Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 27 of 131
Found at i:6401012 original size:86 final size:86
Alignment explanation
Indices: 6400867--6401024 Score: 253
Period size: 86 Copynumber: 1.8 Consensus size: 86
6400857 TTTGGCTTAG
** * *
6400867 TCCAAGTTATGCATTTCAGTCTTCGATTCAATCCAGGTCATTTTGTTTTTGGATTTTAGCCTATG
1 TCCAAGTTATGCATTTCAAACTTCGATTCAATCCAAGTCATTTTGTTTTTAGATTTTAGCCTATG
6400932 CCAGATCCTTGTTTGATTCAA
66 CCAGATCCTTGTTTGATTCAA
* * *
6400953 TCCAAGTTATTCATTTCAAACTTCGGTTCCATCCAAGTCATTTTGTTTTTAGATTTTAGCCTATG
1 TCCAAGTTATGCATTTCAAACTTCGATTCAATCCAAGTCATTTTGTTTTTAGATTTTAGCCTATG
6401018 CCAGATC
66 CCAGATC
6401025 TTTCTTCAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (86 bp):
TCCAAGTTATGCATTTCAAACTTCGATTCAATCCAAGTCATTTTGTTTTTAGATTTTAGCCTATG
CCAGATCCTTGTTTGATTCAA
Found at i:6403090 original size:57 final size:57
Alignment explanation
Indices: 6403017--6403294 Score: 261
Period size: 57 Copynumber: 4.9 Consensus size: 57
6403007 TTTAAAAAAA
* *
6403017 TAAAAA-AAAAA--TTAAAAAGCATTTTAAGGAAAAGTTAAAAGTATCAATTTTCTT
1 TAAAAATAAAAATTTTAAAAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTTCTT
*
6403071 TAAAAATAAAAATTTTAAAAAACATTTTAAGGAAGAGTTGAAAGTATCAATTTT-TCT
1 TAAAAATAAAAATTTTAAAAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTTCT-T
* * * *
6403128 TAAAAATAAAAATTTCAAAAAACGTTTTAA-G---TGTTGAAAGTATTAATATTTC-T
1 TAAAAATAAAAATTTTAAAAAACATTTTAAGGAAAAGTTGAAAGTATCAAT-TTTCTT
* * * * * * * *
6403181 TGAAAATAAAAATTTCAAAAGATATTTTTGAGAAAAAGTTGATAGTATCAATTTTCCT
1 TAAAAATAAAAATTTTAAAAAACA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTCTT
* * * *
6403239 TGAAAAT-AAAATTTTCAAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 TAAAAATAAAAATTTT-AAAAAACA--TTTTAAGGAAAAGTTGAAAGTATCAATTTT
6403295 TCTTGAATAA
Statistics
Matches: 191, Mismatches: 19, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
53 35 0.18
54 14 0.07
55 5 0.03
56 2 0.01
57 77 0.40
58 28 0.15
59 30 0.16
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (57 bp):
TAAAAATAAAAATTTTAAAAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTTCTT
Found at i:6403235 original size:111 final size:110
Alignment explanation
Indices: 6403054--6403260 Score: 281
Period size: 111 Copynumber: 1.9 Consensus size: 110
6403044 GGAAAAGTTA
* * *
6403054 AAAGTATCAATTTTCTTTAAAAATAAAAATTTTAAAAAACATTTTAAGGAAGAGTTGAAAGTATC
1 AAAGTATCAATTTTCTTTAAAAATAAAAATTTCAAAAAACATTTTAAGAAAAAGTTGAAAGTATC
*
6403119 AATTTTTCTTAAAAATAAAAATTTCAAAAAACGTTTTAAGTGTTG
66 AATTTTCCTTAAAAATAAAAATTTCAAAAAACGTTTTAAGTGTTG
* * * * * *
6403164 AAAGTATTAATATTTC-TTGAAAATAAAAATTTCAAAAGATATTTTTGAGAAAAAGTTGATAGTA
1 AAAGTATCAAT-TTTCTTTAAAAATAAAAATTTCAAAAAACA-TTTTAAGAAAAAGTTGAAAGTA
* *
6403228 TCAATTTTCCTTGAAAATAAAATTTTCAAAAAA
64 TCAATTTTCCTTAAAAATAAAAATTTCAAAAAA
6403261 TATTTTTTGA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
110 31 0.37
111 52 0.63
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (110 bp):
AAAGTATCAATTTTCTTTAAAAATAAAAATTTCAAAAAACATTTTAAGAAAAAGTTGAAAGTATC
AATTTTCCTTAAAAATAAAAATTTCAAAAAACGTTTTAAGTGTTG
Found at i:6403244 original size:58 final size:59
Alignment explanation
Indices: 6403046--6403301 Score: 262
Period size: 57 Copynumber: 4.5 Consensus size: 59
6403036 CATTTTAAGG
* * * * * * *
6403046 AAAAGTTAAAAGTATCAATTTTCTTTAAAAATAAAAATTT-TAAAAA-ACATTTTAAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCAAAAAATACTTTTTGAGA
* * * *
6403103 AAGAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTC-AAAAA-ACGTTTT----
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCAAAAAATACTTTTTGAGA
** * *
6403156 AAGTGTTGAAAGTATTAATATTT-CTTGAAAATAAAAATTTCAAAAGATA-TTTTTGAGA
1 AAAAGTTGAAAGTATCAAT-TTTCCTTGAAAATAAAAATTTCAAAAAATACTTTTTGAGA
* * *
6403214 AAAAGTTGATAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAATATTTTTTGAGA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCAAAAAATACTTTTTGAGA
*
6403273 AAAAGTTGAAAGTATCAATTTTTCTTGAA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAA
6403302 TAAAGGTATT
Statistics
Matches: 171, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
53 34 0.20
54 11 0.06
55 1 0.01
57 50 0.29
58 39 0.23
59 36 0.21
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (59 bp):
AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCAAAAAATACTTTTTGAGA
Found at i:6411993 original size:9 final size:9
Alignment explanation
Indices: 6411979--6412010 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
6411969 AAGAAATGAG
6411979 AAAAAATTA
1 AAAAAATTA
6411988 AAAAAATT-
1 AAAAAATTA
6411996 AAAAAATTA
1 AAAAAATTA
6412005 AAAAAA
1 AAAAAA
6412011 AAGATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAATTA
Found at i:6412011 original size:21 final size:21
Alignment explanation
Indices: 6411987--6412031 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6411977 AGAAAAAATT
*
6411987 AAAAAAATTAAAAAATTAAAA
1 AAAAAAATTAAAAAAATAAAA
* *
6412008 AAAAAGATTAAAAAAATAGAA
1 AAAAAAATTAAAAAAATAAAA
6412029 AAA
1 AAA
6412032 CCTAGATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAAATTAAAAAAATAAAA
Found at i:6412021 original size:9 final size:8
Alignment explanation
Indices: 6411979--6412009 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
6411969 AAGAAATGAG
6411979 AAAAAATT
1 AAAAAATT
6411987 AAAAAAATT
1 -AAAAAATT
6411996 AAAAAATT
1 AAAAAATT
6412004 AAAAAA
1 AAAAAA
6412010 AAAGATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAAAATT
Found at i:6412638 original size:21 final size:21
Alignment explanation
Indices: 6412601--6412640 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6412591 TAAGGATAAT
*
6412601 AAAAAATAAAAGGGAAAAATG
1 AAAAAATAAAAGAGAAAAATG
6412622 AAAAAA-AAAAGAAGAAAAA
1 AAAAAATAAAAG-AGAAAAA
6412641 ATTAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (21 bp):
AAAAAATAAAAGAGAAAAATG
Found at i:6413437 original size:51 final size:51
Alignment explanation
Indices: 6413290--6413521 Score: 204
Period size: 51 Copynumber: 4.5 Consensus size: 51
6413280 AATTCCCAAG
* * *
6413290 ATGAGATTTTTAAAATTGTCAA-ACTTTTGTTTAAAGGAGCCTTTTGCAAT
1 ATGAGATTTTTAAAGTTGTCAAGACTTTTGTTTAAATGAGCCTTTTTCAAT
* * *
6413340 ATAATATTTTTAAAGTTGTCAAGACTTTTATTTAAATGAGCCTTTTTCAAT
1 ATGAGATTTTTAAAGTTGTCAAGACTTTTGTTTAAATGAGCCTTTTTCAAT
* * ** *
6413391 ATGAGATTTTTAAAGTTATCAAGTC-TTTGTTTAAATGAGTTTTTTTTTTCCAAG
1 ATGAGATTTTTAAAGTTGTCAAGACTTTTGTTTAAATGAG---CCTTTTT-CAAT
* * * * * *
6413445 ATGAGATATTTAAAGTTGTCAAGTC-TTTGCTTAAGTAAG-CTTTTTCAAA
1 ATGAGATTTTTAAAGTTGTCAAGACTTTTGTTTAAATGAGCCTTTTTCAAT
* * *
6413494 AT-AAACTTTTTAAAGTTATAAAGACTTT
1 ATGAGA-TTTTTAAAGTTGTCAAGACTTT
6413522 GGTGAGAGGA
Statistics
Matches: 149, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 2 0.01
49 20 0.13
50 39 0.26
51 46 0.31
53 5 0.03
54 37 0.25
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (51 bp):
ATGAGATTTTTAAAGTTGTCAAGACTTTTGTTTAAATGAGCCTTTTTCAAT
Found at i:6413489 original size:54 final size:53
Alignment explanation
Indices: 6413382--6413489 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
6413372 TAAATGAGCC
* * * * *
6413382 TTTTTCAATATGAGATTTTTAAAGTTATCAAGTCTTTGTTTAAATGAGTTTTT
1 TTTTTCAAGATGAGATATTTAAAGTTATCAAGTCTTTGCTTAAATAAGCTTTT
* *
6413435 TTTTTCCAAGATGAGATATTTAAAGTTGTCAAGTCTTTGCTTAAGTAAGCTTTT
1 TTTTT-CAAGATGAGATATTTAAAGTTATCAAGTCTTTGCTTAAATAAGCTTTT
6413489 T
1 T
6413490 CAAAATAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 5 0.11
54 42 0.89
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (53 bp):
TTTTTCAAGATGAGATATTTAAAGTTATCAAGTCTTTGCTTAAATAAGCTTTT
Found at i:6413537 original size:103 final size:105
Alignment explanation
Indices: 6413348--6413542 Score: 225
Period size: 103 Copynumber: 1.9 Consensus size: 105
6413338 ATATAATATT
* * * * *
6413348 TTTAAAGTTGTCAAGACTTTTATTTAAATGAGCCTTTTTCAATATGAGATTTTTAAAGTTATCAA
1 TTTAAAGTTGTCAAGACTTTTACTTAAATAAGCCTTTTTCAAAATGAAATTTTTAAAGTTATAAA
* * * * * *
6413413 GTCTTTGTTTAAATGAGTTTTTTTTTTCCAAGATGAGATA
66 GACTTTGGTGAAAGGAATTTTTATTTTCCAAGATGAGATA
* * *
6413453 TTTAAAGTTGTCAAGTC-TTTGCTTAAGTAAG-CTTTTTCAAAAT-AAACTTTTTAAAGTTATAA
1 TTTAAAGTTGTCAAGACTTTTACTTAAATAAGCCTTTTTCAAAATGAAA-TTTTTAAAGTTATAA
*
6413515 AGACTTTGGTGAGAGGAATTTTTATTTT
65 AGACTTTGGTGAAAGGAATTTTTATTTT
6413543 GATTTATTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
102 2 0.03
103 46 0.62
104 10 0.14
105 16 0.22
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (105 bp):
TTTAAAGTTGTCAAGACTTTTACTTAAATAAGCCTTTTTCAAAATGAAATTTTTAAAGTTATAAA
GACTTTGGTGAAAGGAATTTTTATTTTCCAAGATGAGATA
Found at i:6413553 original size:49 final size:49
Alignment explanation
Indices: 6413500--6413606 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 49
6413490 CAAAATAAAC
* * **
6413500 TTTTTAAAGTTATAAAGACTTTGGTGAGAGGAATTTTTATTTTGATTTA
1 TTTTTAAAGTTATAAAGACTCTGGTGAGAGGAATTTTCATTTCAATTTA
* * *
6413549 TTTTTAAAGTTATAGAGCCTCTGGTGGGAGGAATTTTCATTTCAATTTA
1 TTTTTAAAGTTATAAAGACTCTGGTGAGAGGAATTTTCATTTCAATTTA
*
6413598 TTTATAAAG
1 TTTTTAAAG
6413607 CCTCTGATGA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (49 bp):
TTTTTAAAGTTATAAAGACTCTGGTGAGAGGAATTTTCATTTCAATTTA
Found at i:6413689 original size:41 final size:41
Alignment explanation
Indices: 6413576--6413689 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 41
6413566 CCTCTGGTGG
* *
6413576 GAGGAATTTTCATTTCAATTTATTTATAAAGCCTCTGATGAA
1 GAGGAGTTTTCATTTTAATTTATTT-TAAAGCCTCTGATGAA
*
6413618 -AGGAGTTTTCA-TTT-ATTTCAAGTTGTAAAGCCTCT-A-GTAA
1 GAGGAGTTTTCATTTTAATTT--A-TTTTAAAGCCTCTGATG-AA
6413658 GAGGAGTTTTCATTTTAATTTATTTTCAAAGC
1 GAGGAGTTTTCATTTTAATTTATTTT-AAAGC
6413690 TGTGGAACCT
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
39 5 0.08
40 8 0.13
41 38 0.63
42 5 0.08
43 4 0.07
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (41 bp):
GAGGAGTTTTCATTTTAATTTATTTTAAAGCCTCTGATGAA
Found at i:6415433 original size:16 final size:19
Alignment explanation
Indices: 6415412--6415455 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 19
6415402 AGCTAAAAGG
6415412 AAAAAGAAT-AA-GAA-GA
1 AAAAAGAATGAATGAATGA
6415428 AAAAAGAATGAATGAATGA
1 AAAAAGAATGAATGAATGA
6415447 ATAAAAGAA
1 A-AAAAGAA
6415456 AGGTGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 3 0.12
19 3 0.12
20 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAAAGAATGAATGAATGA
Found at i:6421715 original size:12 final size:12
Alignment explanation
Indices: 6421698--6421744 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
6421688 TCCACTGAAA
6421698 AAATTAAAAATT
1 AAATTAAAAATT
6421710 AAATT-AAAATT
1 AAATTAAAAATT
* *
6421721 AAAATTAAAACTAA
1 -AAATTAAAAAT-T
6421735 AAATTAAAAA
1 AAATTAAAAA
6421745 ATCTCAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.21
12 10 0.34
13 13 0.45
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATTAAAAATT
Found at i:6421760 original size:7 final size:6
Alignment explanation
Indices: 6421697--6421743 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
6421687 ATCCACTGAA
*
6421697 AAAATT AAAAATT -AAATT AAAATT AAAATT AAAACTA AAAATT AAAA
1 AAAATT -AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAATT AAAA
6421744 AATCTCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 5 0.14
6 20 0.56
7 11 0.31
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:6421901 original size:12 final size:13
Alignment explanation
Indices: 6421864--6421901 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
6421854 TGGAAGGGGA
6421864 AGAGAGAGGAGGG
1 AGAGAGAGGAGGG
6421877 A-AGAGAGGAGGG
1 AGAGAGAGGAGGG
*
6421889 AGAGGGAGG-GGG
1 AGAGAGAGGAGGG
6421901 A
1 A
6421902 CCGACTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (13 bp):
AGAGAGAGGAGGG
Found at i:6426275 original size:23 final size:23
Alignment explanation
Indices: 6426231--6426286 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
6426221 TTTATTAAAA
* **
6426231 TTTTAAATCATATTATTTTATTT
1 TTTTAAATCATATCATAATATTT
*
6426254 TTTTATATCATATCATAATATTAT
1 TTTTAAATCATATCATAATATT-T
6426278 ATTTTAAAT
1 -TTTTAAAT
6426287 TATCAAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.69
24 1 0.04
25 7 0.27
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTAAATCATATCATAATATTT
Found at i:6428434 original size:24 final size:24
Alignment explanation
Indices: 6428394--6428442 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6428384 AAAACTTTTT
* *
6428394 TTAATTATATTTTTAATTATTAATA
1 TTAATTATATTTATAATCA-TAATA
6428419 TTAATT-TATTTATAATCATAATA
1 TTAATTATATTTATAATCATAATA
6428442 T
1 T
6428443 GAAATGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATTATATTTATAATCATAATA
Found at i:6430010 original size:62 final size:63
Alignment explanation
Indices: 6429808--6430076 Score: 221
Period size: 65 Copynumber: 4.3 Consensus size: 63
6429798 TATTGAAAAC
* * ** * * *
6429808 ATTTTTGACCAAAAATGCCTTCAATAATCTCTT-CAAATA-TTTTCAACGGATTATTGAAGGT
1 ATTTTTGACCAAAAATACCTTCAATAATCTCTTCCAAAAATTTTTGTATGAATTATTGAATGT
* *
6429869 GTTTTTGACCAAAAAAACCTTCAATAATC-C-TCTCAGTAAAATTTTTTGTAT-ACATTATTGAA
1 ATTTTTGACCAAAAATACCTTCAATAATCTCTTC-CA--AAAA-TTTTTGTATGA-ATTATTGAA
6429931 TGT
61 TGT
* * *
6429934 ATTTTTGGA-TAAAAATACCTTTAATAATCTCTTCCAAAAATTTTTGTATGAATTA-CGAATGT
1 ATTTTT-GACCAAAAATACCTTCAATAATCTCTTCCAAAAATTTTTGTATGAATTATTGAATGT
* * * ** * *
6429996 ATTTTTGACCAAAAATACATTCAATATTCTCTCTCCAAAATTTTTTAAACGGATTATTGAA-GAT
1 ATTTTTGACCAAAAATACCTTCAATAATCTCT-TCCAAAAATTTTTGTATGAATTATTGAATG-T
**
6430060 ATTTTTGATAAAAAATA
1 ATTTTTGACCAAAAATA
6430077 TTTTTAATAA
Statistics
Matches: 167, Mismatches: 26, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 30 0.18
62 31 0.19
63 35 0.21
64 24 0.14
65 38 0.23
66 5 0.03
67 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (63 bp):
ATTTTTGACCAAAAATACCTTCAATAATCTCTTCCAAAAATTTTTGTATGAATTATTGAATGT
Found at i:6430075 original size:64 final size:62
Alignment explanation
Indices: 6429808--6430076 Score: 203
Period size: 62 Copynumber: 4.3 Consensus size: 62
6429798 TATTGAAAAC
* * * *
6429808 ATTTTTGACCAAAAATGCCTTCAATAATCTCTT-C-AAATATTTTCAACGGATTATTGAAGGT
1 ATTTTTGACAAAAAATACCTTCAATAATCTCTTCCAAAATTTTTTAAACGGATTATTGAA-GT
* * *
6429869 GTTTTTGACCAAAAAA-ACCTTCAATAATC-CTCTCAGTAAAATTTTTTGTATAC--ATTATTGA
1 ATTTTTGA-CAAAAAATACCTTCAATAATCTCT-TC--CAAAA-TTTTT-TAAACGGATTATTGA
6429930 ATGT
60 A-GT
* * * ** * * *
6429934 ATTTTTGGA-TAAAAATACCTTTAATAATCTCTTCCAAAAATTTTTGTATGAATTA-CGAATGT
1 ATTTTT-GACAAAAAATACCTTCAATAATCTCTTCCAAAATTTTTTAAACGGATTATTGAA-GT
* * *
6429996 ATTTTTGACCAAAAATACATTCAATATTCTCTCTCCAAAATTTTTTAAACGGATTATTGAAGAT
1 ATTTTTGACAAAAAATACCTTCAATAATCTCT-TCCAAAATTTTTTAAACGGATTATTGAAG-T
*
6430060 ATTTTTGATAAAAAATA
1 ATTTTTGACAAAAAATA
6430077 TTTTTAATAA
Statistics
Matches: 163, Mismatches: 28, Indels: 31
0.73 0.13 0.14
Matches are distributed among these distances:
60 2 0.01
61 25 0.15
62 41 0.25
63 27 0.17
64 24 0.15
65 33 0.20
66 8 0.05
67 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (62 bp):
ATTTTTGACAAAAAATACCTTCAATAATCTCTTCCAAAATTTTTTAAACGGATTATTGAAGT
Found at i:6431015 original size:111 final size:111
Alignment explanation
Indices: 6430816--6431038 Score: 304
Period size: 111 Copynumber: 2.0 Consensus size: 111
6430806 AAATCCAGCA
* * *
6430816 AGGATTCATTTTTGATACACTAATATACAAACCCACACAATGCTACGAGCTGTTAAAATAAAGGA
1 AGGACTCATTTTTGATACACTAATATACAAACCCACACAATGCTACAAGCTGTTAAAATAAAAGA
* * *
6430881 AAAAGGTTCTTTTTGTTCCAAACTTACCTGCATATAACAACATTCC
66 AAAAGGTTCTTTTTCTTCCAAACTTACCCGCATATAACAAAATTCC
* ** * * *
6430927 AGGACTCATTTTTGATACATTAATATGTAGATCCACACAATGCTACAAGCTGTTGAAATAAAAGA
1 AGGACTCATTTTTGATACACTAATATACAAACCCACACAATGCTACAAGCTGTTAAAATAAAAGA
* *
6430992 AAAAGGTT-TTTTCTCTTTCAAACTTACCCGTATATAACAAAATTCC
66 AAAAGGTTCTTTT-TCTTCCAAACTTACCCGCATATAACAAAATTCC
6431038 A
1 A
6431039 AAGCATTATA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 4 0.04
111 93 0.96
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (111 bp):
AGGACTCATTTTTGATACACTAATATACAAACCCACACAATGCTACAAGCTGTTAAAATAAAAGA
AAAAGGTTCTTTTTCTTCCAAACTTACCCGCATATAACAAAATTCC
Found at i:6436599 original size:15 final size:15
Alignment explanation
Indices: 6436581--6436614 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6436571 AATTGATGCA
**
6436581 TTTAAAATTTTATTT
1 TTTAAAATAATATTT
6436596 TTTAAAATAATATTT
1 TTTAAAATAATATTT
6436611 TTTA
1 TTTA
6436615 CAAAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAATAATATTT
Found at i:6437893 original size:52 final size:52
Alignment explanation
Indices: 6437807--6437913 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
6437797 CTTGTCTAAT
*
6437807 TTGCAACCAATGAATAGTTACTCCCATGGTAGGTTATAAACAATGT-ATATTA
1 TTGCAACCAATGAATAGTTACTACCATGGTAGGTTATAAACAATGTGA-ATTA
6437859 TTGCAACCAATGAATAGTTACTACCATTGG-AGGTTATAAACAATGTGAATTA
1 TTGCAACCAATGAATAGTTACTACCA-TGGTAGGTTATAAACAATGTGAATTA
6437911 TTG
1 TTG
6437914 AATATATATA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
52 48 0.92
53 4 0.08
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (52 bp):
TTGCAACCAATGAATAGTTACTACCATGGTAGGTTATAAACAATGTGAATTA
Found at i:6440142 original size:22 final size:24
Alignment explanation
Indices: 6440099--6440151 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
6440089 TTTCATCATC
*
6440099 AAATTTAATTTATTCTTATTTC-A
1 AAATTTAATTTATTATTATTTCTA
*
6440122 AAATTTAATTT-TTATTGTTTCTA
1 AAATTTAATTTATTATTATTTCTA
6440145 AAATTTA
1 AAATTTA
6440152 TCATTTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
AAATTTAATTTATTATTATTTCTA
Found at i:6443161 original size:20 final size:19
Alignment explanation
Indices: 6443132--6443181 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
6443122 CAAGATGATA
*
6443132 AAAATTAAAATGAATAAAAT
1 AAAATAAAAATGAAT-AAAT
* *
6443152 AAAATAAAAAAGGATAAAT
1 AAAATAAAAATGAATAAAT
*
6443171 AAGATAAAAAT
1 AAAATAAAAAT
6443182 ATATGTATAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (19 bp):
AAAATAAAAATGAATAAAT
Found at i:6443246 original size:18 final size:18
Alignment explanation
Indices: 6443211--6443244 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6443201 ATACCAGTAA
*
6443211 AAATATAAACTAATAAAT
1 AAATATAAAATAATAAAT
6443229 AAATA-AAAATAATAAA
1 AAATATAAAATAATAAA
6443245 ATTCGTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATATAAAATAATAAAT
Found at i:6445707 original size:21 final size:22
Alignment explanation
Indices: 6445664--6445709 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6445654 CGTGAAAGGA
*
6445664 ATTTGAAATATGGCTATTTTTC
1 ATTTCAAATATGGCTATTTTTC
6445686 ATTTCAAATAT-G-TATATTTTC
1 ATTTCAAATATGGCTAT-TTTTC
6445707 ATT
1 ATT
6445710 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.41
22 10 0.45
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (22 bp):
ATTTCAAATATGGCTATTTTTC
Found at i:6449259 original size:7 final size:7
Alignment explanation
Indices: 6449247--6449277 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6449237 TAATCAAAAA
6449247 AATAATC
1 AATAATC
*
6449254 AATAATT
1 AATAATC
6449261 AATAATC
1 AATAATC
6449268 AATAATC
1 AATAATC
6449275 AAT
1 AAT
6449278 CATTTAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAATC
Found at i:6450011 original size:22 final size:22
Alignment explanation
Indices: 6449959--6450011 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
6449949 TTCATCATTG
*
6449959 AATTTAATTTATTCTTATTTCAA
1 AATTT-ATTTATTATTATTTCAA
*
6449982 ATTCTTATTT-TTATTATTTCTAA
1 AAT-TTATTTATTATTATTTC-AA
6450005 AATTTAT
1 AATTTAT
6450012 CATTTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.52
23 10 0.40
24 2 0.08
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (22 bp):
AATTTATTTATTATTATTTCAA
Found at i:6450698 original size:16 final size:17
Alignment explanation
Indices: 6450677--6450714 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6450667 ATTTTCTAAT
*
6450677 ATAAACAAATAAGT-AA
1 ATAAACAAATAAATAAA
6450693 ATAAACAAATAAATAAA
1 ATAAACAAATAAATAAA
6450710 ATAAA
1 ATAAA
6450715 ATGACATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAACAAATAAATAAA
Found at i:6452181 original size:19 final size:19
Alignment explanation
Indices: 6452157--6452219 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
6452147 AATGAAAACA
6452157 AATATAACTAAAGATAAAT
1 AATATAACTAAAGATAAAT
*
6452176 AATATAA-AAATAGA-AAGGAT
1 AATATAACTAA-AGATAA--AT
6452196 AAATATAACTAAAGATAAAT
1 -AATATAACTAAAGATAAAT
6452216 AATA
1 AATA
6452220 AAAAAATAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
18 4 0.11
19 14 0.39
20 4 0.11
21 10 0.28
22 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (19 bp):
AATATAACTAAAGATAAAT
Found at i:6452200 original size:40 final size:40
Alignment explanation
Indices: 6452156--6452240 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
6452146 AAATGAAAAC
*
6452156 AAATATAACTAAAGATAAATAATATAAAAATAGAAAGGAT
1 AAATATAACTAAAGATAAATAATAAAAAAATAGAAAGGAT
*
6452196 AAATATAACTAAAGATAAATAATAAAAAAATAGAAGGGAT
1 AAATATAACTAAAGATAAATAATAAAAAAATAGAAAGGAT
6452236 AAATA
1 AAATA
6452241 AGATGATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (40 bp):
AAATATAACTAAAGATAAATAATAAAAAAATAGAAAGGAT
Found at i:6452202 original size:21 final size:21
Alignment explanation
Indices: 6452176--6452240 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
6452166 AAAGATAAAT
6452176 AATATAAAAATAGAAAGGATA
1 AATATAAAAATAGAAAGGATA
*
6452197 AATATAACTAA-AGATAA--AT-
1 AATATAA-AAATAGA-AAGGATA
* *
6452216 AATAAAAAAATAGAAGGGATA
1 AATATAAAAATAGAAAGGATA
6452237 AATA
1 AATA
6452241 AGATGATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 4 0.12
21 14 0.41
22 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (21 bp):
AATATAAAAATAGAAAGGATA
Found at i:6452347 original size:23 final size:23
Alignment explanation
Indices: 6452321--6452366 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6452311 AATAAAACAC
*
6452321 AAAAAAAATATAAAGTAA-AAAGT
1 AAAAAAAATA-AAAATAATAAAGT
*
6452344 AAAATAAATAAAAATAATAAAGT
1 AAAAAAAATAAAAATAATAAAGT
6452367 TCGTCAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (23 bp):
AAAAAAAATAAAAATAATAAAGT
Found at i:6454190 original size:76 final size:76
Alignment explanation
Indices: 6454064--6454209 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 76
6454054 ATCTTGAGCT
* * * *
6454064 TATACATGTTGAGAGAGACCAAGGGCTAGCTTTACTATCTCCAAACGTGAGGAAGGTCTTGTGTA
1 TATACATGTTGAGAGAAACCAAAGGCTAGCTTTACTATCTCCAAACGTGAGAAAAGTCTTGTGTA
6454129 GTGGAGCTACC
66 GTGGAGCTACC
* * * *
6454140 TATACATGTTGAGGGAAACCAAAGGCTGGCTTTACTATCTCCAAGCGTGAGAAAAGTCTTGTGTG
1 TATACATGTTGAGAGAAACCAAAGGCTAGCTTTACTATCTCCAAACGTGAGAAAAGTCTTGTGTA
6454205 GTGGA
66 GTGGA
6454210 ACTGCCTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (76 bp):
TATACATGTTGAGAGAAACCAAAGGCTAGCTTTACTATCTCCAAACGTGAGAAAAGTCTTGTGTA
GTGGAGCTACC
Found at i:6456984 original size:21 final size:21
Alignment explanation
Indices: 6456944--6456984 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6456934 AGCTGTAAAA
**
6456944 GGAGAAGGACCAAGTTTTGGT
1 GGAGAAGGACCAAGCCTTGGT
6456965 GGAGAAGGACCAAGCCTTGG
1 GGAGAAGGACCAAGCCTTGG
6456985 CACATACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.39, T:0.17
Consensus pattern (21 bp):
GGAGAAGGACCAAGCCTTGGT
Found at i:6457612 original size:25 final size:25
Alignment explanation
Indices: 6457563--6457612 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
6457553 CCTTTCTTAG
*
6457563 GATTTTTTGTTTTTCTTTGTATTTT
1 GATTTTTTGTTTTTCTTTATATTTT
6457588 GATTTTTT-TTTGTT-TTTATAGTTTT
1 GATTTTTTGTTT-TTCTTTATA-TTTT
6457613 CATGCTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.76
Consensus pattern (25 bp):
GATTTTTTGTTTTTCTTTATATTTT
Found at i:6458524 original size:56 final size:55
Alignment explanation
Indices: 6458462--6458595 Score: 148
Period size: 56 Copynumber: 2.4 Consensus size: 55
6458452 GTGCACTAGC
* *
6458462 CATGTTGGCACAGATCCTTAATGTAAAAAAATATATGGCACT-TAGGATGCATTTGGG
1 CATGTTGGCACAGAGCCTTAATGTAAAAAAATATATGGCA-TGTAGG--GCACTTGGG
* * * *
6458519 -GTGTTGGCA-TGTAGCCTTAACGTAAAGAAATATATGGCATGTAGGGCACTTGGG
1 CATGTTGGCACAG-AGCCTTAATGTAAAAAAATATATGGCATGTAGGGCACTTGGG
*
6458573 CATGTTAGCACAGAGCCTTAATG
1 CATGTTGGCACAGAGCCTTAATG
6458596 CAATAAACAT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
54 8 0.13
55 18 0.29
56 37 0.59
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
CATGTTGGCACAGAGCCTTAATGTAAAAAAATATATGGCATGTAGGGCACTTGGG
Found at i:6459737 original size:9 final size:9
Alignment explanation
Indices: 6459720--6459750 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6459710 ACTTTGGTAA
*
6459720 ACTTTTGAC
1 ACTTATGAC
6459729 ACTTATGAC
1 ACTTATGAC
6459738 ACTTATGAC
1 ACTTATGAC
6459747 ACTT
1 ACTT
6459751 CTTGATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (9 bp):
ACTTATGAC
Found at i:6463053 original size:129 final size:129
Alignment explanation
Indices: 6462823--6463055 Score: 315
Period size: 129 Copynumber: 1.8 Consensus size: 129
6462813 ACTTTGTGCA
* * * ** *
6462823 AGTGAAATTTATGCTTCAAATTGCTATTGGTCCAATCCTCTATTATTCATATGATCATTTGAATT
1 AGTGAAATTTACGCTTCAAATTACTATTGGCCCAATCCTCTATTATTCATACAATCATGTGAATT
* ** *
6462888 ATTTCTTAAATTAGATGTTTGCTAGTAACCCTTTCTTGACGAGCTTCCCTAGTCTGGTAAGATG
66 ATTCCTTAAATTAGACATTTGCTAGCAACCCTTTCTTGACGAGCTTCCCTAGTCTGGTAAGATG
* * *
6462952 AGTGAAATTTACGCTTTAACTTACTATTGGCCCAATCCTCTGTTACTTC-TACAATCATGTGAAT
1 AGTGAAATTTACGCTTCAAATTACTATTGGCCCAATCCTCTATTA-TTCATACAATCATGTGAAT
* *
6463016 TATTCCTTAAATTAGGCATTTGCTAGCAACCTTTTCTTGA
65 TATTCCTTAAATTAGACATTTGCTAGCAACCCTTTCTTGA
6463056 AAAGCTTTCT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
129 85 0.97
130 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (129 bp):
AGTGAAATTTACGCTTCAAATTACTATTGGCCCAATCCTCTATTATTCATACAATCATGTGAATT
ATTCCTTAAATTAGACATTTGCTAGCAACCCTTTCTTGACGAGCTTCCCTAGTCTGGTAAGATG
Found at i:6466946 original size:30 final size:29
Alignment explanation
Indices: 6466878--6466979 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 29
6466868 AATCATTTTT
* *
6466878 ATTTAATTAGATAAAAATATATATTTAAAA
1 ATTTAATTA-ATAAAAATAAATATTTAAGA
*
6466908 ATTTTAATTGAATAAAAATAGATATTTAAGA
1 A-TTTAATT-AATAAAAATAAATATTTAAGA
*
6466939 ATTTAATTAAATAAAAATAAATATTTGAGA
1 ATTTAATT-AATAAAAATAAATATTTAAGA
*
6466969 ATTCAATTAAT
1 ATTTAATTAAT
6466980 TATAACTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 3 0.05
30 34 0.53
31 26 0.41
32 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
ATTTAATTAATAAAAATAAATATTTAAGA
Found at i:6472078 original size:14 final size:15
Alignment explanation
Indices: 6472054--6472092 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
6472044 TGGCGGAAAA
6472054 AAAACAAAAAAAACC
1 AAAACAAAAAAAACC
6472069 AAAA-AAAAAAAA-C
1 AAAACAAAAAAAACC
6472082 AAGAACAAAAA
1 AA-AACAAAAA
6472093 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.85, C:0.13, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAAACC
Found at i:6472091 original size:26 final size:23
Alignment explanation
Indices: 6472050--6472114 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
6472040 TCTCTGGCGG
*
6472050 AAAAAAAACAAAAAAAACCAAAA
1 AAAAAAAACAAAAAAAAACAAAA
*
6472073 AAAAAAAACAAGAACAAAAATAAAA
1 AAAAAAAACAA-AA-AAAAACAAAA
*
6472098 ATAAAAAAACATAAAAA
1 A-AAAAAAACAAAAAAA
6472115 TGATACAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 11 0.31
24 5 0.14
25 11 0.31
26 9 0.25
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.05
Consensus pattern (23 bp):
AAAAAAAACAAAAAAAAACAAAA
Found at i:6474214 original size:29 final size:29
Alignment explanation
Indices: 6474155--6474228 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
6474145 ATTTATTATT
* *
6474155 TTAATAATATTT-TT-GTATATATTCATG
1 TTAATAGTATTTATTCGTATATATTCATA
6474182 TTAATAGTATTTATTCGTATATATTCATA
1 TTAATAGTATTTATTCGTATATATTCATA
* *
6474211 TTAATTGTGTTTATTCGT
1 TTAATAGTATTTATTCGT
6474229 GTCATGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 11 0.27
28 2 0.05
29 28 0.68
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.55
Consensus pattern (29 bp):
TTAATAGTATTTATTCGTATATATTCATA
Found at i:6474772 original size:19 final size:20
Alignment explanation
Indices: 6474748--6474786 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6474738 AAAGTTATTA
*
6474748 TTAAAA-AAATTAAAAAATT
1 TTAAAATAAATAAAAAAATT
*
6474767 TTAAAATTAATAAAAAAATT
1 TTAAAATAAATAAAAAAATT
6474787 AATTTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAAATAAATAAAAAAATT
Found at i:6475592 original size:6 final size:6
Alignment explanation
Indices: 6475575--6475608 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6475565 ATGGCAACTG
* *
6475575 CCTCCG CCTCCA CCTCCA CCTACA CCTCCA CCTC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTC
6475609 TGTACCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.65, G:0.03, T:0.18
Consensus pattern (6 bp):
CCTCCA
Found at i:6481491 original size:2 final size:2
Alignment explanation
Indices: 6481484--6481514 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6481474 AATCTTTCTT
6481484 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6481515 TCTTTTGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6489612 original size:2 final size:2
Alignment explanation
Indices: 6489605--6489634 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6489595 AAACCTGGCT
6489605 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6489635 CACCACAGAA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6503919 original size:15 final size:15
Alignment explanation
Indices: 6503899--6503929 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6503889 GATGATAACA
6503899 TAATTTGATTTCTTC
1 TAATTTGATTTCTTC
6503914 TAATTTGATTTCTTC
1 TAATTTGATTTCTTC
6503929 T
1 T
6503930 CTAATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (15 bp):
TAATTTGATTTCTTC
Found at i:6506595 original size:21 final size:21
Alignment explanation
Indices: 6506571--6506612 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6506561 AGTATGAATA
6506571 AAATTATGCTTGTTGAAAAGT
1 AAATTATGCTTGTTGAAAAGT
6506592 AAATTATGCTTGTTGAAAAGT
1 AAATTATGCTTGTTGAAAAGT
6506613 TTATAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
AAATTATGCTTGTTGAAAAGT
Found at i:6506918 original size:12 final size:12
Alignment explanation
Indices: 6506891--6506944 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
6506881 AGCTCTGGTC
*
6506891 ATAGAGAACATTG
1 ATAGA-AACATCG
6506904 ATAGAAACATCG
1 ATAGAAACATCG
*
6506916 ATAGAAACATTG
1 ATAGAAACATCG
6506928 ATAGAAACATCG
1 ATAGAAACATCG
6506940 ATAGA
1 ATAGA
6506945 GTTTAGAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
12 33 0.87
13 5 0.13
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (12 bp):
ATAGAAACATCG
Found at i:6506925 original size:24 final size:25
Alignment explanation
Indices: 6506891--6506945 Score: 103
Period size: 24 Copynumber: 2.2 Consensus size: 25
6506881 AGCTCTGGTC
6506891 ATAGAGAACATTGATAGAAACATCG
1 ATAGAGAACATTGATAGAAACATCG
6506916 ATAGA-AACATTGATAGAAACATCG
1 ATAGAGAACATTGATAGAAACATCG
6506940 ATAGAG
1 ATAGAG
6506946 TTTAGAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (25 bp):
ATAGAGAACATTGATAGAAACATCG
Found at i:6509419 original size:11 final size:11
Alignment explanation
Indices: 6509403--6509429 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6509393 CTATTCTCTT
6509403 ATTATATGTTG
1 ATTATATGTTG
6509414 ATTATATGTTG
1 ATTATATGTTG
6509425 ATTAT
1 ATTAT
6509430 GGAACAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (11 bp):
ATTATATGTTG
Found at i:6510173 original size:97 final size:97
Alignment explanation
Indices: 6510007--6510199 Score: 269
Period size: 97 Copynumber: 2.0 Consensus size: 97
6509997 GTCTTGGCAG
* * * * * *
6510007 TCTAAGTTATAGAAGTATGTTACTTTGTTAACTATAGAGGTTGAGTATATTACAACAACTAGAGC
1 TCTAAGTTACAAAAGTATGTTACTTTGTCAACTACAGAGGTTGAGTATATTACAACAACCAAAGC
***
6510072 AGGTAAAGAAATGTTTTGGATGAAATATTTTA
66 AGGTAAAGAAATACATTGGATGAAATATTTTA
* * **
6510104 TCTAAGTTACAAAAGTATGTTGCTTTGTCAACTACAGAGGTTGAGTATATTGCAGTAACCAAAGC
1 TCTAAGTTACAAAAGTATGTTACTTTGTCAACTACAGAGGTTGAGTATATTACAACAACCAAAGC
6510169 AGGTAAAGAAATACATTGGATGAAATATTTT
66 AGGTAAAGAAATACATTGGATGAAATATTTT
6510200 CTTCTTGAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (97 bp):
TCTAAGTTACAAAAGTATGTTACTTTGTCAACTACAGAGGTTGAGTATATTACAACAACCAAAGC
AGGTAAAGAAATACATTGGATGAAATATTTTA
Found at i:6515771 original size:14 final size:15
Alignment explanation
Indices: 6515746--6515774 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6515736 AATTAACAGA
6515746 TAAAGAAAAGATAAT
1 TAAAGAAAAGATAAT
6515761 TAAAG-AAAGATAAT
1 TAAAGAAAAGATAAT
6515775 AGAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (15 bp):
TAAAGAAAAGATAAT
Found at i:6516297 original size:32 final size:32
Alignment explanation
Indices: 6516261--6516452 Score: 114
Period size: 32 Copynumber: 5.7 Consensus size: 32
6516251 AAATGTGACA
*
6516261 AGACTAAACTAAGGTCAAAAATGAAAATGATT
1 AGACTAAACCAAGGTCAAAAATGAAAATGATT
* * *
6516293 AGACTGAACCAATGTCAAAAATGAAAATGACTGG
1 AGACTAAACCAAGGTCAAAAATGAAAATGA-T-T
* * *
6516327 ACTGAACCAAATTGCACCAAGGTCAAAGATAAAAATGATT
1 A--G-A-CTAA----ACCAAGGTCAAAAATGAAAATGATT
* ** *
6516367 AGACTGAACCAAGGTTGAAAATGAAAATGATC
1 AGACTAAACCAAGGTCAAAAATGAAAATGATT
* * * * * *
6516399 AGATTGAACTAAAGTAAAAAATGAAAATGAAT
1 AGACTAAACCAAGGTCAAAAATGAAAATGATT
* * *
6516431 GGACTAAACTAAGGTCGAAAAT
1 AGACTAAACCAAGGTCAAAAAT
6516453 AGAATTAATC
Statistics
Matches: 120, Mismatches: 30, Indels: 20
0.71 0.18 0.12
Matches are distributed among these distances:
32 88 0.73
33 1 0.01
34 1 0.01
36 3 0.03
37 2 0.02
38 3 0.03
40 1 0.01
41 1 0.01
42 20 0.17
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (32 bp):
AGACTAAACCAAGGTCAAAAATGAAAATGATT
Found at i:6516356 original size:106 final size:106
Alignment explanation
Indices: 6516237--6516435 Score: 254
Period size: 106 Copynumber: 1.9 Consensus size: 106
6516227 CCAAATTAAC
* * ** * *
6516237 CCAATGTCGAAGATAAATGTGACAAGACTAAACTAAGGTCAAAAATGAAAATGATTAGACTGAAC
1 CCAAGGTCAAAGATAAAAATGACAAGACTAAACCAAGGTCAAAAATGAAAATGATCAGACTGAAC
* * *
6516302 CAATGTCAAAAATGAAAATGACTGGACTGAACCAAATTGCA
66 CAAAGTAAAAAATGAAAATGAATGGACTGAACCAAATTGCA
** * ** *
6516343 CCAAGGTCAAAGATAAAAATGATTAGACTGAACCAAGGTTGAAAATGAAAATGATCAGATTGAAC
1 CCAAGGTCAAAGATAAAAATGACAAGACTAAACCAAGGTCAAAAATGAAAATGATCAGACTGAAC
*
6516408 TAAAGTAAAAAATGAAAATGAATGGACT
66 CAAAGTAAAAAATGAAAATGAATGGACT
6516436 AAACTAAGGT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
106 77 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.20
Consensus pattern (106 bp):
CCAAGGTCAAAGATAAAAATGACAAGACTAAACCAAGGTCAAAAATGAAAATGATCAGACTGAAC
CAAAGTAAAAAATGAAAATGAATGGACTGAACCAAATTGCA
Found at i:6516608 original size:33 final size:33
Alignment explanation
Indices: 6516571--6516694 Score: 92
Period size: 33 Copynumber: 3.7 Consensus size: 33
6516561 ACTAAGATCC
6516571 AAAATAAAAGTGACTAAACTGAACCAAGGTTAA
1 AAAATAAAAGTGACTAAACTGAACCAAGGTTAA
* * * * *
6516604 AAAAT-GAAGTTGACTAGACTGAGCCAAAAGTTAG
1 AAAATAAAAG-TGACTAAACTGAACC-AAGGTTAA
* * * * *
6516638 AAAGTAAAA-TGACCTAGATTGAATCAAGG-TCA
1 AAAATAAAAGTGA-CTAAACTGAACCAAGGTTAA
*
6516670 AAAATAAAAATGACTAGAACTGAAC
1 AAAATAAAAGTGACTA-AACTGAAC
6516695 TTCAAATTAG
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
32 15 0.22
33 32 0.47
34 19 0.28
35 2 0.03
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (33 bp):
AAAATAAAAGTGACTAAACTGAACCAAGGTTAA
Found at i:6517899 original size:15 final size:15
Alignment explanation
Indices: 6517859--6517919 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
6517849 TCGATTTAAG
* *
6517859 TTTTCCTTTTCTCACC
1 TTTTCATTTTCTCA-T
6517875 TTTTCA-TTTCTCAT
1 TTTTCATTTTCTCAT
*
6517889 TTTGTC-TTTTCTTAT
1 TTT-TCATTTTCTCAT
*
6517904 TTTTCATTTTTTCAT
1 TTTTCATTTTCTCAT
6517919 T
1 T
6517920 CTTTTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 5 0.14
15 27 0.73
16 5 0.14
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTCATTTTCTCAT
Found at i:6518253 original size:17 final size:17
Alignment explanation
Indices: 6518233--6518266 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6518223 TTTCTCTATT
*
6518233 TTTCATTTTTCCTTTCA
1 TTTCACTTTTCCTTTCA
6518250 TTTCACTTTTCCTTTCA
1 TTTCACTTTTCCTTTCA
6518267 ATTTTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTCACTTTTCCTTTCA
Found at i:6525976 original size:38 final size:38
Alignment explanation
Indices: 6525917--6526011 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
6525907 TAATACTATG
*
6525917 TAATA-AAGTACATTTTATAATACTTATTCCAAATTTTGC
1 TAATAGAA-TACATTTTGTAATACTTATTCCAAATTTT-C
* * *
6525956 -AATAGAATACATTTTGTAATATTTATTCTAGATTTTC
1 TAATAGAATACATTTTGTAATACTTATTCCAAATTTTC
6525993 TAATAGAATACATTTTGTA
1 TAATAGAATACATTTTGTA
6526012 TTTCATTGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
37 1 0.02
38 47 0.94
39 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.45
Consensus pattern (38 bp):
TAATAGAATACATTTTGTAATACTTATTCCAAATTTTC
Found at i:6529033 original size:12 final size:13
Alignment explanation
Indices: 6529011--6529039 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6529001 ACAGCTTTGT
6529011 TTTTAAAATTATC
1 TTTTAAAATTATC
6529024 TTTT-AAATTATC
1 TTTTAAAATTATC
6529036 TTTT
1 TTTT
6529040 TTACATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAAAATTATC
Found at i:6530017 original size:6 final size:6
Alignment explanation
Indices: 6529916--6530016 Score: 148
Period size: 6 Copynumber: 16.8 Consensus size: 6
6529906 TTCATTTCAT
*
6529916 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAT AATAAC AATAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
* * * * *
6529964 AATAAC AATAAC AATAAC AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
6530012 AATAA
1 AATAA
6530017 TTATTATTAT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 92 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (6 bp):
AATAAC
Found at i:6530025 original size:6 final size:6
Alignment explanation
Indices: 6530016--6530083 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
6530006 AATAATAATA
* *
6530016 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT GTTATT GTTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * *
6530064 GTTATT GTTATT GTTATT AT
1 ATTATT ATTATT ATTATT AT
6530084 CTATACTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.66
Consensus pattern (6 bp):
ATTATT
Found at i:6533180 original size:13 final size:13
Alignment explanation
Indices: 6533162--6533187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6533152 TATTCTCCAA
6533162 GACTAGAATTTCT
1 GACTAGAATTTCT
6533175 GACTAGAATTTCT
1 GACTAGAATTTCT
6533188 TAGTAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GACTAGAATTTCT
Found at i:6537299 original size:1 final size:1
Alignment explanation
Indices: 6537293--6537320 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6537283 AGTTTTGAAG
6537293 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
6537321 AATATTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6541424 original size:4 final size:4
Alignment explanation
Indices: 6541408--6541440 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
6541398 AAGAAACCGA
*
6541408 AAAT AAAT GAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
6541441 TATTTGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6541649 original size:26 final size:25
Alignment explanation
Indices: 6541599--6541655 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
6541589 TCATTTGTAA
*
6541599 ATATAAAATGAATATGTTCACGAAT
1 ATATAAAATGAATATATTCACGAAT
* *
6541624 ATATATAAATGAATATATTTATGAAT
1 ATATA-AAATGAATATATTCACGAAT
6541650 A-ATAAA
1 ATATAAA
6541656 CAAATTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 8 0.29
26 18 0.64
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (25 bp):
ATATAAAATGAATATATTCACGAAT
Found at i:6541686 original size:14 final size:15
Alignment explanation
Indices: 6541650--6541688 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
6541640 ATTTATGAAT
*
6541650 AATAAACAAATTGTA
1 AATAAATAAATTGTA
*
6541665 ACTAAATAAATT-TA
1 AATAAATAAATTGTA
6541679 AATAAATAAA
1 AATAAATAAA
6541689 CTCTAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (15 bp):
AATAAATAAATTGTA
Found at i:6541805 original size:11 final size:11
Alignment explanation
Indices: 6541785--6541818 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6541775 TATTATTATT
6541785 ATAAACAAATA
1 ATAAACAAATA
* *
6541796 GTAAATAAATA
1 ATAAACAAATA
6541807 ATAAACAAATA
1 ATAAACAAATA
6541818 A
1 A
6541819 ATTTTAAACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (11 bp):
ATAAACAAATA
Found at i:6551288 original size:19 final size:19
Alignment explanation
Indices: 6551252--6551288 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6551242 TTGATATTCT
* *
6551252 AAAATACTATACATACTAC
1 AAAATACTAAACACACTAC
6551271 AAAATACTAAACACACTA
1 AAAATACTAAACACACTA
6551289 GGAAGAAGAA
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:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATACTAAACACACTAC
Found at i:6555605 original size:5 final size:5
Alignment explanation
Indices: 6555595--6555665 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
6555585 GTATCTTATT
* *
6555595 TTTTA TTTTA TTTTA -TTTA TTTTA TATTGTGA -GTTA -TTTA TTTTC
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TT-T-A TTTTA TTTTA TTTTA
* *
6555640 TTTTG TTTCA -TTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
6555666 GATTTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
4 11 0.21
5 37 0.70
6 3 0.06
7 1 0.02
8 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:6555615 original size:14 final size:14
Alignment explanation
Indices: 6555596--6555692 Score: 60
Period size: 14 Copynumber: 7.1 Consensus size: 14
6555586 TATCTTATTT
6555596 TTTATTTTATTTTA
1 TTTATTTTATTTTA
*
6555610 TTTATTTTATATT-
1 TTTATTTTATTTTA
* * *
6555623 GTGA-GTTA-TTTA
1 TTTATTTTATTTTA
* * *
6555635 TTTTCTTTTGTTTCA
1 -TTTATTTTATTTTA
6555650 TTTATTTTATTTTA
1 TTTATTTTATTTTA
* *
6555664 TTGATTTT-TATTA
1 TTTATTTTATTTTA
6555677 TTTA-TTTACTTTTA
1 TTTATTTTA-TTTTA
6555691 TT
1 TT
6555693 GAGTAATTTA
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
11 2 0.03
12 6 0.10
13 10 0.17
14 38 0.64
15 3 0.05
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:6555689 original size:27 final size:29
Alignment explanation
Indices: 6555649--6555708 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
6555639 CTTTTGTTTC
*
6555649 ATTTATTTTATTTTATTGA-T-TTTTATT
1 ATTTATTTTATTTTATTGAGTAATTTATT
6555676 ATTTA-TTTACTTTTATTGAGTAATTTATT
1 ATTTATTTTA-TTTTATTGAGTAATTTATT
6555705 ATTT
1 ATTT
6555709 GTTAAATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 4 0.14
27 14 0.48
28 1 0.03
29 10 0.34
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (29 bp):
ATTTATTTTATTTTATTGAGTAATTTATT
Found at i:6559350 original size:56 final size:54
Alignment explanation
Indices: 6559209--6559406 Score: 228
Period size: 56 Copynumber: 3.7 Consensus size: 54
6559199 CTAACAAATG
*
6559209 GAAAAATAAA-AAAAAA--TTGATGGGGCAAAATACCAATGTGCTCCACC-AAAA
1 GAAAAA-AAAGAAAAAATTTTGATGGGGCAAAATACCAATGTGCTTCACCAAAAA
* * * * * *
6559260 -AAGAAAAAG-AAAAATTTTGATAGGGTAAAATGCCAGTGTGCTTCGCCAAAAA
1 GAAAAAAAAGAAAAAATTTTGATGGGGCAAAATACCAATGTGCTTCACCAAAAA
*
6559312 GATAAAAGAAAGAAAAAATTTTGATGGGGCAAAATGCCAATGTGCTTCACCAAAAA
1 GA-AAAA-AAAGAAAAAATTTTGATGGGGCAAAATACCAATGTGCTTCACCAAAAA
*
6559368 GAAAAAAAGGAAAAAAATTTTTGATGGGGCAAAATACCA
1 GAAAAAAAAG-AAAAAA-TTTTGATGGGGCAAAATACCA
6559407 GTGTACTAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
49 8 0.07
50 4 0.03
51 25 0.20
52 4 0.03
53 1 0.01
54 6 0.05
55 14 0.11
56 61 0.50
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (54 bp):
GAAAAAAAAGAAAAAATTTTGATGGGGCAAAATACCAATGTGCTTCACCAAAAA
Found at i:6559418 original size:107 final size:104
Alignment explanation
Indices: 6559225--6559440 Score: 252
Period size: 107 Copynumber: 2.0 Consensus size: 104
6559215 TAAAAAAAAA
* *
6559225 TTGATGGGGCAAAATACCAATGTGCTCCACCAAAAAAGAAAAAGAAAAATTTTGATAGGGTAAAA
1 TTGATGGGGCAAAATACCAATGTGCTCCACCAAAAAAAAAAAAGAAAAATTTTGATAGGGCAAAA
* *
6559290 TGCCAGTGTGCTTCGCCAAAAAGATAAAAGAAAGAAAAAATT
66 TACCAGTGTACTT---CAAAAAGATAAAAGAAAGAAAAAATT
* * *
6559332 TTGATGGGGCAAAATGCCAATGTGCTTCACCAAAAAGAAAAAAAGGAAAAAAATTTTTGATGGGG
1 TTGATGGGGCAAAATACCAATGTGCTCCACCAAAAA-AAAAAAA-G--AAAAA-TTTTGATAGGG
** * *
6559397 CAAAATACCAGTGTACTAAAAAAAGCAAAAAATAAAGAAAAAAT
61 CAAAATACCAGTGTACTTCAAAAAG-ATAAAAGAAAGAAAAAAT
6559441 AGAAAAATTA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
107 34 0.37
108 6 0.07
109 7 0.08
110 16 0.17
111 5 0.05
112 24 0.26
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (104 bp):
TTGATGGGGCAAAATACCAATGTGCTCCACCAAAAAAAAAAAAGAAAAATTTTGATAGGGCAAAA
TACCAGTGTACTTCAAAAAGATAAAAGAAAGAAAAAATT
Found at i:6559437 original size:56 final size:56
Alignment explanation
Indices: 6559210--6559439 Score: 176
Period size: 56 Copynumber: 4.2 Consensus size: 56
6559200 TAACAAATGG
* ** * *
6559210 AAAAATAAAAAAAAATTGATGGGGCAAAATACCAATGTGCTCCACCAAAAAAG----
1 AAAAAGAAAAAAATTTTGATGGGGCAAAATACCAATGTACTTCA-CAAAAAAGAAAA
* * * * * * *
6559263 AAAAAG--AAAAATTTTGATAGGGTAAAATGCCAGTGTGCTTCGCCAAAAAGATAAA
1 AAAAAGAAAAAAATTTTGATGGGGCAAAATACCAATGTACTTCACAAAAAAGA-AAA
* * * *
6559318 AGAAAG-AAAAAATTTTGATGGGGCAAAATGCCAATGTGCTTCACCAAAAAG-AAA
1 AAAAAGAAAAAAATTTTGATGGGGCAAAATACCAATGTACTTCACAAAAAAGAAAA
* *
6559372 AAAAGGAAAAAAATTTTTGATGGGGCAAAATACCAGTGTAC-T-A-AAAAAAGCAAAA
1 AAAAAGAAAAAAA-TTTTGATGGGGCAAAATACCAATGTACTTCACAAAAAAG-AAAA
6559427 AATAAAGAAAAAA
1 AA-AAAGAAAAAA
6559440 TAGAAAAATT
Statistics
Matches: 144, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
50 7 0.05
51 28 0.19
53 11 0.08
54 8 0.06
55 17 0.12
56 73 0.51
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (56 bp):
AAAAAGAAAAAAATTTTGATGGGGCAAAATACCAATGTACTTCACAAAAAAGAAAA
Found at i:6560831 original size:114 final size:115
Alignment explanation
Indices: 6560578--6560835 Score: 263
Period size: 114 Copynumber: 2.3 Consensus size: 115
6560568 CATCTTTAAG
* * * *
6560578 ACTCGT-AGCATCATCCCAATCATTCGATCTCGATTCAGTCTAGATCATTTTTCTGACTTGCGAC
1 ACTCGTGA-CATCATCCCAATCATTCGATCTCGACTCAATCTAAATAATTTTTCTGACTTGCGAC
* * * * * *
6560642 ATCATCTTGGTCATTCATCTTTGACCTCGACTCCGTTTTGGTCACTTTTAG
65 ATCATCCTGATCATTCATCTTTGACCTCGACTCAGTCTTGGTCACTTTCAA
* * ** * * * * *
6560693 ACTCATGGCATCATCCTGACCATTCGATCTCGGCTCAATC-AAATAATTTTTTTGACTTGTGGCA
1 ACTCGTGACATCATCCCAATCATTCGATCTCGACTCAATCTAAATAATTTTTCTGACTTGCGACA
* * *
6560757 TCATCCTGATTATTTAT-TTATGACCTTGACTCAGTCTTGGTCACTTTCAA
66 TCATCCTGATCATTCATCTT-TGACCTCGACTCAGTCTTGGTCACTTTCAA
*
6560807 ACTCGTGACATCTTCCCAATCATTC-ATCT
1 ACTCGTGACATCATCCCAATCATTCGATCT
6560836 ACAATCTCGA
Statistics
Matches: 113, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
113 6 0.05
114 76 0.67
115 31 0.27
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (115 bp):
ACTCGTGACATCATCCCAATCATTCGATCTCGACTCAATCTAAATAATTTTTCTGACTTGCGACA
TCATCCTGATCATTCATCTTTGACCTCGACTCAGTCTTGGTCACTTTCAA
Found at i:6561125 original size:69 final size:68
Alignment explanation
Indices: 6560922--6561125 Score: 187
Period size: 69 Copynumber: 2.9 Consensus size: 68
6560912 CATTTTTTTA
* * * * *
6560922 ACCTTTATGAAACTTGAAATCTTACAAATCTTTCTTTCTTATGAATCTAAAAGTCCTTATGAA-C
1 ACCTTTGTGAAACTTGAAATCTTATAAATCTTTTTTTC-T-TGAATCTAAAAATCCTTGTGAACC
*
6560986 TTCTC
64 TTCGC
* * * * * * **
6560991 ACCTTTGCGATACTTGAAATCTTGTAAATCTTTCTTTTTTATGAATTTGAAAATCCTTGCAAACC
1 ACCTTTGTGAAACTTGAAATCTTATAAATCTTT-TTTTCT-TGAATCTAAAAATCCTTGTGAACC
6561056 TT-GC
64 TTCGC
* * *
6561060 ACCTTTGTGAAACTTGAAATCTTATGAATATTTTTTTCTTGCAAATCTAAAAATTCTTGTGAACC
1 ACCTTTGTGAAACTTGAAATCTTATAAATCTTTTTTTCTTG--AATCTAAAAATCCTTGTGAACC
6561125 T
64 T
6561126 AGAATCTTTG
Statistics
Matches: 106, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
67 2 0.02
68 5 0.05
69 93 0.88
70 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (68 bp):
ACCTTTGTGAAACTTGAAATCTTATAAATCTTTTTTTCTTGAATCTAAAAATCCTTGTGAACCTT
CGC
Found at i:6561340 original size:155 final size:155
Alignment explanation
Indices: 6561060--6561340 Score: 347
Period size: 155 Copynumber: 1.8 Consensus size: 155
6561050 CAAACCTTGC
* * * ***
6561060 ACCTTTGTGAAACTTGAAATCTTATGAATATTTTTTTCTTGCAAATCTAAAAATTCTTGTGAACC
1 ACCTTTGCGAAACTTGAAATCTTATAAATATTTTTTTCTTGCAAATCTAAAAATCCTCACGAACC
* * * *
6561125 TAGAATCTTTGCAAACCTAGAACCTTTGTGAAACTTGAAATCTTGCGAATCTATCTTTCTTGAAA
66 TAGAATCTTTACAAACCTAGAACCTTTGCGAAACTTGAAATCTTGCAAATCTATCATTCTTGAAA
6561190 ATATGGAAGTTCATGCAAACTTGAA
131 ATATGGAAGTTCATGCAAACTTGAA
*
6561215 ACCTTTGCGAAACTTGAAATCTTGTAAAT-TTTTCTTTCTTG-AGAATCTAAAAATCCTCACGAA
1 ACCTTTGCGAAACTTGAAATCTTATAAATATTTT-TTTCTTGCA-AATCTAAAAATCCTCACGAA
* * * *
6561278 CCTAGGATCTTTACAAATCTAGAA-CTTCTGCGAATCTT-AGAGTCTTGCAAATCT-TACATTCT
64 CCTAGAATCTTTACAAACCTAGAACCTT-TGCGAAACTTGA-AATCTTGCAAATCTAT-CATTCT
6561340 T
126 T
6561341 ATAAATCTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
154 10 0.09
155 96 0.91
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (155 bp):
ACCTTTGCGAAACTTGAAATCTTATAAATATTTTTTTCTTGCAAATCTAAAAATCCTCACGAACC
TAGAATCTTTACAAACCTAGAACCTTTGCGAAACTTGAAATCTTGCAAATCTATCATTCTTGAAA
ATATGGAAGTTCATGCAAACTTGAA
Found at i:6561902 original size:120 final size:120
Alignment explanation
Indices: 6561689--6561924 Score: 305
Period size: 120 Copynumber: 2.0 Consensus size: 120
6561679 TTCATGGTTA
**
6561689 TTGACCTCGACTCAATCCTGATCACTTCATCTTTGACTCATGGTTTTGTCCTGATCACCCAATCT
1 TTGACCTCGACTCAATCCTGATCACTTCATCTTTGACTCATGGTTTCATCCTGATCACCCAATCT
* * * * *
6561754 TGGCTTAGTCTAGATCATTTCTTATGACTCGTGGTTTCATCCCGATCATTTAGTT
66 TGGCTCAATCGAAATCATTTCTTATGACTCATGGTTTCATCCCGATCATTTAGTT
** * * * *
6561809 TTGACCTCGACTTGATCCTGGTCGCTTCAT-TTTGGACT-AGTGGTTTCATCTTGATCACTCAAT
1 TTGACCTCGACTCAATCCTGATCACTTCATCTTT-GACTCA-TGGTTTCATCCTGATCACCCAAT
* *
6561872 CTTGGCTCAATCGAAATCATTTCTTATGACTCATGGTTTCATCCTGGTCATTT
64 CTTGGCTCAATCGAAATCATTTCTTATGACTCATGGTTTCATCCCGATCATTT
6561925 TTGCTCGCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
119 4 0.04
120 95 0.96
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (120 bp):
TTGACCTCGACTCAATCCTGATCACTTCATCTTTGACTCATGGTTTCATCCTGATCACCCAATCT
TGGCTCAATCGAAATCATTTCTTATGACTCATGGTTTCATCCCGATCATTTAGTT
Found at i:6567290 original size:187 final size:186
Alignment explanation
Indices: 6566958--6567884 Score: 1045
Period size: 187 Copynumber: 5.0 Consensus size: 186
6566948 AAAATTTAAG
* * *
6566958 TTGAAAGCATTTTTCACTAGAAAACGTCTTTAATAATCTCAAAAAAATTTTTAAAA-AAATTATT
1 TTGAAAGCGTTTTTCACTAGAAAACGTCTTTAATAATC-C-CAAAAATTTTAAAAAGAAATTATT
* *
6567022 GAAGGCGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAATTAAAAGGAATTGGTGAA
64 GAAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTGAA
* * * * *
6567087 GGCATTTTTCTAGAATAAATGCCTTCATTAATCATCTTAAAATTTGAGTAGTAAAATA
129 GGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTAGTGAAATA
* * * *
6567145 TTTAATGTGTTATTCACTAGAAAAC-TCTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTGA
1 TTGAAAGCGTTTTTCACTAGAAAACGTCTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTGA
** * * *
6567209 AGGTATTT-TTTTGAAAAAAAAACACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGA
66 AGGCGTTTGTTCT---AAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTGA
* * * * * *
6567273 ATGTATTTTTTTAGAATAAACACCTACACTAACCGTTTTAAAATTTGAGTAGTGAAATA
128 AGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTAGTGAAATA
* * ** * ***
6567332 TTGAAAGCATTTTTCATTAGAAAACGTCTTTAATAATCTTAAAATTTTTTTGAAGAAAATTATTG
1 TTGAAAGCGTTTTTCACTAGAAAACGTCTTTAATAATCCCAAAAATTTTAAAAAG-AAATTATTG
* * * * *
6567397 AAGGCGTTTATTCTAAAAAAATGCATTCAATAATTATGTACA-AAATTTAAAAGAAATTATTGAA
65 AAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAA-TTAAAAGGAATTAGTGAA
* * * * * * **
6567461 GGTATTTTTCTGGAATAAATGCCTTCACTAACTATTTTAAAATTTAAGTACTGGTATA
129 GGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTAGTGAAATA
* * * * * *
6567519 TTGAATGCGTTTTTCACTAGAAAACGCCTTTAATAATCCTAAAAAGCTTTAAAATGAAATTATTT
1 TTGAAAGCGTTTTTCACTAGAAAACGTCTTTAATAATCCCAAAAA-TTTTAAAAAGAAATTATTG
* * * * **
6567584 AAGGCGTTTGTTCTCAAAAAATATCTTTAATAATTATGTACATAAATTAAATGGAATCGGTGAAG
65 AAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTGAAG
* * * * *
6567649 GTGTTTTTCTATAATAAACGCTTTCACTAATCATCTTAAAATTTGAGTTGTGAAATA
130 GTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTAGTGAAATA
* * * *
6567706 TTAAAAGCGTTTTTTACTAGAAGACGTCTTTAATAATCTCAAAAATTTT-AAAAGAAAATTATTG
1 TTGAAAGCGTTTTTCACTAGAAAACGTCTTTAATAATCCCAAAAATTTTAAAAAG-AAATTATTG
* * * * *
6567770 AAGGCATTTGTTCTCAAAAAATGCCTTCAATAATTATGCACATAAATTAAAAGGAATTAATGAAA
65 AAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTG-AA
* * * *
6567835 GGCATTTTTATAGAATAAACGCCTTGACTAACCATCTTAAAATTTAAGTA
129 GGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTA
6567885 ATGGAATAAT
Statistics
Matches: 606, Mismatches: 122, Indels: 24
0.81 0.16 0.03
Matches are distributed among these distances:
184 16 0.03
185 21 0.03
186 79 0.13
187 440 0.73
188 31 0.05
189 16 0.03
190 3 0.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (186 bp):
TTGAAAGCGTTTTTCACTAGAAAACGTCTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTGA
AGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTGAAGG
TATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTAGTGAAATA
Found at i:6567503 original size:374 final size:370
Alignment explanation
Indices: 6566624--6567884 Score: 1567
Period size: 374 Copynumber: 3.4 Consensus size: 370
6566614 AAAAAAATAC
** ** * * **
6566624 CTTTAATAATCCCAAAAATTTAAAAAAAAATTATTGAAAGCGTTTGTTCTTAAAAAAACACCTTC
1 CTTTAATAATCTAAAAAATTTTTAAGAAAATTATTGAAGGCGTTTGTTC-TAAAAAAATGCCTTC
* * *
6566689 AATAATTATGTACATAAATTAAAAAGAATCAGTGAAGGCATTTTTCTAGAATAAATGCCTTCATT
65 AATAATTATGTACATAAATTAAAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACT
* * * *
6566754 AATCATCTTAAAATTTGAGTAGTAAAATATTGAATGTGTTTTTCACTAGAAGACTATTTGATAAT
130 AATCATCTTAAAATTTAAGTAGTAAAATATTGAATGTGTTTTTCACTAGAAAACTCTTTAATAAT
* *
6566819 CCCAAAAATTTTAAAAAAAAATTATTGAAAGCGTTTTTCTGAAAAAAATACCTTCAATAATTATG
195 CCCAAAAATTTTAAAAAGAAATTATTGAAGGCGTTTTTCTGAAAAAAATACCTTCAATAATTATG
* *
6566884 TACATAAATTAAAAGGAATTAGTGAATGTATTTTTCTGGAATAAACGCATTCACTAACTGTTTTA
260 TACATAAATTAAAAGGAATTAGTGAATGTATTTTTCTAGAATAAACGCATTCACTAACCGTTTTA
6566949 AAATTT-A--A--G-----TTGAAAGCATTTTTCACTAGAAAACGT
325 AAATTTGAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAACGT
*
6566985 CTTTAATAATCTCAAAAAAATTTTTAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCCTT
1 CTTTAATAATCT--AAAAAATTTTTAAGAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCCTT
* *
6567050 CAATAATTATGTACATAAATTAAAAGGAATTGGTGAAGGCATTTTTCTAGAATAAATGCCTTCAT
64 CAATAATTATGTACATAAATTAAAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCAC
* * *
6567115 TAATCATCTTAAAATTTGAGTAGTAAAATATTTAATGTGTTATTCACTAGAAAACTCTTTAATAA
129 TAATCATCTTAAAATTTAAGTAGTAAAATATTGAATGTGTTTTTCACTAGAAAACTCTTTAATAA
** * *
6567180 TCCCAAAAATTTTAAAAAGAAATTATTGAAGGTATTTTTTTGAAAAAAAAACACCTTCAATAATT
194 TCCCAAAAATTTTAAAAAGAAATTATTGAAGGCGTTTTTCTG--AAAAAAATACCTTCAATAATT
* * * * *
6567245 ATGTACATAAATTAAAAAGAATTAGTGAATGTATTTTTTTAGAATAAACACCTACACTAACCGTT
257 ATGTACATAAATTAAAAGGAATTAGTGAATGTATTTTTCTAGAATAAACGCATTCACTAACCGTT
*
6567310 TTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCATTAGAAAACGT
322 TTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAACGT
** * *
6567359 CTTTAATAATCTTAAAATTTTTTTGAAGAAAATTATTGAAGGCGTTTATTCTAAAAAAATGCATT
1 CTTTAATAATC-TAAAAAATTTTT-AAGAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCCTT
* * * *
6567424 CAATAATTATGTACA-AAATTTAAAAGAAATTATTGAAGGTATTTTTCTGGAATAAATGCCTTCA
64 CAATAATTATGTACATAAA-TTAAAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCA
* * *** * *
6567488 CTAA-CTATTTTAAAATTTAAGTACTGGTATATTGAATGCGTTTTTCACTAGAAAACGCCTTTAA
128 CTAATC-ATCTTAAAATTTAAGTAGTAAAATATTGAATGTGTTTTTCACTAGAAAAC-TCTTTAA
* * * * * * *
6567552 TAATCCTAAAAAGCTTTAAAATGAAATTATTTAAGGCGTTTGTTCT-CAAAAAATATCTTTAATA
191 TAATCCCAAAAA-TTTTAAAAAGAAATTATTGAAGGCGTTT-TTCTGAAAAAAATACCTTCAATA
* ** * * * * *
6567616 ATTATGTACATAAATTAAATGGAATCGGTGAAGGTGTTTTTCTATAATAAACGCTTTCACTAATC
254 ATTATGTACATAAATTAAAAGGAATTAGTGAATGTATTTTTCTAGAATAAACGCATTCACTAACC
* * * * * * *
6567681 ATCTTAAAATTTGAGTTGTGAAATATTAAAAGCGTTTTTTACTAGAAGACGT
319 GTTTTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAACGT
* * * *
6567733 CTTTAATAATCTCAAAAATTTTAAAAGAAAATTATTGAAGGCATTTGTTCTCAAAAAATGCCTTC
1 CTTTAATAATCTAAAAAATTTT-TAAGAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCCTTC
* * * * *
6567798 AATAATTATGCACATAAATTAAAAGGAATTAATGAAAGGCATTTTTATAGAATAAACGCCTTGAC
65 AATAATTATGTACATAAATTAAAAGGAATTAGTG-AAGGCATTTTTCTAGAATAAATGCCTTCAC
*
6567863 TAACCATCTTAAAATTTAAGTA
129 TAATCATCTTAAAATTTAAGTA
6567885 ATGGAATAAT
Statistics
Matches: 777, Mismatches: 98, Indels: 37
0.85 0.11 0.04
Matches are distributed among these distances:
361 11 0.01
362 171 0.22
363 33 0.04
364 87 0.11
365 1 0.00
367 1 0.00
369 1 0.00
373 85 0.11
374 342 0.44
375 19 0.02
376 23 0.03
377 3 0.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (370 bp):
CTTTAATAATCTAAAAAATTTTTAAGAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCCTTCA
ATAATTATGTACATAAATTAAAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTA
ATCATCTTAAAATTTAAGTAGTAAAATATTGAATGTGTTTTTCACTAGAAAACTCTTTAATAATC
CCAAAAATTTTAAAAAGAAATTATTGAAGGCGTTTTTCTGAAAAAAATACCTTCAATAATTATGT
ACATAAATTAAAAGGAATTAGTGAATGTATTTTTCTAGAATAAACGCATTCACTAACCGTTTTAA
AATTTGAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAACGT
Found at i:6567727 original size:561 final size:547
Alignment explanation
Indices: 6566624--6567928 Score: 1591
Period size: 561 Copynumber: 2.4 Consensus size: 547
6566614 AAAAAAATAC
* *
6566624 CTTTAATAATCCCAAAAA-TTTAAAAAAAAATTATTGAAAGCGT-TTGTTCTTAAAAAAACACCT
1 CTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTG-AAG-GTATT-TTTTTAAAAAAACACCT
* * *
6566687 TCAATAATTATGTACATAAATTAAAAAGAATCAGTGAAGGCATTTTTCTAGAATAAATGCCTTCA
63 TCAATAATTATGTACATAAATTAAAAAGAATTAGTGAAGGCATTTTTATAGAATAAACGCCTTCA
* * * * ** * * *
6566752 TTAATCATCTTAAAATTTGAGTAGTAAAATATTGAATGTGTTTTTCACTAGAAGACTATTTGATA
128 CTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCATTAGAAGACTCTTTAATA
*
6566817 ATCCCAAAAATTTTAAAAAAAAATTATTGAAAGCGTTTTTCTGAAAAAAATACCTTCAATAATTA
193 ATCCCAAAAATTTTAAAAAAAAATTATTGAAAGCGTTTTTCTGAAAAAAATACATTCAATAATTA
* * *
6566882 TGTACATAAATTAAAAGGAATTAGTGAATGTATTTTTCTGGAATAAACGCATTCACTAACTGTTT
258 TGTACATAAATTAAAAGAAATTAGTGAAGGTATTTTTCTGGAATAAACGCATTCACTAACTATTT
* **
6566947 TAAAATTTAAGTTGAAAGCATTTTTCACTAGAAAACGTCTTTAATAATCTCAAAAAAATTTTTAA
323 TAAAATTTAAGTTGAAAGCATTTTTCACTAGAAAACGCCTTTAATAATCTCAAAAAAAGCTTTAA
*
6567012 AAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAATTAAAAGG
388 AAAAATTATTGAAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGG
* * *
6567077 AATTGGTGAAGGCATTTTTCTAGAATAAATGCCTTCATTAATCATCTTAAAATTTGAGTAGTAAA
453 AATCGGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAATCATCTTAAAATTTGAGTAGTAAA
* * *
6567142 ATATTTAATGTGTTATTCACTAGAAAAC-T
518 ATATTAAAAGCGTTATTCACTAGAAAACGT
6567171 CTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTGAAGGTATTTTTTTGAAAAAAAAACACCT
1 CTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTGAAGGTATTTTTTT---AAAAAAACACCT
* * * * *
6567236 TCAATAATTATGTACATAAATTAAAAAGAATTAGTGAATGTATTTTTTTAGAATAAACACCTACA
63 TCAATAATTATGTACATAAATTAAAAAGAATTAGTGAAGGCATTTTTATAGAATAAACGCCTTCA
* * *
6567301 CTAACCGTTTTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCATTAGAAAACGTCTTTAAT
128 CTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCATTAGAAGAC-TCTTTAAT
** * ** * * *
6567366 AATCTTAAAATTTTTTTGAAGAAAATTATTGAAGGCGTTTATTCT-AAAAAAATGCATTCAATAA
192 AATCCCAAAA-ATTTTAAAAAAAAATTATTGAAAGCGTTT-TTCTGAAAAAAATACATTCAATAA
* * *
6567430 TTATGTACA-AAATTTAAAAGAAATTATTGAAGGTATTTTTCTGGAATAAATGCCTTCACTAACT
255 TTATGTACATAAA-TTAAAAGAAATTAGTGAAGGTATTTTTCTGGAATAAACGCATTCACTAACT
*
6567494 ATTTTAAAATTTAAGTACTGGTATATTGAATGCGTTTTTCACTAGAAAACGCCTTTAATAATC-C
319 ATTTTAAAATTTAAGT--T-G---A---AA-GCATTTTTCACTAGAAAACGCCTTTAATAATCTC
* * * * *
6567558 -TAAAAAGCTTTAAAATGAAATTATTTAAGGCGTTTGTTCTCAAAAAATATCTTTAATAATTATG
374 AAAAAAAGCTTTAAAA--AAATTATTGAAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATG
* ** * *
6567622 TACATAAATTAAATGGAATCGGTGAAGGTGTTTTTCTATAATAAACGCTTTCACTAATCATCTTA
437 TACATAAATTAAAAGGAATCGGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAATCATCTTA
* * * * *
6567687 AAATTTGAGTTGTGAAATATTAAAAGCGTTTTTTACTAGAAGACGT
502 AAATTTGAGTAGTAAAATATTAAAAGCGTTATTCACTAGAAAACGT
* * * * **
6567733 CTTTAATAATCTCAAAAATTTT-AAAAGAAAATTATTGAAGGCATTTGTTCTCAAAAAATGCCTT
1 CTTTAATAATCCCAAAAATTTTAAAAAG-AAATTATTGAAGGTATTT-TTTTAAAAAAACACCTT
* * * *
6567797 CAATAATTATGCACATAAATTAAAAGGAATTAATGAAAGGCATTTTTATAGAATAAACGCCTTGA
64 CAATAATTATGTACATAAATTAAAAAGAATTAGTG-AAGGCATTTTTATAGAATAAACGCCTTCA
* * * * * * * *
6567862 CTAACCATCTTAAAATTTAAGTAATGGAATAATGAAGGGATTTTGCATTAGAAGACACCTTTAAT
128 CTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCATTAGAAGAC-TCTTTAAT
6567927 AA
192 AA
6567929 ATTCCTTCAA
Statistics
Matches: 644, Mismatches: 89, Indels: 36
0.84 0.12 0.05
Matches are distributed among these distances:
546 6 0.01
547 23 0.04
548 17 0.03
549 116 0.18
550 17 0.03
551 111 0.17
552 4 0.01
553 1 0.00
554 1 0.00
557 1 0.00
559 12 0.02
560 45 0.07
561 248 0.39
562 39 0.06
563 3 0.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (547 bp):
CTTTAATAATCCCAAAAATTTTAAAAAGAAATTATTGAAGGTATTTTTTTAAAAAAACACCTTCA
ATAATTATGTACATAAATTAAAAAGAATTAGTGAAGGCATTTTTATAGAATAAACGCCTTCACTA
ACCATCTTAAAATTTGAGTAGTGAAATATTGAAAGCATTTTTCATTAGAAGACTCTTTAATAATC
CCAAAAATTTTAAAAAAAAATTATTGAAAGCGTTTTTCTGAAAAAAATACATTCAATAATTATGT
ACATAAATTAAAAGAAATTAGTGAAGGTATTTTTCTGGAATAAACGCATTCACTAACTATTTTAA
AATTTAAGTTGAAAGCATTTTTCACTAGAAAACGCCTTTAATAATCTCAAAAAAAGCTTTAAAAA
AATTATTGAAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGGAAT
CGGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAATCATCTTAAAATTTGAGTAGTAAAATA
TTAAAAGCGTTATTCACTAGAAAACGT
Found at i:6578599 original size:2 final size:2
Alignment explanation
Indices: 6578592--6578619 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6578582 TATGCAATTC
6578592 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
6578620 TTGGTACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6579651 original size:3 final size:3
Alignment explanation
Indices: 6579643--6579667 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6579633 TCTTTAATGC
6579643 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
6579668 TTTGTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6582975 original size:18 final size:18
Alignment explanation
Indices: 6582954--6582988 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6582944 TATTTCTATC
*
6582954 CCTACTCTTGCCTTTAGG
1 CCTACCCTTGCCTTTAGG
*
6582972 CCTACCCTTTCCTTTAG
1 CCTACCCTTGCCTTTAG
6582989 TGTTTGTATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.37, G:0.11, T:0.40
Consensus pattern (18 bp):
CCTACCCTTGCCTTTAGG
Found at i:6589529 original size:2 final size:2
Alignment explanation
Indices: 6589524--6589563 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
6589514 TTTTTAAAAA
* * *
6589524 AT AT AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6589564 GTATTACCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6590115 original size:24 final size:25
Alignment explanation
Indices: 6590063--6590115 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
6590053 TTTATTTGAA
6590063 AAATAATTTTAAAAAGATATAGTAT
1 AAATAATTTTAAAAAGATATAGTAT
**
6590088 -AATAATTTTAAAACTATATA-TAT
1 AAATAATTTTAAAAAGATATAGTAT
6590111 AAATA
1 AAATA
6590116 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
AAATAATTTTAAAAAGATATAGTAT
Found at i:6591017 original size:19 final size:18
Alignment explanation
Indices: 6590995--6591034 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6590985 TTGTACTTCA
6590995 TTTTC-TATTTTGATTTTAT
1 TTTTCTTATTTT-A-TTTAT
6591014 TTTTCTTATTTTATTTAT
1 TTTTCTTATTTTATTTAT
6591032 TTT
1 TTT
6591035 ATTTTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTCTTATTTTATTTAT
Found at i:6591026 original size:14 final size:14
Alignment explanation
Indices: 6591000--6591053 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
6590990 CTTCATTTTC
6591000 TATTTTGATTTTATT
1 TATTTT-ATTTTATT
6591015 T-TTCTTATTTTATT
1 TATT-TTATTTTATT
*
6591029 TATTTTATTTTGTT
1 TATTTTATTTTATT
6591043 TATTTTTATTT
1 TA-TTTTATTT
6591054 ACTCTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:6591027 original size:5 final size:5
Alignment explanation
Indices: 6591000--6591053 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
6590990 CTTCATTTTC
* *
6591000 TATTT TGATTT TATTT T-TCT TATTT TA-TT TATTT TATTT T-GTT TATTTT
1 TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT
6591049 TATTT
1 TATTT
6591054 ACTCTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 10 0.25
5 21 0.52
6 9 0.22
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:6591451 original size:37 final size:37
Alignment explanation
Indices: 6591398--6591537 Score: 163
Period size: 37 Copynumber: 3.8 Consensus size: 37
6591388 ATCTTTTAAA
* * *
6591398 TAAAATCTTATCAAACTATTGAGAGATTTACATCAAAG
1 TAAAAT-TTACCAAACTATTAAGAGATTTGCATCAAAG
*
6591436 TAAAATTTACCAAACTATTAAGAAATTTGCATCAAAG
1 TAAAATTTACCAAACTATTAAGAGATTTGCATCAAAG
* * * * * *
6591473 TAAATTTTATCAAATTATTGAGAGATCTGTATCAAAG
1 TAAAATTTACCAAACTATTAAGAGATTTGCATCAAAG
* *
6591510 TAAATTTTACCAAACTATTAAAAGATTT
1 TAAAATTTACCAAACTATTAAGAGATTT
6591538 TATTAATTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
37 80 0.93
38 6 0.07
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (37 bp):
TAAAATTTACCAAACTATTAAGAGATTTGCATCAAAG
Found at i:6595019 original size:24 final size:25
Alignment explanation
Indices: 6594990--6595056 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 25
6594980 ATTTTTCTTG
*
6594990 AAAAATGATGAAAAGAA-AAAA-GAA
1 AAAAATGAAGAAAA-AAGAAAATGAA
6595014 AAAAATGAAGAAAAAAGAAAATGAA
1 AAAAATGAAGAAAAAAGAAAATGAA
6595039 ATGAAAATGAAGAAAAAA
1 A--AAAATGAAGAAAAAA
6595057 TTAATGGGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
23 2 0.05
24 17 0.45
25 4 0.11
27 15 0.39
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (25 bp):
AAAAATGAAGAAAAAAGAAAATGAA
Found at i:6595366 original size:16 final size:16
Alignment explanation
Indices: 6595336--6595365 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6595326 GAGGTATGTA
6595336 AAAAAAATCAAAAAAT
1 AAAAAAATCAAAAAAT
6595352 AAAAAAA-CAAAAAA
1 AAAAAAATCAAAAAA
6595366 AATGAGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAAAATCAAAAAAT
Found at i:6596540 original size:17 final size:18
Alignment explanation
Indices: 6596503--6596541 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6596493 TTCATTCTTA
*
6596503 TGAATCTGAAAGCCCTTG
1 TGAACCTGAAAGCCCTTG
*
6596521 TGAACCTGAAA-CCTTTG
1 TGAACCTGAAAGCCCTTG
6596538 TGAA
1 TGAA
6596542 TTTAGAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (18 bp):
TGAACCTGAAAGCCCTTG
Found at i:6596566 original size:18 final size:17
Alignment explanation
Indices: 6596516--6596575 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
6596506 ATCTGAAAGC
* *
6596516 CCTTGTGAACCTGA-AA
1 CCTTGTGAAACTTAGAA
*
6596532 CCTTTGTG-AATTTAGAA
1 CC-TTGTGAAACTTAGAA
6596549 CCTCTGTGAAACTTAGAA
1 CCT-TGTGAAACTTAGAA
*
6596567 TCTTGTGAA
1 CCTTGTGAA
6596576 TATTTCATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 6 0.17
17 19 0.54
18 10 0.29
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (17 bp):
CCTTGTGAAACTTAGAA
Found at i:6596595 original size:86 final size:86
Alignment explanation
Indices: 6596412--6596595 Score: 217
Period size: 86 Copynumber: 2.1 Consensus size: 86
6596402 AAATTTAAAA
* * *
6596412 TCTTGCAAATCTGAAAGTCCTTACAAACCCGAAACCTTTGTGAATCTAGAACCTTTGTGAAATTT
1 TCTTGCAAATCTGAAAGCCCTTACAAACCCGAAACCTTTGTGAATCTAGAACCTCTGTGAAATTA
*
6596477 GAACTCTTACAAATTTTTCAT
66 GAACTCTTACAAATATTTCAT
*** *** * *
6596498 TCTTATGAATCTGAAAGCCCTTGTGAACCTGAAACCTTTGTGAATTTAGAACCTCTGTGAAACTT
1 TCTTGCAAATCTGAAAGCCCTTACAAACCCGAAACCTTTGTGAATCTAGAACCTCTGTGAAA-TT
***
6596563 AGAA-TCTTGTGAATATTTCAT
65 AGAACTCTTACAAATATTTCAT
6596584 TCTTGCAAATCT
1 TCTTGCAAATCT
6596596 AAAAACCTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
86 74 0.94
87 5 0.06
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (86 bp):
TCTTGCAAATCTGAAAGCCCTTACAAACCCGAAACCTTTGTGAATCTAGAACCTCTGTGAAATTA
GAACTCTTACAAATATTTCAT
Found at i:6597948 original size:17 final size:18
Alignment explanation
Indices: 6597926--6597980 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 18
6597916 TATCCATTCC
*
6597926 ATTTTTTGT-TTTGATTT
1 ATTTTTTATATTTGATTT
*
6597943 ATTTTTTATATTTTATTT
1 ATTTTTTATATTTGATTT
6597961 A--TTTTAT-TTTG-TTT
1 ATTTTTTATATTTGATTT
6597975 ATTTTT
1 ATTTTT
6597981 ATTTACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 9 0.28
17 8 0.25
18 8 0.25
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (18 bp):
ATTTTTTATATTTGATTT
Found at i:6597956 original size:9 final size:9
Alignment explanation
Indices: 6597934--6597997 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
6597924 CCATTTTTTG
6597934 TTTTGATTTA
1 TTTT-ATTTA
6597944 TTTT-TTATA
1 TTTTATT-TA
6597953 TTTTATTTA
1 TTTTATTTA
6597962 TTTTATTT-
1 TTTTATTTA
6597970 TGTTTA--T-
1 T-TTTATTTA
6597977 TTTTATTTA
1 TTTTATTTA
6597986 CTTTTA-TTA
1 -TTTTATTTA
6597995 TTT
1 TTT
6597998 CTTATTTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 7 0.15
9 23 0.49
10 11 0.23
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:6597960 original size:18 final size:17
Alignment explanation
Indices: 6597926--6597984 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 17
6597916 TATCCATTCC
*
6597926 ATTTTTTGTTTTGATTT
1 ATTTTTTATTTTGATTT
*
6597943 ATTTTTTATATTTTATTT
1 ATTTTTTAT-TTTGATTT
6597961 A--TTTTATTTTG-TTT
1 ATTTTTTATTTTGATTT
6597975 A-TTTTTATTT
1 ATTTTTTATTT
6597985 ACTTTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.11
15 11 0.30
16 6 0.16
17 8 0.22
18 8 0.22
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
ATTTTTTATTTTGATTT
Found at i:6597983 original size:20 final size:20
Alignment explanation
Indices: 6597958--6598006 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6597948 TTATATTTTA
*
6597958 TTTATTTTA-TTTTGTTTATT
1 TTTATTTTACTTTT-ATTATT
6597978 TTTA-TTTACTTTTATTATT
1 TTTATTTTACTTTTATTATT
6597997 TCTTATTTTA
1 T-TTATTTTA
6598007 AATTGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.40
20 11 0.44
21 4 0.16
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTATTTTACTTTTATTATT
Found at i:6598162 original size:16 final size:16
Alignment explanation
Indices: 6598141--6598184 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
6598131 ATTAGAGGAT
6598141 TTTTTATGAATTTAAA
1 TTTTTATGAATTTAAA
6598157 TTTTTATGAATTTAAA
1 TTTTTATGAATTTAAA
6598173 TTTTTATGAATT
1 TTTTTATGAATT
6598185 CTGTCAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (16 bp):
TTTTTATGAATTTAAA
Found at i:6600366 original size:20 final size:20
Alignment explanation
Indices: 6600339--6600393 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
6600329 CTAATTAATT
6600339 TAATTTAATTTAATTGATAG
1 TAATTTAATTTAATTGATAG
* * * *
6600359 TGATTTAATGTATTTAATAG
1 TAATTTAATTTAATTGATAG
6600379 TAATTT-ATTT-ATTGA
1 TAATTTAATTTAATTGA
6600394 AAGCAAGAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 3 0.11
19 3 0.11
20 21 0.78
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (20 bp):
TAATTTAATTTAATTGATAG
Found at i:6608570 original size:2 final size:2
Alignment explanation
Indices: 6608563--6608600 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6608553 ATAGAAGAAA
* *
6608563 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6608601 TGATAACTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6613267 original size:20 final size:20
Alignment explanation
Indices: 6613242--6613279 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6613232 AGAAAATGAC
6613242 AAATTTAATGAATGGAACTA
1 AAATTTAATGAATGGAACTA
*
6613262 AAATTTCATGAATGGAAC
1 AAATTTAATGAATGGAAC
6613280 CAAACTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (20 bp):
AAATTTAATGAATGGAACTA
Found at i:6613425 original size:12 final size:12
Alignment explanation
Indices: 6613408--6613434 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6613398 AAATATTTCA
6613408 ATATTTTAAAAT
1 ATATTTTAAAAT
6613420 ATATTTTAAAAT
1 ATATTTTAAAAT
6613432 ATA
1 ATA
6613435 AATTAAATAA
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:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTTAAAAT
Found at i:6614273 original size:22 final size:23
Alignment explanation
Indices: 6614222--6614274 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
6614212 AATTTGAATG
*
6614222 ATAAAAAATTTAATATTTTTTAA
1 ATAAAAAATTTAATATTTTATAA
*
6614245 A-ATAAAATTTTAA-ATTTTATAA
1 ATA-AAAAATTTAATATTTTATAA
6614267 ATAAAAAA
1 ATAAAAAA
6614275 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAAAAATTTAATATTTTATAA
Found at i:6621322 original size:26 final size:25
Alignment explanation
Indices: 6621283--6621339 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6621273 AATATAATTT
*
6621283 TTTTAA-TATTAATAATTTTAATATA
1 TTTTAATTATAAATAATTTTAA-ATA
*
6621308 TTTTAATTATAAATAATTTTTAATA
1 TTTTAATTATAAATAATTTTAAATA
6621333 TTTTAAT
1 TTTTAAT
6621340 AGTTATGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTAATTATAAATAATTTTAAATA
Found at i:6621581 original size:22 final size:23
Alignment explanation
Indices: 6621547--6621590 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
6621537 GAAACTTTTA
*
6621547 TTATATAATAATA-AAAATTATT
1 TTATATAAGAATACAAAATTATT
*
6621569 TTATATTAGAATAGCAAAATTA
1 TTATATAAGAATA-CAAAATTA
6621591 CTTAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (23 bp):
TTATATAAGAATACAAAATTATT
Found at i:6624198 original size:112 final size:111
Alignment explanation
Indices: 6624027--6624236 Score: 244
Period size: 112 Copynumber: 1.9 Consensus size: 111
6624017 GTTTTTTGTT
* * * * **
6624027 GAAAATATGAAAAAAAATAATTTTTAGAATTCGATAAAAACAATGTTTCTATGAAAAAAATGTAA
1 GAAAATATGAAAAAAAATAATTTTTAGAATTCAACAAAAACAATGTTTCAAAGAAAAAAACATAA
6624092 TCTTTGTTGGAAAA-ACGATGTTTTTAAGATAAAAATGCAGTATTTATC
66 TCTTTGTT-GAAAAGACGAT-TTTTTAA-ATAAAAATGCAGTATTTATC
* * * ** **
6624140 GAAAATATG-AAAAATATATTTTTTAGAATTCAACAAAGATGATGTTTCAAAGGTAAAAACATAA
1 GAAAATATGAAAAAAAATAATTTTTAGAATTCAACAAAAACAATGTTTCAAAGAAAAAAACATAA
* *
6624204 TTTTTGTTGAAAAGACTATTTTTTAAATAAAAA
66 TCTTTGTTGAAAAGACGATTTTTTAAATAAAAA
6624237 CGTAGTCTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
110 7 0.09
111 12 0.15
112 53 0.65
113 9 0.11
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (111 bp):
GAAAATATGAAAAAAAATAATTTTTAGAATTCAACAAAAACAATGTTTCAAAGAAAAAAACATAA
TCTTTGTTGAAAAGACGATTTTTTAAATAAAAATGCAGTATTTATC
Found at i:6624854 original size:17 final size:18
Alignment explanation
Indices: 6624832--6624866 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6624822 TAAAAATTTT
*
6624832 TTTAAAA-TATTATATTA
1 TTTAAAATTATTAGATTA
6624849 TTTAAAATTATTAGATTA
1 TTTAAAATTATTAGATTA
6624867 ATTTTGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTAAAATTATTAGATTA
Found at i:6627723 original size:17 final size:17
Alignment explanation
Indices: 6627701--6627735 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6627691 CTTTCTATTT
6627701 TTTCATTGCAAATAAAG
1 TTTCATTGCAAATAAAG
**
6627718 TTTCATTGGGAATAAAG
1 TTTCATTGCAAATAAAG
6627735 T
1 T
6627736 CATTTTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (17 bp):
TTTCATTGCAAATAAAG
Found at i:6636217 original size:14 final size:16
Alignment explanation
Indices: 6636199--6636235 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
6636189 GGGTTTTAGG
6636199 ATTTTTGT-TTTTTGT
1 ATTTTTGTGTTTTTGT
6636214 -TTTTT-TGTTTTTGT
1 ATTTTTGTGTTTTTGT
6636228 ATTTTTGT
1 ATTTTTGT
6636236 AATTGTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.05
14 12 0.63
15 5 0.26
16 1 0.05
ACGTcount: A:0.05, C:0.00, G:0.14, T:0.81
Consensus pattern (16 bp):
ATTTTTGTGTTTTTGT
Found at i:6653612 original size:1 final size:1
Alignment explanation
Indices: 6653575--6653600 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6653565 CTTCTTCTTC
6653575 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
6653601 CCGATGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6673312 original size:36 final size:36
Alignment explanation
Indices: 6673271--6673344 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
6673261 ACAACATGCA
* * *
6673271 TATAACGAAATTATATTGATTAGATACTAAAAAGAC
1 TATAACAAAATTATACTAATTAGATACTAAAAAGAC
6673307 TATAACAAAATTATACTAATTAGATACTAAAAAGAC
1 TATAACAAAATTATACTAATTAGATACTAAAAAGAC
6673343 TA
1 TA
6673345 AGTTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (36 bp):
TATAACAAAATTATACTAATTAGATACTAAAAAGAC
Found at i:6676628 original size:4 final size:4
Alignment explanation
Indices: 6676619--6676784 Score: 64
Period size: 4 Copynumber: 41.2 Consensus size: 4
6676609 GTTTTATATT
* *
6676619 TTTA TTTA TTTTA TTTTA TTTTA TTT- TGTA TCTTA TGTA TTTA -TTA
1 TTTA TTTA -TTTA -TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
*
6676665 TTTA TTTA -TTA TTACTA TTTA TTAATA TATA TTT- TTTA -TTA TTTA
1 TTTA TTTA TTTA TT--TA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA
* * * * * *
6676710 TCTG TTAATA TATA TGTA TTTA -TTA -TTA TTTA TCTA TTTA TATA -TTA
1 TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
6676757 -TTA TTTA TCTA TTAA TATT- TTTA TTTA T
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T
6676785 CTAATTTTTT
Statistics
Matches: 124, Mismatches: 21, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
3 27 0.22
4 70 0.56
5 18 0.15
6 9 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:6676633 original size:15 final size:15
Alignment explanation
Indices: 6676596--6676674 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
6676586 GGGTAGACCC
*
6676596 ATTTTATTTTTGTGTT
1 ATTTTATTTTTAT-TT
*
6676612 -TTATATTTTTATTT
1 ATTTTATTTTTATTT
6676626 ATTTTA-TTTTATTTT
1 ATTTTATTTTTA-TTT
* * *
6676641 ATTTTGTATCTTATGT
1 ATTTTAT-TTTTATTT
6676657 A-TTTATTATTTATTT
1 ATTTTATT-TTTATTT
6676672 ATT
1 ATT
6676675 ATTACTATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
14 8 0.17
15 32 0.67
16 4 0.08
17 4 0.08
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTTATTT
Found at i:6676662 original size:39 final size:38
Alignment explanation
Indices: 6676596--6676671 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
6676586 GGGTAGACCC
* * *
6676596 ATTTTATTTTTGTGTTTTATATTTTTATTTATTTTATTTT
1 ATTTTATTTTTGTATCTTATATATTTA-TTA-TTTATTTT
*
6676636 ATTTTA-TTTTGTATCTTATGTATTTATTATTTATTT
1 ATTTTATTTTTGTATCTTATATATTTATTATTTATTT
6676672 ATTATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 7 0.22
38 3 0.09
39 16 0.50
40 6 0.19
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.74
Consensus pattern (38 bp):
ATTTTATTTTTGTATCTTATATATTTATTATTTATTTT
Done.