGCCCCAT
Statistics
Matches: 887, Mismatches: 282, Indels: 122
0.69 0.22 0.09
Matches are distributed among these distances:
34 36 0.04
35 103 0.12
36 566 0.64
37 68 0.08
38 68 0.08
39 2 0.00
40 43 0.05
41 1 0.00
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (36 bp):
TTGTCTTGGTCATTCTTTATTTTTTGACTTATGGTG
Found at i:6293077 original size:10 final size:9
Alignment explanation
Indices: 6293054--6293146 Score: 66
Period size: 9 Copynumber: 10.0 Consensus size: 9
6293044 ACCCGAATCT
6293054 TAAAAACAAA
1 TAAAAA-AAA
6293064 -AAAAAAAGA
1 TAAAAAAA-A
6293073 TAAAAAATAA
1 TAAAAAA-AA
6293083 T-AAAAAAA
1 TAAAAAAAA
6293091 TAAAAAAAA
1 TAAAAAAAA
* *
6293100 CAACAAAAA
1 TAAAAAAAA
* *
6293109 GAAAAAGCAA
1 TAAAAA-AAA
6293119 TAAAAAAAA
1 TAAAAAAAA
*
6293128 CAAAACAAAA
1 TAAAA-AAAA
6293138 -AAACAAAAA
1 TAAA-AAAAA
6293147 ACCCAAAAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.07
9 42 0.62
10 20 0.29
11 1 0.01
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:6293087 original size:20 final size:19
Alignment explanation
Indices: 6293062--6293127 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
6293052 CTTAAAAACA
6293062 AAAAAAAAAGATAAAAAAT
1 AAAAAAAAAGATAAAAAAT
*
6293081 AATAAAAAA-ATAAAAAA-
1 AAAAAAAAAGATAAAAAAT
6293098 AACAACAAAAAGA-AAAAGCAAT
1 AA-AA-AAAAAGATAAAA--AAT
6293120 AAAAAAAA
1 AAAAAAAA
6293128 CAAAACAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 2 0.05
18 9 0.23
19 17 0.44
20 5 0.13
21 4 0.10
22 2 0.05
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAGATAAAAAAT
Found at i:6293108 original size:38 final size:37
Alignment explanation
Indices: 6293054--6293146 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 37
6293044 ACCCGAATCT
6293054 TAAAAACAAAAA-AAAAAGATAAAA-AATAATAAAAAA-A
1 TAAAAA-AAAAACAAAAAGA-AAAACAATAA-AAAAAACA
6293091 TAAAAAAAACAACAAAAAGAAAAAGCAATAAAAAAAACA
1 TAAAAAAAA-AACAAAAAGAAAAA-CAATAAAAAAAACA
6293130 -AAACAAAAAAACAAAAA
1 TAAA-AAAAAAACAAAAA
6293147 ACCCAAAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
36 3 0.06
37 12 0.24
38 24 0.48
39 11 0.22
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (37 bp):
TAAAAAAAAAACAAAAAGAAAAACAATAAAAAAAACA
Found at i:6293113 original size:25 final size:24
Alignment explanation
Indices: 6293056--6293147 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 24
6293046 CCGAATCTTA
*
6293056 AAAACAAAAAAA-AAAGATAAAAA-
1 AAAACAAAAAAACAAA-AAAAAAAC
* * *
6293079 ATAATAAAAAAATAAAAAAAACAAC
1 AAAACAAAAAAACAAAAAAAA-AAC
*
6293104 AAAA-AGAAAAAGCAATAAAAAAAAC
1 AAAACA-AAAAAACAA-AAAAAAAAC
6293129 AAAACAAAAAAACAAAAAA
1 AAAACAAAAAAACAAAAAA
6293148 CCCAAAAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
23 14 0.25
24 10 0.18
25 25 0.45
26 7 0.12
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (24 bp):
AAAACAAAAAAACAAAAAAAAAAC
Found at i:6293137 original size:13 final size:12
Alignment explanation
Indices: 6293055--6293147 Score: 78
Period size: 13 Copynumber: 7.0 Consensus size: 12
6293045 CCCGAATCTT
6293055 AAAAACAAAAAA
1 AAAAACAAAAAA
*
6293067 AAAAGATAAAAAA
1 AAAA-ACAAAAAA
*
6293080 TAATAAAAAAATAAA
1 -AA-AAACAAA-AAA
6293095 AAAAACAACAAAAA
1 AAAAAC-A-AAAAA
*
6293109 GAAAAAGCAATAAA
1 -AAAAA-CAAAAAA
6293123 AAAAACAAAACAA
1 AAAAACAAAA-AA
6293136 AAAAACAAAAAA
1 AAAAACAAAAAA
6293148 CCCAAAAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
12 10 0.15
13 27 0.40
14 16 0.24
15 13 0.19
16 1 0.01
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:6293138 original size:48 final size:46
Alignment explanation
Indices: 6293058--6293173 Score: 118
Period size: 47 Copynumber: 2.6 Consensus size: 46
6293048 GAATCTTAAA
* *
6293058 AACAAAAA-AAAAAG--ATAAAAAATAATAAAAAAATAA-AAAAAAC
1 AACAAAAAGAAAAAGCAATAAAAAA-AAAAAAAAAAAAACAAAAAAC
6293101 AACAAAAAGAAAAAGCAATAAAAAAAACAAAACAAAAAAACAAAAAAC
1 AACAAAAAGAAAAAGCAATAAAAAAAA-AAAA-AAAAAAACAAAAAAC
* *
6293149 -CCAAAAAGAAGAAGGCAA-AAAAAAA
1 AACAAAAAGAA-AAAGCAATAAAAAAA
6293174 TGTTTTTCAC
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 8 0.13
44 6 0.10
45 2 0.03
46 11 0.18
47 22 0.35
48 13 0.21
ACGTcount: A:0.80, C:0.09, G:0.06, T:0.04
Consensus pattern (46 bp):
AACAAAAAGAAAAAGCAATAAAAAAAAAAAAAAAAAAACAAAAAAC
Found at i:6293146 original size:47 final size:44
Alignment explanation
Indices: 6293055--6293173 Score: 120
Period size: 46 Copynumber: 2.7 Consensus size: 44
6293045 CCCGAATCTT
*
6293055 AAAAACAAAAA-AAAAAG--ATAAAAAATAATAAAAAAATAAAAAA
1 AAAAACAAAAAGAAAAAGCAATAAAAAA-AACAAAAAAA-AAAAAA
*
6293098 AACAACAAAAAGAAAAAGCAATAAAAAAAACAAAACAAAAAAACAA
1 AAAAACAAAAAGAAAAAGCAATAAAAAAAACAAAA-AAAAAAA-AA
* *
6293144 AAAACCCAAAAAGAAGAAGGCAA-AAAAAAA
1 AAAA-ACAAAAAGAA-AAAGCAATAAAAAAA
6293174 TGTTTTTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
43 10 0.16
44 6 0.09
45 10 0.16
46 16 0.25
47 16 0.25
48 6 0.09
ACGTcount: A:0.81, C:0.09, G:0.06, T:0.04
Consensus pattern (44 bp):
AAAAACAAAAAGAAAAAGCAATAAAAAAAACAAAAAAAAAAAAA
Found at i:6293155 original size:1 final size:1
Alignment explanation
Indices: 6293055--6293147 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
6293045 CCCGAATCTT
* * * * * * * * * ** *
6293055 AAAAACAAAAAAAAAAGATAAAAAATAATAAAAAAATAAAAAAAACAACAAAAAGAAAAAGCAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
6293120 AAAAAAAACAAAACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
6293148 CCCAAAAAGA
Statistics
Matches: 63, Mismatches: 29, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (1 bp):
A
Found at i:6295078 original size:16 final size:18
Alignment explanation
Indices: 6295049--6295090 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
6295039 ATTTATGCAA
6295049 AAAAAT-AATAAAAT-AG
1 AAAAATAAATAAAATAAG
*
6295065 AAAAATAAAT-AAATAAT
1 AAAAATAAATAAAATAAG
6295082 AAAAATAAA
1 AAAAATAAA
6295091 AATACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAAATAAAATAAG
Found at i:6295196 original size:23 final size:23
Alignment explanation
Indices: 6295182--6295230 Score: 62
Period size: 27 Copynumber: 2.0 Consensus size: 23
6295172 ATTATTAAAT
6295182 ATTAAAAAATAAAATAATAAAAG
1 ATTAAAAAATAAAATAATAAAAG
6295205 ATTAATAAATTATAATAATAATAAAA
1 ATTAA-AAA--ATAA-AATAATAAAA
6295231 TTTTTTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.23
24 3 0.14
26 4 0.18
27 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
ATTAAAAAATAAAATAATAAAAG
Found at i:6313124 original size:55 final size:55
Alignment explanation
Indices: 6313062--6313170 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
6313052 TTTTTCCATG
*
6313062 ATATGATGCATAATGGGATAGA-GGTTTATGTGGATGATTTGATTGTAAAATCCTA
1 ATATGATGCATAAAGGGATA-ATGGTTTATGTGGATGATTTGATTGTAAAATCCTA
6313117 ATATGATGCATAAAGGGATAATGGTTTATGTGGATGATTTGATTGTAAAATCCT
1 ATATGATGCATAAAGGGATAATGGTTTATGTGGATGATTTGATTGTAAAATCCT
6313171 TAAAATGTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 1 0.02
55 51 0.98
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (55 bp):
ATATGATGCATAAAGGGATAATGGTTTATGTGGATGATTTGATTGTAAAATCCTA
Found at i:6316356 original size:17 final size:17
Alignment explanation
Indices: 6316331--6316385 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 17
6316321 TTAAAAAAAA
6316331 GAAAAAAATGAATGAAT
1 GAAAAAAATGAATGAAT
6316348 GACAAAAATAAATG-ATGAAT
1 G---AAAA-AAATGAATGAAT
6316368 GAAAACAAATGAATGAAT
1 GAAAA-AAATGAATGAAT
6316386 TGGAATGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
17 10 0.31
18 6 0.19
20 11 0.34
21 5 0.16
ACGTcount: A:0.62, C:0.04, G:0.16, T:0.18
Consensus pattern (17 bp):
GAAAAAAATGAATGAAT
Found at i:6316365 original size:16 final size:17
Alignment explanation
Indices: 6316334--6316383 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6316324 AAAAAAAGAA
*
6316334 AAAAATGAATGAATGAC
1 AAAAATAAATGAATGAC
6316351 AAAAATAAATG-ATGA-
1 AAAAATAAATGAATGAC
*
6316366 ATGAAAACAAATGAATGA
1 A--AAAATAAATGAATGA
6316384 ATTGGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 1 0.04
16 4 0.14
17 19 0.68
18 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.16, T:0.18
Consensus pattern (17 bp):
AAAAATAAATGAATGAC
Found at i:6317051 original size:25 final size:27
Alignment explanation
Indices: 6317004--6317065 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
6316994 TGTAACCCAA
* *
6317004 TTTTTCAAAATGAGACTTGTCAAAA-C
1 TTTTCCAAAATAAGACTTGTCAAAACC
6317030 TTTTCCAAAATAAGACTT-TCAAAACC
1 TTTTCCAAAATAAGACTTGTCAAAACC
6317056 TTTTGCCAAA
1 TTTT-CCAAA
6317066 GAGATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 6 0.19
26 21 0.66
27 5 0.16
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTTCCAAAATAAGACTTGTCAAAACC
Found at i:6317175 original size:48 final size:47
Alignment explanation
Indices: 6317072--6317211 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 47
6317062 CAAAGAGATT
* * * *
6317072 TTTTAAAGTTTGTTACTTATCTTCATAAGAGCCTTTTTCAAAATAAGA
1 TTTTAAAGTTTGTTGCCTATCTTCAT-AGAGCCCTTTTCAAAATAAAA
*
6317120 TTATTAAAATTTGTTGCCTATCTTCATAGAGCCCTTTTCAAAATGAAAA
1 TT-TTAAAGTTTGTTGCCTATCTTCATAGAGCCCTTTTCAAAAT-AAAA
** **
6317169 TTTTAAAGTTCATTGCCTATCTTCATAGAAGTACTTTTCAAAA
1 TTTTAAAGTTTGTTGCCTATCTTCATAG-AGCCCTTTTCAAAA
6317212 GGAGATTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 41 0.52
49 38 0.48
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (47 bp):
TTTTAAAGTTTGTTGCCTATCTTCATAGAGCCCTTTTCAAAATAAAA
Found at i:6317220 original size:48 final size:48
Alignment explanation
Indices: 6317063--6317373 Score: 208
Period size: 49 Copynumber: 6.4 Consensus size: 48
6317053 ACCTTTTGCC
** * *
6317063 AAAG-AGATTTTTTAAAGTTTGTTACTTATCTTCATAAGAGC-CTTTTTCA
1 AAAGAAGA-TTTTTAAAGTTCATTGCCTATCTTCAT-AGAGCAC-TTTTCA
* * * ** *
6317112 AAATAAGATTATTAAAATTTGTTGCCTATCTTCATAGAGCCCTTTTCA
1 AAAGAAGATTTTTAAAGTTCATTGCCTATCTTCATAGAGCACTTTTCA
* *
6317160 AAATGAA-AATTTTAAAGTTCATTGCCTATCTTCATAGAAGTACTTTTCA
1 AAA-GAAGATTTTTAAAGTTCATTGCCTATCTTCATAG-AGCACTTTTCA
* * *
6317209 AAAGGAGATTTTTAAAG-TCACTAGCCTATGTTCATAGGAGCACTTTTCA
1 AAAGAAGATTTTTAAAGTTCA-TTGCCTATCTTCATA-GAGCACTTTTCA
* * * * * *
6317258 AAAGGAGATTTTTAAAG-TCACTTG-CTAATGTTTATAGGAACAATATTC-
1 AAAGAAGATTTTTAAAGTTCA-TTGCCT-ATCTTCATA-GAGCACTTTTCA
* * * *
6317306 AAAGAGAGATTTTTAAAG-TCACTTGCTTATGTTTATAAAAGCACTTTTCA
1 AAAGA-AGATTTTTAAAGTTCA-TTGCCTATCTTCAT-AGAGCACTTTTCA
6317356 AATA-AAGATTTTTAAAGT
1 AA-AGAAGATTTTTAAAGT
6317374 CACTTACCTG
Statistics
Matches: 219, Mismatches: 29, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
48 50 0.23
49 159 0.73
50 9 0.04
51 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (48 bp):
AAAGAAGATTTTTAAAGTTCATTGCCTATCTTCATAGAGCACTTTTCA
Found at i:6317276 original size:49 final size:49
Alignment explanation
Indices: 6317133--6317378 Score: 259
Period size: 49 Copynumber: 5.0 Consensus size: 49
6317123 TTAAAATTTG
* * * * *
6317133 TTGCCTATCTTCATA-GAGCCCTTTTCAAAATGAAAATTTTAAAGTTCA-
1 TTGCCTATGTTCATAGGAGCACTTTTCAAAAGGAGATTTTTAAAG-TCAC
* * *
6317181 TTGCCTATCTTCATAGAAGTACTTTTCAAAAGGAGATTTTTAAAGTCAC
1 TTGCCTATGTTCATAGGAGCACTTTTCAAAAGGAGATTTTTAAAGTCAC
*
6317230 TAGCCTATGTTCATAGGAGCACTTTTCAAAAGGAGATTTTTAAAGTCAC
1 TTGCCTATGTTCATAGGAGCACTTTTCAAAAGGAGATTTTTAAAGTCAC
* * * *
6317279 TTG-CTAATGTTTATAGGAACAATATTC-AAAGAGAGATTTTTAAAGTCAC
1 TTGCCT-ATGTTCATAGGAGCACTTTTCAAAAG-GAGATTTTTAAAGTCAC
* * ** *
6317328 TTGCTTATGTTTATAAAAGCACTTTTCAAATA-AAGATTTTTAAAGTCAC
1 TTGCCTATGTTCATAGGAGCACTTTTCAAA-AGGAGATTTTTAAAGTCAC
6317377 TT
1 TT
6317379 ACCTGCGATT
Statistics
Matches: 169, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
48 24 0.14
49 141 0.83
50 3 0.02
51 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (49 bp):
TTGCCTATGTTCATAGGAGCACTTTTCAAAAGGAGATTTTTAAAGTCAC
Found at i:6317391 original size:49 final size:49
Alignment explanation
Indices: 6317201--6317398 Score: 129
Period size: 49 Copynumber: 4.0 Consensus size: 49
6317191 TCATAGAAGT
* * **
6317201 ACTTTTCAAA-AGGAGATTTTTAAAGTCAC-TAGCCTATG-TTCATAGGAGC
1 ACTTTTCAAAGA-AAGATTTTTAAAGTCACTTA-CCTACGATT-ATAAAAGC
* * * * *
6317250 ACTTTTCAAA-AGGAGATTTTTAAAGTCACTT-GCTAATGTTTATAGGAA-C
1 ACTTTTCAAAGA-AAGATTTTTAAAGTCACTTACCT-ACGATTATA-AAAGC
* * * * * * *
6317299 AATATTCAAAGAGAGATTTTTAAAGTCACTTGCTTATGTTTATAAAAGC
1 ACTTTTCAAAGAAAGATTTTTAAAGTCACTTACCTACGATTATAAAAGC
* * *
6317348 ACTTTTCAAATAAAGATTTTTAAAGTCACTTACCTGCGATTATAGAAGC
1 ACTTTTCAAAGAAAGATTTTTAAAGTCACTTACCTACGATTATAAAAGC
6317397 AC
1 AC
6317399 CATTTCCTAA
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
48 4 0.03
49 114 0.91
50 7 0.06
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (49 bp):
ACTTTTCAAAGAAAGATTTTTAAAGTCACTTACCTACGATTATAAAAGC
Found at i:6319349 original size:73 final size:73
Alignment explanation
Indices: 6319260--6319408 Score: 244
Period size: 73 Copynumber: 2.0 Consensus size: 73
6319250 TACATGATTA
**
6319260 GAATGATATCGCAGTTGGATTATATGGATGTTTTATACATATTTTGCTTGAATGAAATGGTGATT
1 GAATGATATCAAAGTTGGATTATATGGATGTTTTATACATATTTTGCTTGAATGAAATGGTGATT
6319325 ATGTGATG
66 ATGTGATG
* * * *
6319333 GAATGATATCAAAGTTGGATTATATGGGTGTTTTATACATATTTTTCTTGAATGTAGTGGTGATT
1 GAATGATATCAAAGTTGGATTATATGGATGTTTTATACATATTTTGCTTGAATGAAATGGTGATT
6319398 ATGTGATG
66 ATGTGATG
6319406 GAA
1 GAA
6319409 ATGCCATGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.42
Consensus pattern (73 bp):
GAATGATATCAAAGTTGGATTATATGGATGTTTTATACATATTTTGCTTGAATGAAATGGTGATT
ATGTGATG
Found at i:6320951 original size:26 final size:26
Alignment explanation
Indices: 6320919--6320968 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6320909 AAAATATTAA
*
6320919 AAATTATTTATTATTAAAGTATATTG
1 AAATTATTTATTATCAAAGTATATTG
*
6320945 AAATTATTTATTATCAAATTATAT
1 AAATTATTTATTATCAAAGTATAT
6320969 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
AAATTATTTATTATCAAAGTATATTG
Found at i:6320983 original size:17 final size:17
Alignment explanation
Indices: 6320961--6321016 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
6320951 TTTATTATCA
6320961 AATTATATATTAAAAAT
1 AATTATATATTAAAAAT
* *
6320978 AATTATATTTTAATAAT
1 AATTATATATTAAAAAT
*
6320995 ATTTA-ATATT-AAAAT
1 AATTATATATTAAAAAT
6321010 -ATTATAT
1 AATTATAT
6321017 TAATATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 3 0.09
15 6 0.19
16 4 0.12
17 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTATATATTAAAAAT
Done.