Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 16 of 117
Found at i:4689736 original size:42 final size:43
Alignment explanation
Indices: 4689684--4689768 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
4689674 TTATGATAAC
* *
4689684 TTTTACTATAATTTTGGTAATATTTGATATGATTTTAATAATA
1 TTTTACTATAATTTTGATAATATTTAATATGATTTTAATAATA
* *
4689727 TTTTA-TATAATTTTGATGATATTTAATATGATTTTGATAATA
1 TTTTACTATAATTTTGATAATATTTAATATGATTTTAATAATA
4689769 ATTTGTACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 33 0.87
43 5 0.13
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.54
Consensus pattern (43 bp):
TTTTACTATAATTTTGATAATATTTAATATGATTTTAATAATA
Found at i:4689750 original size:11 final size:11
Alignment explanation
Indices: 4689657--4689772 Score: 59
Period size: 11 Copynumber: 10.8 Consensus size: 11
4689647 GATTATCAAA
*
4689657 ATATGATTTTG
1 ATATAATTTTG
*
4689668 ATATAATTATG
1 ATATAATTTTG
*
4689679 ATA-ACTTTT-
1 ATATAATTTTG
4689688 ACTATAATTTTG
1 A-TATAATTTTG
*
4689700 --GTAATATTTG
1 ATATAAT-TTTG
*
4689710 ATATGATTTT-
1 ATATAATTTTG
*
4689720 A-ATAATATTTT
1 ATATAAT-TTTG
4689731 ATATAATTTTG
1 ATATAATTTTG
*
4689742 ATGAT-A-TTTA
1 AT-ATAATTTTG
*
4689752 ATATGATTTTG
1 ATATAATTTTG
4689763 ATAATAATTT
1 AT-ATAATTT
4689773 GTACCACTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 25
0.68 0.11 0.21
Matches are distributed among these distances:
9 11 0.14
10 20 0.25
11 32 0.41
12 16 0.20
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (11 bp):
ATATAATTTTG
Found at i:4690449 original size:26 final size:26
Alignment explanation
Indices: 4690420--4690469 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
4690410 AAATAAAATT
4690420 TTTTA-ATAAATTATTTAAATTGAATA
1 TTTTAGAT-AATTATTTAAATTGAATA
4690446 TTTTAGATAATTATTTAAATTGAA
1 TTTTAGATAATTATTTAAATTGAA
4690470 ATCAAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTAGATAATTATTTAAATTGAATA
Found at i:4695286 original size:85 final size:87
Alignment explanation
Indices: 4695128--4695286 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 87
4695118 TTTTTTGTGA
4695128 AATTATTTATTTTGTTCAATTTCATTTTCGCTTGTTTTCATGTCGATTGATCGACGTTCAATCAA
1 AATTATTTATTTTGTTCAATTTCATTTTCGCTTGTTTTCATGTCGATTGATCGACGTTCAATCAA
4695193 ACAAACAAATTTGTTTTGTATG
66 ACAAACAAATTTGTTTTGTATG
* * * * *
4695215 AATTATTTA-TTTGTTCAATTTCACTTTT-TCTTG-TTTGAT-TATGATTGATTGACGTTCTATC
1 AATTATTTATTTTGTTCAATTTCA-TTTTCGCTTGTTTTCATGT-CGATTGATCGACGTTCAATC
*
4695276 AAATAAACAAA
64 AAACAAACAAA
4695287 ATGGTTAAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
84 1 0.02
85 32 0.50
86 18 0.28
87 13 0.20
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (87 bp):
AATTATTTATTTTGTTCAATTTCATTTTCGCTTGTTTTCATGTCGATTGATCGACGTTCAATCAA
ACAAACAAATTTGTTTTGTATG
Found at i:4695425 original size:19 final size:19
Alignment explanation
Indices: 4695400--4695437 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4695390 TTATTGAATT
*
4695400 AAAAAAATTAACAAGAAAAG
1 AAAAAATTTAA-AAGAAAAG
4695420 AAAAAATTTAAAAGAAAA
1 AAAAAATTTAAAAGAAAA
4695438 TGACTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAAAATTTAAAAGAAAAG
Found at i:4696138 original size:28 final size:28
Alignment explanation
Indices: 4696104--4696158 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4696094 TCACTTTTAA
*
4696104 AAATATAAAATTGAT-AAAAAATATTTTT
1 AAATATAAAA-TAATAAAAAAATATTTTT
*
4696132 AAATATACAATAATAAAAAAATATTTT
1 AAATATAAAATAATAAAAAAATATTTT
4696159 AAAAAAAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
AAATATAAAATAATAAAAAAATATTTTT
Found at i:4696934 original size:28 final size:28
Alignment explanation
Indices: 4696901--4696982 Score: 78
Period size: 34 Copynumber: 2.7 Consensus size: 28
4696891 TTCGTGCTTG
4696901 AAATTATATTTTTAAAATAAA-AATT-T
1 AAATTATATTTTTAAAATAAATAATTAT
4696927 AAATATTATATTTAATAATTTAAAATAAATAATTAT
1 -AA-ATTATA--T--T--TTTAAAATAAATAATTAT
4696963 AAATTATATTTTTAAAATAA
1 AAATTATATTTTTAAAATAA
4696983 TTTTAACAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
27 2 0.04
28 16 0.35
30 2 0.04
32 2 0.04
34 17 0.37
35 6 0.13
36 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAATTATATTTTTAAAATAAATAATTAT
Found at i:4697439 original size:29 final size:30
Alignment explanation
Indices: 4697386--4697445 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
4697376 ATATATATTG
* *
4697386 AAATATTTAATATAATATCTGAATTTTAAA
1 AAATATTTAATATAATATCTAAATTATAAA
* *
4697416 AAAT-TTTAATTTAATATTTAAATTATAAA
1 AAATATTTAATATAATATCTAAATTATAAA
4697445 A
1 A
4697446 TCTGTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
AAATATTTAATATAATATCTAAATTATAAA
Found at i:4697549 original size:15 final size:15
Alignment explanation
Indices: 4697526--4697580 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
4697516 ATTATATTAA
4697526 TTAATATATTTAAAAT
1 TTAA-ATATTTAAAAT
4697542 TTAAATA-TT-AAAT
1 TTAAATATTTAAAAT
* * *
4697555 TAAAAGTTTTTAAATT
1 TTAAA-TATTTAAAAT
4697571 TTAAATATTT
1 TTAAATATTT
4697581 TATTTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
13 8 0.26
14 3 0.10
15 9 0.29
16 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAAATATTTAAAAT
Found at i:4697593 original size:29 final size:28
Alignment explanation
Indices: 4697519--4697610 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 28
4697509 GATAAATATT
*
4697519 ATATT-AATTAATATATTTAAAATTTAA
1 ATATTAAATTAATATTTTTAAAATTTAA
* *
4697546 ATATTAAATTAAAAGTTTTTAAATTTTAA
1 ATATTAAATTAATA-TTTTTAAAATTTAA
* * *
4697575 ATATTTTATTTAATATTTTATTATAATTTAA
1 ATA-TTAAATTAATA-TTT-TTAAAATTTAA
4697606 A-ATTA
1 ATATTA
4697611 TTAATGACGG
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 17 0.33
30 12 0.24
31 10 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (28 bp):
ATATTAAATTAATATTTTTAAAATTTAA
Found at i:4697746 original size:2 final size:2
Alignment explanation
Indices: 4697739--4697774 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4697729 TTTGATTGCA
4697739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4697775 GAGGATGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4705702 original size:28 final size:26
Alignment explanation
Indices: 4705645--4705702 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
4705635 CACGTCATTT
*
4705645 GATATATTATATAAAATAATTAATAT
1 GATATATTATATAAAATAATTAATAA
*
4705671 GATATCATTATTTAAAA-AATATCAATAA
1 GATAT-ATTATATAAAATAAT-T-AATAA
4705699 GATA
1 GATA
4705703 ATATCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.30
27 11 0.41
28 8 0.30
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (26 bp):
GATATATTATATAAAATAATTAATAA
Found at i:4707369 original size:14 final size:14
Alignment explanation
Indices: 4707350--4707382 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4707340 AAGTAAAAAA
4707350 AAAATTCAAAGTT-T
1 AAAATTCAAA-TTAT
4707364 AAAATTCAAATTAT
1 AAAATTCAAATTAT
4707378 AAAAT
1 AAAAT
4707383 AAATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAATTCAAATTAT
Found at i:4707459 original size:21 final size:21
Alignment explanation
Indices: 4707433--4707476 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4707423 CATTATATAT
4707433 AATTCAATATCATATGTTCAA
1 AATTCAATATCATATGTTCAA
*
4707454 AATTCAATATCATATGTTGAA
1 AATTCAATATCATATGTTCAA
4707475 AA
1 AA
4707477 AATGAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (21 bp):
AATTCAATATCATATGTTCAA
Found at i:4712947 original size:30 final size:30
Alignment explanation
Indices: 4712911--4712969 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4712901 AAACAGGGTG
*
4712911 TGAGTCATGTTAGCTTAATGGCTTAGATAT
1 TGAGTCATGTTAGCTTAATAGCTTAGATAT
4712941 TGAGTCATGTTAGCTTAATAGCTTAGATA
1 TGAGTCATGTTAGCTTAATAGCTTAGATA
4712970 CTGCTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (30 bp):
TGAGTCATGTTAGCTTAATAGCTTAGATAT
Found at i:4713125 original size:2 final size:2
Alignment explanation
Indices: 4713118--4713154 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4713108 AAGTTTGATC
4713118 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4713155 GTCATGAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4716417 original size:2 final size:2
Alignment explanation
Indices: 4716410--4716439 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4716400 TCAACCGCGC
4716410 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
4716440 GCAATTGGAA
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:4721254 original size:22 final size:22
Alignment explanation
Indices: 4721229--4721270 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4721219 TTGTCTATCC
*
4721229 TAATTTTAGGGATACAAATACT
1 TAATTTTAGAGATACAAATACT
4721251 TAATTTTAGAGATACAAATA
1 TAATTTTAGAGATACAAATA
4721271 TAAATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
TAATTTTAGAGATACAAATACT
Found at i:4725179 original size:115 final size:115
Alignment explanation
Indices: 4724977--4725202 Score: 434
Period size: 115 Copynumber: 2.0 Consensus size: 115
4724967 ATTTTGCTTC
4724977 CCAAGAAGAGCCTAAAGCTCTGATACCATGTGAAAAATCTAAGAAATAAATCAGTGTGAAAACTG
1 CCAAGAAGAGCCTAAAGCTCTGATACCATGTGAAAAATCTAAGAAATAAATCAGTGTGAAAACTG
4725042 AATGTATATTGAAAAACTGCTTATTGAGAATTATACAAGAATCTTAGGTT
66 AATGTATATTGAAAAACTGCTTATTGAGAATTATACAAGAATCTTAGGTT
*
4725092 CCAAGAATAGCCTAAAGCTCTGATACCATGTGAAAAATCTAAGAAATAAATCAGTGTGAAAACTG
1 CCAAGAAGAGCCTAAAGCTCTGATACCATGTGAAAAATCTAAGAAATAAATCAGTGTGAAAACTG
*
4725157 AATGTATATTGGAAAACTGCTTATTGAGAATTATACAAGAATCTTA
66 AATGTATATTGAAAAACTGCTTATTGAGAATTATACAAGAATCTTA
4725203 AGTTTATATA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (115 bp):
CCAAGAAGAGCCTAAAGCTCTGATACCATGTGAAAAATCTAAGAAATAAATCAGTGTGAAAACTG
AATGTATATTGAAAAACTGCTTATTGAGAATTATACAAGAATCTTAGGTT
Found at i:4725319 original size:22 final size:22
Alignment explanation
Indices: 4725288--4725329 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4725278 TTGTCTATCC
*
4725288 TAATTTTAGAGATACAAATACT
1 TAATTCTAGAGATACAAATACT
4725310 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
4725330 TAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:4735363 original size:22 final size:21
Alignment explanation
Indices: 4735338--4735405 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
4735328 ATTAAATTGC
4735338 ATAATTAATAGTAAAAATTATA
1 ATAATTAATA-TAAAAATTATA
*
4735360 ATAAATATAA-ATAAAACTT-TA
1 AT-AAT-TAATATAAAAATTATA
* *
4735381 ATTAATAAATATTAAAATTATA
1 A-TAATTAATATAAAAATTATA
4735403 ATA
1 ATA
4735406 TACTTGAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
20 2 0.05
21 15 0.41
22 13 0.35
23 4 0.11
24 3 0.08
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (21 bp):
ATAATTAATATAAAAATTATA
Found at i:4735375 original size:21 final size:22
Alignment explanation
Indices: 4735351--4735405 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
4735341 ATTAATAGTA
4735351 AAAATTATAATAAATATAA-A-T
1 AAAATTATAATAAATA-AATATT
*
4735372 AAAACTT-TAATTAATAAATATT
1 AAAA-TTATAATAAATAAATATT
4735394 AAAATTATAATA
1 AAAATTATAATA
4735406 TACTTGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.07
21 15 0.54
22 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTATAATAAATAAATATT
Found at i:4738442 original size:24 final size:26
Alignment explanation
Indices: 4738410--4738462 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
4738400 CAAACTTAAT
*
4738410 TAGCCAATG-T-TTTGGATTGTTTTG
1 TAGCCAATGTTGTTTGAATTGTTTTG
4738434 TAGCCAATGTTGTTTGAATTGTTTTG
1 TAGCCAATGTTGTTTGAATTGTTTTG
4738460 TAG
1 TAG
4738463 AGGACACCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 9 0.35
25 1 0.04
26 16 0.62
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.49
Consensus pattern (26 bp):
TAGCCAATGTTGTTTGAATTGTTTTG
Found at i:4762839 original size:2 final size:2
Alignment explanation
Indices: 4762832--4762869 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4762822 CTGAATGAGC
4762832 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4762870 TTTGCGATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4768938 original size:25 final size:24
Alignment explanation
Indices: 4768895--4768941 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
4768885 CGATTCGTAT
4768895 ATTTATAATATGTAAAATATTTAA
1 ATTTATAATATGTAAAATATTTAA
* *
4768919 ATTTATATATTTGTATAATATTT
1 ATTTATA-ATATGTAAAATATTT
4768942 CATACAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTTATAATATGTAAAATATTTAA
Found at i:4775102 original size:18 final size:18
Alignment explanation
Indices: 4775053--4775103 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
4775043 ATTAAAATTT
* * *
4775053 TAAATAGATGAACTCTAA
1 TAAATAAATGAAATTTAA
*
4775071 TAATTAAATGAAATTTAA
1 TAAATAAATGAAATTTAA
4775089 TAAATACAAT-AAATT
1 TAAATA-AATGAAATT
4775104 GAATCCTCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (18 bp):
TAAATAAATGAAATTTAA
Found at i:4781401 original size:2 final size:2
Alignment explanation
Indices: 4781396--4781434 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4781386 TGTGTGTGCC
4781396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4781435 GTGAGTGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4781500 original size:12 final size:10
Alignment explanation
Indices: 4781470--4781494 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4781460 CAAAAAAAAG
4781470 TTTTATATTT
1 TTTTATATTT
4781480 TTTTATATTT
1 TTTTATATTT
4781490 TTTTA
1 TTTTA
4781495 ACTATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATATTT
Found at i:4781840 original size:2 final size:2
Alignment explanation
Indices: 4781829--4781858 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4781819 AATCCCTCCA
4781829 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4781859 GAGGGTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4785905 original size:2 final size:2
Alignment explanation
Indices: 4785898--4785933 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4785888 TAATGGGAGC
4785898 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4785934 AACTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4802408 original size:19 final size:17
Alignment explanation
Indices: 4802381--4802419 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4802371 GAAATATTTT
4802381 ATTAATTAAAATAATAAAA
1 ATTAATT-AAAT-ATAAAA
*
4802400 ATTATTTAAATATAAAA
1 ATTAATTAAATATAAAA
4802417 ATT
1 ATT
4802420 TGATTAGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAATTAAATATAAAA
Found at i:4803714 original size:13 final size:13
Alignment explanation
Indices: 4803696--4803721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4803686 ATTCTTCAGA
4803696 AAATTTTGAAAAT
1 AAATTTTGAAAAT
4803709 AAATTTTGAAAAT
1 AAATTTTGAAAAT
4803722 TTTTTTAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATTTTGAAAAT
Found at i:4805534 original size:32 final size:33
Alignment explanation
Indices: 4805498--4805585 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
4805488 ATATAAATAG
*
4805498 ATAAATTTAAATGAAAAATTAAA-AATAATTCA
1 ATAAATTTAAATGAAAAATTAAATAACAATTCA
* **
4805530 ATAAATATGTTAAT-AAAAATTAAATTAACAATTTG
1 ATAAAT-T-TAAATGAAAAATTAAA-TAACAATTCA
* *
4805565 ACAAAGTTAAATGAAAAATTA
1 ATAAATTTAAATGAAAAATTA
4805586 TTAAAAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
32 6 0.14
33 15 0.34
34 13 0.30
35 10 0.23
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (33 bp):
ATAAATTTAAATGAAAAATTAAATAACAATTCA
Found at i:4810684 original size:3 final size:3
Alignment explanation
Indices: 4810676--4810700 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4810666 TCAATAAAAA
4810676 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4810701 TGATGGATTG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4811023 original size:23 final size:21
Alignment explanation
Indices: 4810994--4811045 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 21
4810984 TTATTATATT
4810994 TTAATAATTATCTA-AATAATTAA
1 TTAATAATTA-CTATAAT--TTAA
4811017 TTAATAA--ACTATAATTTAA
1 TTAATAATTACTATAATTTAA
4811036 TTAATAATTA
1 TTAATAATTA
4811046 ATAATTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 5 0.19
23 7 0.27
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAATAATTACTATAATTTAA
Found at i:4811049 original size:19 final size:20
Alignment explanation
Indices: 4811008--4811051 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
4810998 TAATTATCTA
4811008 AATAA-TTAATTAATAAACT
1 AATAATTTAATTAATAAACT
*
4811027 -ATAATTTAATTAAT-AATT
1 AATAATTTAATTAATAAACT
4811045 AATAATT
1 AATAATT
4811052 ATCAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATTTAATTAATAAACT
Found at i:4811812 original size:6 final size:6
Alignment explanation
Indices: 4811796--4811836 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
4811786 AAATATTTAA
4811796 TAAATTT TAAATT TAAATT TAAATT TAACATT TACAATT TA
1 TAAA-TT TAAATT TAAATT TAAATT TAA-ATT TA-AATT TA
4811837 TTTACAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 17 0.53
7 14 0.44
8 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:4818807 original size:16 final size:18
Alignment explanation
Indices: 4818782--4818819 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
4818772 AATAAAAATT
*
4818782 AAAAATTTAAAAT-TAAA
1 AAAAATTAAAAATATAAA
4818799 AAAAATTAAAAATATAAA
1 AAAAATTAAAAATATAAA
4818817 AAA
1 AAA
4818820 GCGAAAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAAATATAAA
Found at i:4820148 original size:19 final size:19
Alignment explanation
Indices: 4820110--4820163 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
4820100 AAAGTAAAAA
*
4820110 AAAATATAAAATATAATTTT
1 AAAATATAAAA-AAAATTTT
4820130 AAAATATAAAAAAAATTTT
1 AAAATATAAAAAAAATTTT
*
4820149 AGAATATAAAAAAAA
1 AAAATATAAAAAAAA
4820164 AAAGGAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATATAAAAAAAATTTT
Found at i:4821170 original size:20 final size:20
Alignment explanation
Indices: 4821145--4821182 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4821135 AAATTATTTT
*
4821145 ATATTTAATAATTATATATC
1 ATATTTAATAAGTATATATC
4821165 ATATTTAATAAGTATATA
1 ATATTTAATAAGTATATA
4821183 ATTTACTATA
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:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATTTAATAAGTATATATC
Found at i:4823063 original size:30 final size:30
Alignment explanation
Indices: 4823028--4823188 Score: 92
Period size: 30 Copynumber: 5.3 Consensus size: 30
4823018 GGTTGCTGGA
*
4823028 GGAGGAGTTGCCGGGGGAGGAGTAGCGGGT
1 GGAGGAGTAGCCGGGGGAGGAGTAGCGGGT
* * * * * *
4823058 GGAGGAGAAGCAGGTGGTGGAGTGGCGGGA
1 GGAGGAGTAGCCGGGGGAGGAGTAGCGGGT
* * * * *
4823088 GGTGGAGAAGCCGGTGGAGGAGTGGCGGGA
1 GGAGGAGTAGCCGGGGGAGGAGTAGCGGGT
* * *
4823118 GGTGGAGTAGCTGGTGGTG-GCGAGCTAACGGGT
1 GGAGGAGTAGCCGG-GG-GAG-GAG-TAGCGGGT
* * * *
4823151 GGGGGAGTTGCTGGAGGAGGAG-AGCTGGGT
1 GGAGGAGTAGCCGGGGGAGGAGTAGC-GGGT
4823181 GGAGGAGT
1 GGAGGAGT
4823189 TGAAACCGGT
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
29 2 0.02
30 73 0.70
31 6 0.06
32 6 0.06
33 17 0.16
ACGTcount: A:0.19, C:0.09, G:0.58, T:0.14
Consensus pattern (30 bp):
GGAGGAGTAGCCGGGGGAGGAGTAGCGGGT
Found at i:4823136 original size:15 final size:15
Alignment explanation
Indices: 4823046--4823137 Score: 85
Period size: 15 Copynumber: 6.1 Consensus size: 15
4823036 TGCCGGGGGA
*
4823046 GGAGTAGCGGGTGGA
1 GGAGTAGCGGGTGGT
* *
4823061 GGAGAAGCAGGTGGT
1 GGAGTAGCGGGTGGT
* *
4823076 GGAGTGGCGGGAGGT
1 GGAGTAGCGGGTGGT
* * *
4823091 GGAGAAGCCGGTGGA
1 GGAGTAGCGGGTGGT
* *
4823106 GGAGTGGCGGGAGGT
1 GGAGTAGCGGGTGGT
*
4823121 GGAGTAGCTGGTGGT
1 GGAGTAGCGGGTGGT
4823136 GG
1 GG
4823138 CGAGCTAACG
Statistics
Matches: 57, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.18, C:0.08, G:0.60, T:0.14
Consensus pattern (15 bp):
GGAGTAGCGGGTGGT
Found at i:4827819 original size:2 final size:2
Alignment explanation
Indices: 4827812--4827844 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4827802 TTGTTGAGTA
4827812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4827845 ATACGAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4828642 original size:9 final size:9
Alignment explanation
Indices: 4828628--4828656 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4828618 AGCCAAATCC
4828628 TCGTCTTCT
1 TCGTCTTCT
4828637 TCGTCTTCT
1 TCGTCTTCT
4828646 TCGTCTTCT
1 TCGTCTTCT
4828655 TC
1 TC
4828657 TATGCGTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.34, G:0.10, T:0.55
Consensus pattern (9 bp):
TCGTCTTCT
Found at i:4829892 original size:42 final size:42
Alignment explanation
Indices: 4829833--4829913 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
4829823 ATATGTACTC
4829833 GTGCTCTGAATCTTACCAACACGGTAACCTGTAAATAACCAA
1 GTGCTCTGAATCTTACCAACACGGTAACCTGTAAATAACCAA
* * * *
4829875 GTGCTCTGAATTTTACCAACATGTTAACCTGTAACTAAC
1 GTGCTCTGAATCTTACCAACACGGTAACCTGTAAATAAC
4829914 TTGGTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
GTGCTCTGAATCTTACCAACACGGTAACCTGTAAATAACCAA
Found at i:4841787 original size:6 final size:6
Alignment explanation
Indices: 4841778--4841805 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4841768 AAAGACAAAA
4841778 GGCAGG GGCAGG GGCAGG GGCAGG GGCA
1 GGCAGG GGCAGG GGCAGG GGCAGG GGCA
4841806 CACAAATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.64, T:0.00
Consensus pattern (6 bp):
GGCAGG
Found at i:4844434 original size:34 final size:34
Alignment explanation
Indices: 4844385--4844449 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
4844375 GGACTTGGAA
*
4844385 GTCCACTACTTAATGCAAGACACAACATAAATAT
1 GTCCACTACTGAATGCAAGACACAACATAAATAT
* **
4844419 GTCCATTACTGAATGCCGGACACAACATAAA
1 GTCCACTACTGAATGCAAGACACAACATAAA
4844450 CAAAAAACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.22
Consensus pattern (34 bp):
GTCCACTACTGAATGCAAGACACAACATAAATAT
Found at i:4846907 original size:21 final size:20
Alignment explanation
Indices: 4846856--4846907 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
4846846 ACCATAGATT
*
4846856 TTAATCTCACTACTATAATA
1 TTAATCTCACTACTACAATA
* * *
4846876 TCCAATATCACTACTACAGTAA
1 T-TAATCTCACTACTACAAT-A
4846898 TTAATCTCAC
1 TTAATCTCAC
4846908 CTCTATTGAT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAATCTCACTACTACAATA
Found at i:4853081 original size:2 final size:2
Alignment explanation
Indices: 4853074--4853100 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4853064 CGTTTACATG
4853074 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
4853101 TTTCTTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4867973 original size:16 final size:16
Alignment explanation
Indices: 4867952--4867982 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4867942 TTTTGTATTC
*
4867952 TATAATTATTTTAAAT
1 TATAATTAATTTAAAT
4867968 TATAATTAATTTAAA
1 TATAATTAATTTAAA
4867983 ATAAAATCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAATTAATTTAAAT
Found at i:4869045 original size:15 final size:15
Alignment explanation
Indices: 4869025--4869076 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
4869015 AGTTTATTAA
4869025 TATTTATTTAAAATT
1 TATTTATTTAAAATT
4869040 TATTTATTT-AAATT
1 TATTTATTTAAAATT
* *
4869054 TATTTAATTATAATT
1 TATTTATTTAAAATT
4869069 TATTTATT
1 TATTTATT
4869077 GTTCATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 13 0.39
15 20 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTTAAAATT
Found at i:4869069 original size:25 final size:25
Alignment explanation
Indices: 4869017--4869074 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
4869007 TTTGTTTGAG
4869017 TTTA-TTAATATTTATTTAAAATTTA
1 TTTATTTAATATTTATTT-AAATTTA
4869042 TTTATTTAA-ATTTATTT-AATTATAA
1 TTTATTTAATATTTATTTAAATT-T-A
4869067 TTTATTTA
1 TTTATTTA
4869075 TTGTTCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.13
24 1 0.03
25 21 0.70
26 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATTTAATATTTATTTAAATTTA
Found at i:4870900 original size:2 final size:2
Alignment explanation
Indices: 4870893--4870918 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4870883 ACTGTTATCT
4870893 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4870919 ATTTTCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4878292 original size:12 final size:12
Alignment explanation
Indices: 4878275--4878305 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4878265 TCTCCTTCTC
4878275 CTTCTTCCACTT
1 CTTCTTCCACTT
*
4878287 CTTCTTCCTCTT
1 CTTCTTCCACTT
4878299 CTTCTTC
1 CTTCTTC
4878306 AGCAGCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (12 bp):
CTTCTTCCACTT
Found at i:4882181 original size:16 final size:18
Alignment explanation
Indices: 4882160--4882200 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
4882150 GGAAGACAAG
4882160 AAGAAAACAAGCAAA-T-
1 AAGAAAACAAGCAAAGTC
* *
4882176 AAGAAATCAAGGAAAGTC
1 AAGAAAACAAGCAAAGTC
4882194 AAGAAAA
1 AAGAAAA
4882201 GATAGTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 13 0.65
17 1 0.05
18 6 0.30
ACGTcount: A:0.66, C:0.10, G:0.17, T:0.07
Consensus pattern (18 bp):
AAGAAAACAAGCAAAGTC
Found at i:4890023 original size:6 final size:6
Alignment explanation
Indices: 4890012--4890092 Score: 64
Period size: 6 Copynumber: 14.2 Consensus size: 6
4890002 CGATATAATA
*
4890012 TTAAAT TTAAAT TT-AAT TT-AAT TT-AAT TT-AAT TTAAAT TTAATTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA-AT
* * * * *
4890057 TTTAAT TTAAA- TTCAAT TTAAAA TAAAAA TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
4890093 ATTCAAGCGT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
5 24 0.39
6 34 0.55
7 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:4890029 original size:5 final size:5
Alignment explanation
Indices: 4890015--4890077 Score: 76
Period size: 5 Copynumber: 12.4 Consensus size: 5
4890005 TATAATATTA
4890015 AATTT AAATTT AATTT AATTT AATTT AATTT AAATTT AATTT --TTT AATTT
1 AATTT -AATTT AATTT AATTT AATTT AATTT -AATTT AATTT AATTT AATTT
*
4890065 AAATTC AATTT AA
1 -AATTT AATTT AA
4890078 AATAAAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
3 3 0.06
5 34 0.67
6 14 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:4890031 original size:11 final size:11
Alignment explanation
Indices: 4890007--4890078 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
4889997 TGAATCGATA
4890007 TAATATTAAATT
1 TAAT-TTAAATT
4890019 TAAATTT-AATT
1 T-AATTTAAATT
4890030 TAATTT-AATT
1 TAATTTAAATT
4890040 TAATTTAAATT
1 TAATTTAAATT
4890051 TAATTT---TT
1 TAATTTAAATT
4890059 TAATTTAAATT
1 TAATTTAAATT
*
4890070 CAATTTAAA
1 TAATTTAAA
4890079 ATAAAAATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
8 8 0.15
10 15 0.28
11 25 0.46
12 3 0.06
13 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATTTAAATT
Found at i:4890062 original size:19 final size:20
Alignment explanation
Indices: 4890016--4890076 Score: 81
Period size: 19 Copynumber: 3.0 Consensus size: 20
4890006 ATAATATTAA
4890016 ATTTAAATTT-AATTTAATTT
1 ATTT-AATTTAAATTTAATTT
4890036 AATTTAATTTAAATTTAATTT
1 -ATTTAATTTAAATTTAATTT
*
4890057 -TTTAATTTAAATTCAATTT
1 ATTTAATTTAAATTTAATTT
4890076 A
1 A
4890077 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 18 0.49
20 5 0.14
21 14 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAATTTAAATTTAATTT
Found at i:4890344 original size:33 final size:33
Alignment explanation
Indices: 4890276--4890362 Score: 85
Period size: 32 Copynumber: 2.7 Consensus size: 33
4890266 CAAATCATAT
* *
4890276 ATAAAATTACTT-AAA-TTAAATTCTATCAATAA
1 ATAAAATTA-TTCAAATTTAAATTCGATAAATAA
4890308 ATAAAATTATTCAAATTTAAATTCGAT---TAA
1 ATAAAATTATTCAAATTTAAATTCGATAAATAA
*
4890338 ATAATAATTAAATCAAATTTAAATT
1 ATAA-AATT-ATTCAAATTTAAATT
4890363 TTATCTCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.14
31 6 0.12
32 26 0.53
33 10 0.20
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (33 bp):
ATAAAATTATTCAAATTTAAATTCGATAAATAA
Found at i:4899063 original size:16 final size:17
Alignment explanation
Indices: 4899042--4899084 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
4899032 TTTTATTATT
4899042 TTTTAAAAATTTTA-AA
1 TTTTAAAAATTTTATAA
*
4899058 TTTTAAAATTTTTATAA
1 TTTTAAAAATTTTATAA
4899075 -TTTAAAAATT
1 TTTTAAAAATT
4899085 ACAAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAAAAATTTTATAA
Found at i:4899337 original size:25 final size:26
Alignment explanation
Indices: 4899308--4899358 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4899298 GATAAAATAA
*
4899308 TAAATGT-AATTTTTTTTTATAAATT
1 TAAATGTAAATTTTTTATTATAAATT
* *
4899333 TAAATTTAAATTTTTTATTATCAATT
1 TAAATGTAAATTTTTTATTATAAATT
4899359 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TAAATGTAAATTTTTTATTATAAATT
Found at i:4905487 original size:22 final size:24
Alignment explanation
Indices: 4905453--4905507 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
4905443 TATTTATTGT
*
4905453 TTAAATTTATCATCTA-AT-AAAA
1 TTAATTTTATCATCTATATAAAAA
* *
4905475 TTAATTTTTTCATTTATATAAAAA
1 TTAATTTTATCATCTATATAAAAA
4905499 TTAATTTTA
1 TTAATTTTA
4905508 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 13 0.48
23 2 0.07
24 12 0.44
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAATTTTATCATCTATATAAAAA
Found at i:4905524 original size:25 final size:25
Alignment explanation
Indices: 4905490--4905537 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4905480 TTTTTCATTT
4905490 ATATAAAAATTA-ATTTTAATTTAAA
1 ATATAAAAATTATATTTT-ATTTAAA
*
4905515 ATATACAAATTATATTTTATTTA
1 ATATAAAAATTATATTTTATTTA
4905538 TTTTTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATAAAAATTATATTTTATTTAAA
Found at i:4907261 original size:2 final size:2
Alignment explanation
Indices: 4907256--4907286 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4907246 ATATATATAT
4907256 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4907287 CCATGAAATG
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4915937 original size:41 final size:41
Alignment explanation
Indices: 4915891--4915974 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
4915881 AGTGGCTTTG
* *
4915891 AATTTAAAATTTAACTA-AATTTACTCATGTATTTATTTTTA
1 AATTTAAAATTTAACTAGAA-TCACTAATGTATTTATTTTTA
* *
4915932 AATTTAAAATTTAATTAGGATCACTAATGTATTTATTTTTA
1 AATTTAAAATTTAACTAGAATCACTAATGTATTTATTTTTA
4915973 AA
1 AA
4915975 ATATAACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (41 bp):
AATTTAAAATTTAACTAGAATCACTAATGTATTTATTTTTA
Found at i:4917444 original size:18 final size:19
Alignment explanation
Indices: 4917404--4917454 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
4917394 TATAGAAATT
*
4917404 AAAT-TATATAGATATTATC
1 AAATATATATA-AAATTATC
* *
4917423 AAATTTAT-TAAAATTATT
1 AAATATATATAAAATTATC
4917441 AAATATATATAAAA
1 AAATATATATAAAA
4917455 AGATTGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.48
19 11 0.41
20 3 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATATATATAAAATTATC
Found at i:4923321 original size:2 final size:2
Alignment explanation
Indices: 4923314--4923348 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4923304 GATAAAGGTG
4923314 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4923349 CATGCTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4923682 original size:2 final size:2
Alignment explanation
Indices: 4923675--4923701 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4923665 TTTAATATTT
4923675 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4923702 TCCAATCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4925975 original size:2 final size:2
Alignment explanation
Indices: 4925931--4925957 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4925921 TCATCCCTCC
4925931 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4925958 CCACATAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4931457 original size:103 final size:104
Alignment explanation
Indices: 4931272--4931484 Score: 374
Period size: 103 Copynumber: 2.0 Consensus size: 104
4931262 GTTGCTGTAA
*
4931272 GTTATTTTTTTTGGGTTAATTATTGGATCTGAACTGAGTTGTTCAAGTCATGTTAAGCTTTGCTT
1 GTTA-TTTTTTTGCGTTAATTATTGGATCTGAACTGAGTTGTTCAAGTCATGTTAAGCTTTGCTT
4931337 GCTTGTATGTGTCAATTCCAGATTGTTAGTTGTTTGTTTT
65 GCTTGTATGTGTCAATTCCAGATTGTTAGTTGTTTGTTTT
*
4931377 GTTATTTTTTT-CGTTAATTTTTGGATCTGAACTGAGTTGTTCAAGTCATGTTAAGCTTTGCTTG
1 GTTATTTTTTTGCGTTAATTATTGGATCTGAACTGAGTTGTTCAAGTCATGTTAAGCTTTGCTTG
*
4931441 TTTGTATGTGTCAATTCCAGATTGTTAGTTGTTTGTTTT
66 CTTGTATGTGTCAATTCCAGATTGTTAGTTGTTTGTTTT
*
4931480 CTTAT
1 GTTAT
4931485 CTTGGGTATT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
103 93 0.89
104 7 0.07
105 4 0.04
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.52
Consensus pattern (104 bp):
GTTATTTTTTTGCGTTAATTATTGGATCTGAACTGAGTTGTTCAAGTCATGTTAAGCTTTGCTTG
CTTGTATGTGTCAATTCCAGATTGTTAGTTGTTTGTTTT
Found at i:4934388 original size:125 final size:125
Alignment explanation
Indices: 4934195--4934473 Score: 289
Period size: 125 Copynumber: 2.2 Consensus size: 125
4934185 TTTTATGAAG
* ** * * * ** *
4934195 GGATTATTCAAGGTATTTTTGATAAAAAATACTTTTTATAATCCCCTTCAATTTTTATAATGGGA
1 GGATTATTAAAGGCGTTTCTGATAAAAAATGCATTGAATAATCCCCTTCAATTTTTATAATGGAA
* *
4934260 TTATTCAAAACA-TTTTTGCTCAAAAAATACATTGAATAATCCT-TTACAAAAGTTTGAAT-
66 TTATTCAAAACATTTTTTGCT-AAAAAACACATTGAAT-ATCCTCTTAAAAAAGTTTGAATA
* *
4934319 GAGATTATTAAAGGCGTTTCTGGTAAAAAATGCATTGAATAATCTCCTTCAATTTTTCA-AA-GT
1 G-GATTATTAAAGGCGTTTCTGATAAAAAATGCATTGAATAATCCCCTTCAATTTTT-ATAATG-
** * * * * *
4934382 GAATTATTCAATGCATTTTTTGCTAGAAAACACTTTTAATATTCTCTTAAAAAATTTTGAATA
63 GAATTATTCAAAACATTTTTTGCTAAAAAACACATTGAATATCCTCTTAAAAAAGTTTGAATA
*
4934445 GGGTTATTAAAGGCGTTTCTGATAAAAAA
1 GGATTATTAAAGGCGTTTCTGATAAAAAA
4934474 AAATACCTTT
Statistics
Matches: 127, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
124 6 0.05
125 111 0.87
126 10 0.08
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.39
Consensus pattern (125 bp):
GGATTATTAAAGGCGTTTCTGATAAAAAATGCATTGAATAATCCCCTTCAATTTTTATAATGGAA
TTATTCAAAACATTTTTTGCTAAAAAACACATTGAATATCCTCTTAAAAAAGTTTGAATA
Found at i:4938105 original size:116 final size:114
Alignment explanation
Indices: 4937944--4938299 Score: 529
Period size: 116 Copynumber: 3.1 Consensus size: 114
4937934 TTGAAAAATT
*
4937944 AATTTTTCTTAAAAATAAATTTTTAAAAAAAGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTT
1 AATTTTTCTTAAAAATAAATTTTAAAAAAAAGATTTTTGA-GAAAAGTTGAAAGTATCAATTTTT
4938008 CTCGAAAATAAAAGTTTCCAAAAAATATTTTTGGAGAAAAATTGAAAGTATC
65 CTCGAAAATAAAAGTTT-CAAAAAATATTTTTGGA-AAAAATTGAAAGTATC
*
4938060 AATTTTTCTTAAAAATAAA-TTTAAAAAAAAGATTTTTGAGAAAAAGTTGAAAATATCAATTTTT
1 AATTTTTCTTAAAAATAAATTTTAAAAAAAAGATTTTTGAG-AAAAGTTGAAAGTATCAATTTTT
* *
4938124 CTTGAAATTAAAAGTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATC
65 CTCGAAAATAAAAGTTTCAAAAAATATTTTTGGAAAAAA-TTGAAAGTATC
*
4938175 AATTTTTCTTAAAAATAAATTTTAAAAAAATAAATTTTTGATGAAAAGTTGAAAGTATCAATTTT
1 AATTTTTCTTAAAAATAAATTTTAAAAAAA-AGATTTTTGA-GAAAAGTTGAAAGTATCAATTTT
* * * *
4938240 CCTCG-AAATTAAAGTTTCAAATGAATATTTTTAGGAAAAAGTTGAAAGTATC
64 TCTCGAAAATAAAAGTTTCAAA-AAATATTTTT-GGAAAAAATTGAAAGTATC
4938292 AATTTTTC
1 AATTTTTC
4938300 CTGCATAAAA
Statistics
Matches: 220, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
114 5 0.02
115 60 0.27
116 86 0.39
117 61 0.28
118 8 0.04
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (114 bp):
AATTTTTCTTAAAAATAAATTTTAAAAAAAAGATTTTTGAGAAAAGTTGAAAGTATCAATTTTTC
TCGAAAATAAAAGTTTCAAAAAATATTTTTGGAAAAAATTGAAAGTATC
Found at i:4938169 original size:58 final size:57
Alignment explanation
Indices: 4937897--4938299 Score: 408
Period size: 58 Copynumber: 7.0 Consensus size: 57
4937887 TTTCCTACAA
* * * * * *
4937897 AAAAATAAA-TTAAAAAAAAAAGGTTTGTGAGGAAAAGTTGAAA-AATTAATTTTTCTT
1 AAAAATAAAGTTTAAAAAAATA--TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT
* * * *
4937954 AAAAATAAATTTTTAAAAAAAGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTC
1 AAAAATAAA-GTTTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT
* *
4938011 GAAAATAAAAGTTTCCAAAAAATATTTTTGGAGAAAAA-TTGAAAGTATCAATTTTTCTT
1 AAAAAT-AAAGTTT-AAAAAAATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTTCTT
* *
4938070 AAAAATAAA-TTTAAAAAAAAGATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTT
1 AAAAATAAAGTTT-AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT
* * *
4938127 GAAATTAAAAGTTTCAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAT-AAAGTTTAAAAAAATATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTTCTT
* * *
4938185 AAAAATAAATTTTAAAAAAATAAATTTTTGATG-AAAAGTTGAAAGTATCAATTTTCCTC
1 AAAAATAAAGTTTAAAAAAAT--ATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTT
* * **
4938244 GAAATTAAAGTTTCAAATGAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAATAAAGTTT-AAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTC
4938300 CTGCATAAAA
Statistics
Matches: 294, Mismatches: 35, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
56 26 0.09
57 83 0.28
58 88 0.30
59 83 0.28
60 13 0.04
61 1 0.00
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (57 bp):
AAAAATAAAGTTTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:4944445 original size:14 final size:14
Alignment explanation
Indices: 4944426--4944453 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4944416 AATCATGATC
4944426 TATAACTCCTTTGG
1 TATAACTCCTTTGG
4944440 TATAACTCCTTTGG
1 TATAACTCCTTTGG
4944454 ACATGATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
TATAACTCCTTTGG
Found at i:4944540 original size:42 final size:41
Alignment explanation
Indices: 4944494--4944595 Score: 177
Period size: 42 Copynumber: 2.5 Consensus size: 41
4944484 AAAGTTTCGT
4944494 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
*
4944536 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
4944577 AGCCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
4944596 TTTGAAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 27 0.47
42 31 0.53
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:4944583 original size:41 final size:41
Alignment explanation
Indices: 4944466--4944595 Score: 176
Period size: 42 Copynumber: 3.1 Consensus size: 41
4944456 ATGATTGTCA
* *
4944466 AGGAGCCATTTA-TTTTCTAAAGTTTCGTT-GCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG--TCGTTGGCCTCTGTTTAG
*
4944507 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTTG-GCCTCTGTTTAG
4944549 AGGAGCAATTTACTTTTC-AAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTTG-GCCTCTGTTTAG
4944590 AGGAGC
1 AGGAGC
4944596 TTTGAAAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.05
41 38 0.47
42 39 0.48
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTTGGCCTCTGTTTAG
Found at i:4944796 original size:103 final size:103
Alignment explanation
Indices: 4944621--4944858 Score: 281
Period size: 103 Copynumber: 2.3 Consensus size: 103
4944611 AACAAAAACA
*
4944621 AAATTTAAATAAAAAAA-TAAAAAAAAACAAAAAAATTACCTCTGTTTAAGGGAGCTTTGTTTAT
1 AAATTTAAA-AAAAAAAGTAAAAAAAAACAAAAAAATTACCTCTGTTTAAAGGAGC----TTTAT
*
4944685 GTTTCTCAAAATCGTTAAGCCTT-TGTTTAGAGGAGCTTTGATC
61 GTTTCTCAAAATCGTTAAG-CTTCTGCTTAGAGGAGCTTTGATC
4944728 -AATTTAAAAAAAAAAGTAAAAAAACAA-AAAAAAAGTTGAGCCTCTGTTTAAAGGAGC-TT-TG
1 AAATTTAAAAAAAAAAGTAAAAAAA-AACAAAAAAA-TT-A-CCTCTGTTTAAAGGAGCTTTATG
* *
4944789 TTTCTCAAAGTCGTTGAGCTTCTGCTTAGAGGAGCTTTGATC
62 TTTCTCAAAATCGTTAAGCTTCTGCTTAGAGGAGCTTTGATC
* *
4944831 AAAATTAAAAAAAAAAAGTAAAACAAAA
1 -AAATTTAAAAAAAAAAGTAAAAAAAAA
4944859 TAGGTAAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 19
0.82 0.04 0.13
Matches are distributed among these distances:
102 3 0.03
103 37 0.32
104 4 0.03
105 29 0.25
106 23 0.20
107 4 0.03
108 1 0.01
109 16 0.14
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (103 bp):
AAATTTAAAAAAAAAAGTAAAAAAAAACAAAAAAATTACCTCTGTTTAAAGGAGCTTTATGTTTC
TCAAAATCGTTAAGCTTCTGCTTAGAGGAGCTTTGATC
Found at i:4944872 original size:14 final size:13
Alignment explanation
Indices: 4944831--4944874 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4944821 AGCTTTGATC
*
4944831 AAAATTAAAAAAA
1 AAAAGTAAAAAAA
4944844 AAAAGTAAAACAAA
1 AAAAGTAAAA-AAA
* *
4944858 ATAGGTAAAAAAA
1 AAAAGTAAAAAAA
4944871 AAAA
1 AAAA
4944875 CTGGTTGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAAGTAAAAAAA
Found at i:4947505 original size:116 final size:114
Alignment explanation
Indices: 4947245--4947515 Score: 427
Period size: 116 Copynumber: 2.4 Consensus size: 114
4947235 ATTTTCAAAA
* * * * *
4947245 AAAAAAAAGTTTTTGAGGAAAAGTTCAAAATATCAATTTTCTTAAAAATAAATTTTTAAAAAATA
1 AAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTTAAAAAAATA
*
4947310 TTTTTGAGGAAAAGTTGAAATTATCAATTTTCCTCGAAATTAAAAGTTTC
65 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
4947360 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCATTAAAAATAAATTTTAAAAAAATA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC-TTAAAAATAAATTTTAAAAAAAT-
*
4947425 AATTTTTGAGGAAAAGTTGAAAGTCTCAATTTTCCTCGAAATT-AAAGTTTC
64 -ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
*
4947476 AAAAGATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
4947516 CCTGCACAAA
Statistics
Matches: 145, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
114 29 0.20
115 29 0.20
116 47 0.32
117 40 0.28
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (114 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTTAAAAAAATAT
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
Found at i:4947511 original size:57 final size:57
Alignment explanation
Indices: 4947245--4947516 Score: 330
Period size: 57 Copynumber: 4.7 Consensus size: 57
4947235 ATTTTCAAAA
* * * * * *
4947245 AAAAAAAAGTTTTTGAGGAAAAGTTCAAAATATCAATTTT-CTTAAAAATAAATTTTT
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
* * *
4947302 AAAAAATATTTTTGAGGAAAAGTTGAAATTATCAATTTTCCTCGAAATTAAAAGTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAAGTTTC
* * * * *
4947360 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCATTAAAAATAAATTTTA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
* * *
4947417 AAAAAATAAATTTTTGAGGAAAAGTTGAAAGTCTCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
* *
4947476 AAAAGATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
4947517 CTGCACAAAA
Statistics
Matches: 184, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
56 29 0.16
57 58 0.32
58 49 0.27
59 48 0.26
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
Found at i:4953664 original size:33 final size:33
Alignment explanation
Indices: 4953627--4953692 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4953617 AAAAAGACAT
4953627 GGAATAAAGCATTCTATATATACACACATCATA
1 GGAATAAAGCATTCTATATATACACACATCATA
4953660 GGAATAAAGCATTCTATATATACACACATCATA
1 GGAATAAAGCATTCTATATATACACACATCATA
4953693 TTTGATAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (33 bp):
GGAATAAAGCATTCTATATATACACACATCATA
Found at i:4955475 original size:14 final size:15
Alignment explanation
Indices: 4955453--4955500 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
4955443 CATGAATGTG
* *
4955453 TATATATATATT-TT
1 TATAAATATATTAAT
4955467 TATAAATATATTAAT
1 TATAAATATATTAAT
4955482 TA-AAATATATTAAT
1 TATAAATATATTAAT
4955496 T-TAAA
1 TATAAA
4955501 ATTTATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 27 0.90
15 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATAAATATATTAAT
Found at i:4955501 original size:15 final size:15
Alignment explanation
Indices: 4955465--4955502 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
4955455 TATATATATT
4955465 TTTATAAATATATTAA
1 TTTA-AAATATATTAA
4955481 -TTAAAATATATTAA
1 TTTAAAATATATTAA
4955495 TTTAAAAT
1 TTTAAAAT
4955503 TTATGAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAAATATATTAA
Found at i:4968960 original size:21 final size:20
Alignment explanation
Indices: 4968935--4968973 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4968925 TTGATTGGTA
*
4968935 AAAATATAATATTTTATTTAT
1 AAAAT-TAATATTTGATTTAT
*
4968956 AAAATTTATATTTGATTT
1 AAAATTAATATTTGATTT
4968974 TTATTGTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AAAATTAATATTTGATTTAT
Found at i:4970340 original size:10 final size:11
Alignment explanation
Indices: 4970304--4970335 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4970294 ATGATATAAT
4970304 ATAAAAATTTA
1 ATAAAAATTTA
4970315 ATAAAAATTTA
1 ATAAAAATTTA
4970326 ATAAAAATTT
1 ATAAAAATTT
4970336 GTAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAAAAATTTA
Found at i:4975999 original size:3 final size:3
Alignment explanation
Indices: 4975991--4976023 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4975981 TTTTAAATCT
4975991 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4976024 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4976434 original size:30 final size:30
Alignment explanation
Indices: 4976400--4976456 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4976390 AATTATTTTT
*
4976400 TAATTA-ATTATTTAATTATATATATTTATA
1 TAATTATATT-TTTAAATATATATATTTATA
*
4976430 TAATTATATTTTTAAATATTTATATTT
1 TAATTATATTTTTAAATATATATATTT
4976457 TAAAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TAATTATATTTTTAAATATATATATTTATA
Found at i:4976443 original size:16 final size:16
Alignment explanation
Indices: 4976407--4976457 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
4976397 TTTTAATTAA
*
4976407 TTATTTAATTATATATAT
1 TTATATAATTATAT-T-T
4976425 TTATATAATTATATTT
1 TTATATAATTATATTT
* *
4976441 TTAAATATTTATATTT
1 TTATATAATTATATTT
4976457 T
1 T
4976458 AAAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 16 0.53
17 1 0.03
18 13 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATAATTATATTT
Found at i:4976474 original size:21 final size:21
Alignment explanation
Indices: 4976444--4976494 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4976434 TATATTTTTA
**
4976444 AATA-TTTATATTTTAAAAAT
1 AATATTTTATATTAAAAAAAT
4976464 AATATTTTATATTAAAAAAAT
1 AATATTTTATATTAAAAAAAT
4976485 AATATTTTAT
1 AATATTTTAT
4976495 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTAAAAAAAT
Found at i:4977114 original size:19 final size:19
Alignment explanation
Indices: 4977090--4977131 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4977080 TATTTTATTA
*
4977090 ATTAAAATAATTAAAATTT-
1 ATTAAAAT-ATAAAAATTTG
4977109 ATTAAAATATAAAAATTTG
1 ATTAAAATATAAAAATTTG
4977128 ATTA
1 ATTA
4977132 GACTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAAATATAAAAATTTG
Found at i:4977773 original size:10 final size:10
Alignment explanation
Indices: 4977749--4977778 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4977739 TATTTTATCA
4977749 ATTAAAATA-
1 ATTAAAATAT
4977758 ATTAAAATAT
1 ATTAAAATAT
4977768 ATTAAAATAT
1 ATTAAAATAT
4977778 A
1 A
4977779 AAAATTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:4977904 original size:22 final size:22
Alignment explanation
Indices: 4977879--4977928 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
4977869 TCAATAATAA
4977879 TCAAATAAAATTTAAATTTTAT
1 TCAAATAAAATTTAAATTTTAT
4977901 TCAAATAAAATTTAAATTTTAT
1 TCAAATAAAATTTAAATTTTAT
*
4977923 TAAAAT
1 TCAAAT
4977929 CAAACTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAAATAAAATTTAAATTTTAT
Found at i:4978594 original size:18 final size:18
Alignment explanation
Indices: 4978558--4978613 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
4978548 AATATTATTT
*
4978558 TTTAAATATAA-ATATAAA
1 TTTAAATA-AATATAAAAA
4978576 TTTAAATAAATATAAAAA
1 TTTAAATAAATATAAAAA
*
4978594 TGTAAAATTAAATA-AAAAA
1 T-TTAAA-TAAATATAAAAA
4978613 T
1 T
4978614 AAAAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 2 0.06
18 15 0.45
19 10 0.30
20 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TTTAAATAAATATAAAAA
Found at i:4978599 original size:24 final size:24
Alignment explanation
Indices: 4978560--4978621 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
4978550 TATTATTTTT
*
4978560 TAAATAT--AAATATAAATTTAAA
1 TAAATATAAAAATATAAAATTAAA
*
4978582 TAAATATAAAAATGTAAAATTAAA
1 TAAATATAAAAATATAAAATTAAA
*
4978606 TAAAAAATAAAAATAT
1 T-AAATATAAAAATAT
4978622 TAATATATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 7 0.21
24 14 0.42
25 12 0.36
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
TAAATATAAAAATATAAAATTAAA
Found at i:4978623 original size:20 final size:20
Alignment explanation
Indices: 4978559--4978630 Score: 58
Period size: 22 Copynumber: 3.5 Consensus size: 20
4978549 ATATTATTTT
*
4978559 TTAAATATAAATATAAATTTAAA
1 TTAAATATAAAAATAAA---AAA
**
4978582 -TAAATATAAAAATGTAAAA
1 TTAAATATAAAAATAAAAAA
4978601 TTAAATA-AAAAATAAAAATA
1 TTAAATATAAAAATAAAAA-A
4978621 TTAATATATA
1 TTAA-ATATA
4978631 CATATATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 12 0.30
20 11 0.28
21 3 0.08
22 14 0.35
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (20 bp):
TTAAATATAAAAATAAAAAA
Found at i:4980847 original size:17 final size:17
Alignment explanation
Indices: 4980825--4980857 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4980815 AAGGCAGAAG
4980825 AATCC-AAGATTGAATGC
1 AATCCAAAG-TTGAATGC
4980842 AATCCAAAGTTGAATG
1 AATCCAAAGTTGAATG
4980858 GCCCTGCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (17 bp):
AATCCAAAGTTGAATGC
Found at i:4993430 original size:27 final size:29
Alignment explanation
Indices: 4993400--4993463 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
4993390 TTTTTACTTT
4993400 TTTAAATAAA--TTTATATTTT-TATTATA
1 TTTAAATAAATCTTTATATTTTAT-TTATA
*
4993427 TTTAAATAAATCTTTATCATTTTATTTGTA
1 TTTAAATAAATCTTTAT-ATTTTATTTATA
4993457 TTTAAAT
1 TTTAAAT
4993464 GATTCCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.31
29 5 0.16
30 16 0.50
31 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTAAATAAATCTTTATATTTTATTTATA
Found at i:4993459 original size:30 final size:27
Alignment explanation
Indices: 4993400--4993463 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
4993390 TTTTTACTTT
4993400 TTTAAATAAATTTATATTTTTATTATA
1 TTTAAATAAATTTATATTTTTATTATA
*
4993427 TTTAAATAAATCTT-TATCATTTTATTTGTA
1 TTTAAATAAAT-TTATAT--TTTTA-TTATA
4993457 TTTAAAT
1 TTTAAAT
4993464 GATTCCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 14 0.44
28 2 0.06
29 5 0.16
30 11 0.34
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTAAATAAATTTATATTTTTATTATA
Found at i:4993585 original size:29 final size:30
Alignment explanation
Indices: 4993510--4993595 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
4993500 TTACTTAAAC
4993510 GTAAATTAAAAATTAAAAATTTATTTAGAT
1 GTAAATTAAAAATTAAAAATTTATTTAGAT
*
4993540 GTAAATTAAAAATTAAAAATTTATTT-TA-
1 GTAAATTAAAAATTAAAAATTTATTTAGAT
4993568 GTACAA-TAAAAATATAAAAATTTATTTA
1 GTA-AATTAAAAAT-TAAAAATTTATTTA
4993596 TAAACAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
28 10 0.19
29 16 0.31
30 26 0.50
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.40
Consensus pattern (30 bp):
GTAAATTAAAAATTAAAAATTTATTTAGAT
Found at i:4996018 original size:2 final size:2
Alignment explanation
Indices: 4996011--4996063 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4996001 AAACTGTTAT
4996011 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4996053 AC AC AC AC AC A
1 AC AC AC AC AC A
4996064 TATACATATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4996080 original size:16 final size:16
Alignment explanation
Indices: 4996061--4996095 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4996051 ACACACACAC
4996061 ACATATACATATATAT
1 ACATATACATATATAT
* *
4996077 ACATATATATGTATAT
1 ACATATACATATATAT
4996093 ACA
1 ACA
4996096 CAAGATTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (16 bp):
ACATATACATATATAT
Found at i:4997299 original size:37 final size:37
Alignment explanation
Indices: 4997242--4997342 Score: 132
Period size: 37 Copynumber: 2.7 Consensus size: 37
4997232 GACAGAAACC
* *
4997242 TTTTATCCAGTTAAGAAATGAAATCACTTTTGCCTTG-T
1 TTTTATTCAGTGAA-AAATGAAATCA-TTTTGCCTTGTT
**
4997280 TTTTATTCAGTGAAAAATGAAATCATTTTTTCTTGTT
1 TTTTATTCAGTGAAAAATGAAATCATTTTGCCTTGTT
*
4997317 TTTTATTCAGGGAAAAATGAAATCAT
1 TTTTATTCAGTGAAAAATGAAATCAT
4997343 ATTAAGGACT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
36 8 0.14
37 37 0.65
38 12 0.21
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (37 bp):
TTTTATTCAGTGAAAAATGAAATCATTTTGCCTTGTT
Found at i:5001112 original size:16 final size:17
Alignment explanation
Indices: 5001087--5001125 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5001077 AAAAAAACAC
*
5001087 ATTTTCCTT-CTTTTTA
1 ATTTTCCTTCCCTTTTA
*
5001103 ATTTTTCTTCCCTTTTA
1 ATTTTCCTTCCCTTTTA
5001120 ATTTTC
1 ATTTTC
5001126 TATCTTTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTCCTTCCCTTTTA
Found at i:5008713 original size:2 final size:2
Alignment explanation
Indices: 5008708--5008741 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5008698 TCTCTCTCTC
5008708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5008742 GTAGTACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5013408 original size:10 final size:11
Alignment explanation
Indices: 5013346--5013402 Score: 69
Period size: 11 Copynumber: 4.8 Consensus size: 11
5013336 TGTTAATATT
5013346 TTTATTAAAAATA
1 TTTATT-AAAA-A
5013359 TTTATCTAAAAA
1 TTTAT-TAAAAA
*
5013371 TATATATAAAAA
1 TTTAT-TAAAAA
5013383 TTTATTAAAAA
1 TTTATTAAAAA
5013394 TTTATTAAA
1 TTTATTAAA
5013403 TTTTATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 15 0.38
12 15 0.38
13 9 0.22
14 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTATTAAAAA
Found at i:5014925 original size:2 final size:2
Alignment explanation
Indices: 5014918--5014963 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
5014908 AAGAACATGC
* * * *
5014918 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5014960 AT AT
1 AT AT
5014964 GCGATAATTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5014931 original size:8 final size:8
Alignment explanation
Indices: 5014918--5014964 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
5014908 AAGAACATGC
*
5014918 ATATATAT
1 ATATATGT
*
5014926 ATATATAT
1 ATATATGT
5014934 ATATATGT
1 ATATATGT
*
5014942 ATGTATGT
1 ATATATGT
5014950 ATATATGT
1 ATATATGT
5014958 ATATATG
1 ATATATG
5014965 CGATAATTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (8 bp):
ATATATGT
Found at i:5025579 original size:185 final size:186
Alignment explanation
Indices: 5025266--5025636 Score: 726
Period size: 185 Copynumber: 2.0 Consensus size: 186
5025256 TGGTTTGTCA
*
5025266 ATCCAAACCAAAAAGCATTTTAATAGGCCTTTTTGCAGTGAAAAAGTGCGATTTGGAATAGAAGA
1 ATCCAAACCAAAAAGCACTTTAATAGGCCTTTTTGCAGTGAAAAAGTGCGATTTGGAATAGAAGA
5025331 TCATTATATTATCCATAAATTTTTAATATTTTATTATTGTATGATTATCTTTTAAGACAATGCAA
66 TCATTATATTATCCATAAATTTTTAATATTTTATTATTGTATGATTATCTTTTAAGACAATGCAA
5025396 TCACTCACAGCACTTTTTCACAGTAATATCAAACACTTAAAATTTCTAAACACATT
131 TCACTCACAGCACTTTTTCACAGTAATATCAAACACTTAAAATTTCTAAACACATT
5025452 ATCCAAACCAAAAAGCACTTTAATAGGCCTTTTTGCAGTGAAAAAGTGCG-TTTGGAATAGAAGA
1 ATCCAAACCAAAAAGCACTTTAATAGGCCTTTTTGCAGTGAAAAAGTGCGATTTGGAATAGAAGA
5025516 TCATTATATTATCCATAAATTTTTAATATTTTATTATTGTATGATTATCTTTTAAGACAATGCAA
66 TCATTATATTATCCATAAATTTTTAATATTTTATTATTGTATGATTATCTTTTAAGACAATGCAA
5025581 TCACTCACAGCACTTTTTCACAGTAATATCAAACACTTAAAATTTCTAAACACATT
131 TCACTCACAGCACTTTTTCACAGTAATATCAAACACTTAAAATTTCTAAACACATT
5025637 TTTTAGACAC
Statistics
Matches: 184, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 135 0.73
186 49 0.27
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (186 bp):
ATCCAAACCAAAAAGCACTTTAATAGGCCTTTTTGCAGTGAAAAAGTGCGATTTGGAATAGAAGA
TCATTATATTATCCATAAATTTTTAATATTTTATTATTGTATGATTATCTTTTAAGACAATGCAA
TCACTCACAGCACTTTTTCACAGTAATATCAAACACTTAAAATTTCTAAACACATT
Found at i:5029783 original size:2 final size:2
Alignment explanation
Indices: 5029778--5029805 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5029768 TGCGTGTGTC
5029778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5029806 GTTTTTCAAT
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):
TA
Found at i:5039125 original size:2 final size:2
Alignment explanation
Indices: 5039108--5039141 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5039098 TAGCTTGCTA
* *
5039108 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5039142 TAGCTTGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:5039439 original size:12 final size:12
Alignment explanation
Indices: 5039424--5039457 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5039414 TTCTCCATTT
5039424 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
5039436 AAAAAACAAAAC
1 AAAAAAAAAAAC
5039448 AAAACAAAAA
1 AAAA-AAAAA
5039458 GAAAAGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:5040171 original size:15 final size:15
Alignment explanation
Indices: 5040129--5040177 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
5040119 CTGACTCTCT
*
5040129 TGCTGCTTCTTCAGC
1 TGCTGCTTCTGCAGC
*
5040144 TTCTGCTAT-TGCAGC
1 TGCTGCT-TCTGCAGC
*
5040159 TGCTGCTTCTGCAAC
1 TGCTGCTTCTGCAGC
5040174 TGCT
1 TGCT
5040178 CAAGCAGCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.10, C:0.31, G:0.20, T:0.39
Consensus pattern (15 bp):
TGCTGCTTCTGCAGC
Found at i:5044097 original size:33 final size:33
Alignment explanation
Indices: 5044060--5044130 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
5044050 AAAATTCTCG
5044060 AATATCTATTTCAAAAAGTTTCAAAACTTCTTA
1 AATATCTATTTCAAAAAGTTTCAAAACTTCTTA
** * *
5044093 AATATCTATTTTGAGAAGTTTTAAAACTTCTTA
1 AATATCTATTTCAAAAAGTTTCAAAACTTCTTA
*
5044126 GATAT
1 AATAT
5044131 TCAATTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (33 bp):
AATATCTATTTCAAAAAGTTTCAAAACTTCTTA
Found at i:5044676 original size:17 final size:18
Alignment explanation
Indices: 5044651--5044688 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5044641 ATTTATAATT
*
5044651 AAATATATAT-TTTTAAA
1 AAATATATATATTCTAAA
*
5044668 AAATTTATATATTCTAAA
1 AAATATATATATTCTAAA
5044686 AAA
1 AAA
5044689 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATATATTCTAAA
Found at i:5044678 original size:19 final size:19
Alignment explanation
Indices: 5044654--5044690 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5044644 TATAATTAAA
* *
5044654 TATATATTTTTAAAAAATT
1 TATATATTCTAAAAAAATT
5044673 TATATATTCTAAAAAAAT
1 TATATATTCTAAAAAAAT
5044691 AAAATTTTGA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATATTCTAAAAAAATT
Found at i:5045014 original size:13 final size:13
Alignment explanation
Indices: 5044996--5045020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5044986 GAAATGGATC
5044996 AAATGGAAAAAGA
1 AAATGGAAAAAGA
5045009 AAATGGAAAAAG
1 AAATGGAAAAAG
5045021 GCTACTTAAA
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (13 bp):
AAATGGAAAAAGA
Found at i:5045963 original size:17 final size:17
Alignment explanation
Indices: 5045918--5045964 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
5045908 AAAAATAATG
*
5045918 ATAAAGATAAAATTATT
1 ATAAAGATAAATTTATT
5045935 ATAATA-ATAAATTTATT
1 ATAA-AGATAAATTTATT
*
5045952 ATAACGATAAATT
1 ATAAAGATAAATT
5045965 AAAATTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (17 bp):
ATAAAGATAAATTTATT
Found at i:5046036 original size:17 final size:18
Alignment explanation
Indices: 5046014--5046054 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5046004 CGATAATGAT
5046014 AAAATAAAAT-ATAATAA
1 AAAATAAAATGATAATAA
* *
5046031 AAAATAAAATGATTATTA
1 AAAATAAAATGATAATAA
5046049 AAAATA
1 AAAATA
5046055 TTATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATAAAATGATAATAA
Found at i:5046178 original size:31 final size:33
Alignment explanation
Indices: 5046118--5046179 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
5046108 AAATTAATAT
*
5046118 ATAATTAAAAATACTAAAAGTATATTTTTATTA
1 ATAAGTAAAAATACTAAAAGTATATTTTTATTA
5046151 ATAAGTAAAAAT-CTTAAAA-T-TATTTTTAT
1 ATAAGTAAAAATAC-TAAAAGTATATTTTTAT
5046180 ATCAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 9 0.33
32 2 0.07
33 16 0.59
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (33 bp):
ATAAGTAAAAATACTAAAAGTATATTTTTATTA
Done.