Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 135 of 147
Found at i:24486156 original size:83 final size:84
Alignment explanation
Indices: 24486010--24486167 Score: 221
Period size: 83 Copynumber: 1.9 Consensus size: 84
24486000 TTAGAGAAAC
* * *
24486010 CTTTTTCAAGATGAATTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCCTTTTCGAAGATAAAT
1 CTTTTTCAAGATGAATTTTTAAAGTTATTGAACATATGCTGAGAGGAGCCTTTTCGAAAATAAAT
24486075 TTTTAAAGTTATTGAGCCT
66 TTTTAAAGTTATTGAGCCT
* * * * *
24486094 CTTTTTTAAGATGAA-TTTTAAAGTTGTTGAGCCTATGCTGAGAGGAGCTTTTTTC-AAAATAAA
1 CTTTTTCAAGATGAATTTTTAAAGTTATTGAACATATGCTGAGAGGAGC-CTTTTCGAAAATAAA
24486157 TTTTTAAAGTT
65 TTTTTAAAGTT
24486168 GTTAAGCTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
83 46 0.71
84 19 0.29
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (84 bp):
CTTTTTCAAGATGAATTTTTAAAGTTATTGAACATATGCTGAGAGGAGCCTTTTCGAAAATAAAT
TTTTAAAGTTATTGAGCCT
Found at i:24486196 original size:83 final size:83
Alignment explanation
Indices: 24486017--24486198 Score: 190
Period size: 83 Copynumber: 2.2 Consensus size: 83
24486007 AACCTTTTTC
* * *
24486017 AAGATGAATTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCCTTTTCGAAGATAAATTTTTAAA
1 AAGATG-ATTTTTAAAGTTATTGAACATATGCTGAGAGGAGCCTTTTCGAAAATAAATTTTTAAA
* **
24486082 GTTATTGAGCCTCTTTTTT
65 GTTATTAAGCCTCTTGATT
* * * * *
24486101 AAGATGAATTTTAAAGTTGTTGAGCCTATGCTGAGAGGAGCTTTTTTC-AAAATAAATTTTTAAA
1 AAGATGATTTTTAAAGTTATTGAACATATGCTGAGAGGAGC-CTTTTCGAAAATAAATTTTTAAA
* *
24486165 GTTGTTAAGCTTC-TGATT
65 GTTATTAAGCCTCTTGATT
24486183 -AGATGAGCTTTTTAAA
1 AAGATGA--TTTTTAAA
24486199 TTAAAAAAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
81 6 0.07
82 3 0.04
83 61 0.75
84 11 0.14
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (83 bp):
AAGATGATTTTTAAAGTTATTGAACATATGCTGAGAGGAGCCTTTTCGAAAATAAATTTTTAAAG
TTATTAAGCCTCTTGATT
Found at i:24486347 original size:16 final size:16
Alignment explanation
Indices: 24486328--24486358 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24486318 AATTTTGTAT
24486328 TATTATTATTTTTTTC
1 TATTATTATTTTTTTC
24486344 TATTATTATTTTTTT
1 TATTATTATTTTTTT
24486359 TTCTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTATTATTTTTTTC
Found at i:24486347 original size:19 final size:18
Alignment explanation
Indices: 24486320--24486362 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
24486310 TAAACACCAA
*
24486320 TTTTGTATTATTATTATTT
1 TTTTCTATTATTATT-TTT
24486339 TTTTCTATTATTATTTTT
1 TTTTCTATTATTATTTTT
24486357 TTTTCT
1 TTTTCT
24486363 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTCTATTATTATTTTT
Found at i:24486353 original size:22 final size:22
Alignment explanation
Indices: 24486325--24486366 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24486315 ACCAATTTTG
24486325 TATTATTATTATTTT-TTTCTAT
1 TATTATT-TTATTTTCTTTCTAT
*
24486347 TATTATTTTTTTTTCTTTCT
1 TATTATTTTATTTTCTTTCT
24486367 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTATTTTATTTTCTTTCTAT
Found at i:24486369 original size:13 final size:13
Alignment explanation
Indices: 24486353--24486377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24486343 CTATTATTAT
24486353 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
24486366 TTTTTTTTCTTT
1 TTTTTTTTCTTT
24486378 TTCTTCTTTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:24486378 original size:19 final size:17
Alignment explanation
Indices: 24486352--24486392 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 17
24486342 TCTATTATTA
24486352 TTTTTTTTTCTTTCTTTT
1 TTTTTTTTTC-TTCTTTT
24486370 TTTTCTTTTTCTTCTTTT
1 TTTT-TTTTTCTTCTTTT
24486388 TTTTT
1 TTTTT
24486393 GTTCTGATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTCTTCTTTT
Found at i:24486378 original size:22 final size:22
Alignment explanation
Indices: 24486353--24486397 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
24486343 CTATTATTAT
*
24486353 TTTTTTTTCTTTCTTTTTT-TTC
1 TTTTTCTTCTTT-TTTTTTGTTC
24486375 TTTTTCTTCTTTTTTTTTGTTC
1 TTTTTCTTCTTTTTTTTTGTTC
24486397 T
1 T
24486398 GATCGATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTCTTCTTTTTTTTTGTTC
Found at i:24488835 original size:3 final size:3
Alignment explanation
Indices: 24488827--24488880 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
24488817 CCATTTTGTA
24488827 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24488875 AAT AAT
1 AAT AAT
24488881 TAGAGTTGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24490897 original size:31 final size:29
Alignment explanation
Indices: 24490820--24490911 Score: 87
Period size: 31 Copynumber: 2.9 Consensus size: 29
24490810 TTAATTTTTT
24490820 TAAAAATTACATATCTTTTAAAAAAATTAAG
1 TAAAAATTA-ATATCTTTT-AAAAAATTAAG
*
24490851 TAAAAATGTTTATATCTGTTTAAAAAATTGAA-
1 TAAAAA--TTAATATCT-TTTAAAAAATT-AAG
*
24490883 TAAAAACTTAATATCATTTTAAAATATTA
1 TAAAAA-TTAATATC-TTTTAAAAAATTA
24490912 TGTACGAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
30 1 0.02
31 23 0.44
32 21 0.40
33 7 0.13
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAAAATTAATATCTTTTAAAAAATTAAG
Found at i:24491078 original size:14 final size:14
Alignment explanation
Indices: 24491059--24491089 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24491049 ACATCTTTTT
24491059 TTTTATAAAACATA
1 TTTTATAAAACATA
*
24491073 TTTTATAAAATATA
1 TTTTATAAAACATA
24491087 TTT
1 TTT
24491090 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:24492865 original size:25 final size:25
Alignment explanation
Indices: 24492836--24492889 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
24492826 GTTTAAATAA
*
24492836 GAATGCCTAAATTAAATACCCTTAC
1 GAATGCCTAAATTAAATACACTTAC
*
24492861 GAATGCCTAAATTAAATACACTTAT
1 GAATGCCTAAATTAAATACACTTAC
24492886 GAAT
1 GAAT
24492890 ATTGAGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACACTTAC
Found at i:24493613 original size:18 final size:18
Alignment explanation
Indices: 24493592--24493638 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
24493582 GTGTAAGTTT
24493592 TTATTATTATTATTGTTG
1 TTATTATTATTATTGTTG
*
24493610 TTATTGTTATTATTGTTG
1 TTATTATTATTATTGTTG
*
24493628 CTATTATTATT
1 TTATTATTATT
24493639 GTTATTATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.02, G:0.11, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATTGTTG
Found at i:24493643 original size:9 final size:9
Alignment explanation
Indices: 24493592--24493646 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
24493582 GTGTAAGTTT
*
24493592 TTATTATTA
1 TTATTGTTA
*
24493601 TTATTGTTG
1 TTATTGTTA
24493610 TTATTGTTA
1 TTATTGTTA
*
24493619 TTATTGTTG
1 TTATTGTTA
*
24493628 CTA---TTA
1 TTATTGTTA
24493634 TTATTGTTA
1 TTATTGTTA
24493643 TTAT
1 TTAT
24493647 CTTGAAAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
6 4 0.11
9 32 0.89
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.65
Consensus pattern (9 bp):
TTATTGTTA
Found at i:24495565 original size:2 final size:2
Alignment explanation
Indices: 24495558--24495589 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24495548 ATCCCCCACT
24495558 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
24495590 AAAGAATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24495618 original size:2 final size:2
Alignment explanation
Indices: 24495611--24495637 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24495601 TAAAAACTTT
24495611 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
24495638 GGATTGAAGG
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:24501963 original size:201 final size:201
Alignment explanation
Indices: 24501718--24502122 Score: 749
Period size: 201 Copynumber: 2.0 Consensus size: 201
24501708 TTTAAATTAT
24501718 TTAAGGTTCATTTGGATAGGTGTTGACATTGATTTCGATGATATTAAAATCAATAATAAAAATAA
1 TTAAGGTTCATTTGGATAGGTGTTGACATTGATTTCGATGATATTAAAATCAATAATAAAAATAA
*
24501783 GTGTTTTGATGTAAATGTAACGGTTACAATGAGATAAATAATCATAAAGGTAAATTTGATTATTA
66 GTGTTTTGATGTAAATGTAACGGTAACAATGAGATAAATAATCATAAAGGTAAATTTGATTATTA
24501848 TAATGGTAAGATTAAAATCAATAATAGAAAA-ATATGTTTTGATGCAAATACATCAGTAACGGTA
131 TAATGGTAAGATTAAAATCAATAATA-AAAAGATATGTTTTGATGCAAATACATCAGTAACGGTA
24501912 AGATAAA
195 AGATAAA
*
24501919 TTAAGGTTCATTTGGATAGGTGTTGATATTGATTTCGATGATATTAAAATCAATAATAAAAATAA
1 TTAAGGTTCATTTGGATAGGTGTTGACATTGATTTCGATGATATTAAAATCAATAATAAAAATAA
* * *
24501984 GTGTTTTGATGTAAATGTAACGGTAACAGTGAGATAAATAGTCATAGAGGTAAATTTGATTATTA
66 GTGTTTTGATGTAAATGTAACGGTAACAATGAGATAAATAATCATAAAGGTAAATTTGATTATTA
24502049 TAATGGTAAGATTAAAATCAATAATAAAAAGATATGTTTTGATGCAAATACATCAGTAACGGTAA
131 TAATGGTAAGATTAAAATCAATAATAAAAAGATATGTTTTGATGCAAATACATCAGTAACGGTAA
24502114 GATAAA
196 GATAAA
24502120 TTA
1 TTA
24502123 TAAAAAAAAA
Statistics
Matches: 198, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
200 4 0.02
201 194 0.98
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.34
Consensus pattern (201 bp):
TTAAGGTTCATTTGGATAGGTGTTGACATTGATTTCGATGATATTAAAATCAATAATAAAAATAA
GTGTTTTGATGTAAATGTAACGGTAACAATGAGATAAATAATCATAAAGGTAAATTTGATTATTA
TAATGGTAAGATTAAAATCAATAATAAAAAGATATGTTTTGATGCAAATACATCAGTAACGGTAA
GATAAA
Found at i:24502087 original size:98 final size:98
Alignment explanation
Indices: 24501760--24502097 Score: 346
Period size: 98 Copynumber: 3.4 Consensus size: 98
24501750 TTTCGATGAT
* * * *
24501760 ATTAAAATCAATAATAAAAATAAGTGTTTTGATGTAAATGTAACGGTTACAATGAGATAAATAAT
1 ATTAAAATCAATAATAAAAATAAGTGTTTTGATGCAAATGTAACGGTAACAGTGAGATAAATAGT
*
24501825 CATAAAGGTAAATTTGATTATTATAATGGTAAG
66 CATAGAGGTAAATTTGATTATTATAATGGTAAG
** * * * *
24501858 ATTAAAATCAATAATAGAAAA-ATA-TGTTTTGATGCAAATACATCAGTAACGGTAAGATAAATT
1 ATTAAAATCAATAATA-AAAATA-AGTGTTTTGATGCAAATGTAACGGTAACAGTGAGATAAA-T
* * ** * * * *
24501921 AAGGTTCATTTG-GATAGGTGTTGA-TATTGAT-TTCGATGAT
63 -A-G-TCA-TAGAGGTAAAT-TTGATTATT-ATAAT-GGTAAG
*
24501961 ATTAAAATCAATAATAAAAATAAGTGTTTTGATGTAAATGTAACGGTAACAGTGAGATAAATAGT
1 ATTAAAATCAATAATAAAAATAAGTGTTTTGATGCAAATGTAACGGTAACAGTGAGATAAATAGT
24502026 CATAGAGGTAAATTTGATTATTATAATGGTAAG
66 CATAGAGGTAAATTTGATTATTATAATGGTAAG
*
24502059 ATTAAAATCAATAATAAAAAGATA-TGTTTTGATGCAAAT
1 ATTAAAATCAATAATAAAAATA-AGTGTTTTGATGCAAAT
24502098 ACATCAGTAA
Statistics
Matches: 188, Mismatches: 36, Indels: 32
0.73 0.14 0.12
Matches are distributed among these distances:
98 91 0.48
99 19 0.10
100 2 0.01
101 1 0.01
102 18 0.10
103 57 0.30
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.34
Consensus pattern (98 bp):
ATTAAAATCAATAATAAAAATAAGTGTTTTGATGCAAATGTAACGGTAACAGTGAGATAAATAGT
CATAGAGGTAAATTTGATTATTATAATGGTAAG
Found at i:24503911 original size:15 final size:17
Alignment explanation
Indices: 24503891--24503922 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
24503881 AAGATCACCA
24503891 AAGTGAT-TT-AATTAT
1 AAGTGATCTTAAATTAT
24503906 AAGTGATCTTAAATTAT
1 AAGTGATCTTAAATTAT
24503923 TTTGTTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (17 bp):
AAGTGATCTTAAATTAT
Found at i:24504499 original size:14 final size:14
Alignment explanation
Indices: 24504476--24504508 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24504466 CATACCAGAC
*
24504476 ATTTTTTAAAAATT
1 ATTTTCTAAAAATT
24504490 ATTTTCTAAAAATT
1 ATTTTCTAAAAATT
24504504 ATTTT
1 ATTTT
24504509 AATAATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTCTAAAAATT
Found at i:24510250 original size:9 final size:9
Alignment explanation
Indices: 24510224--24510257 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24510214 ATATTAAATA
*
24510224 TTATTAATT
1 TTATTATTT
24510233 TTATT-TTT
1 TTATTATTT
24510241 TTATTATTT
1 TTATTATTT
24510250 TTATTATT
1 TTATTATT
24510258 GTTTTACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTATTT
Found at i:24510413 original size:13 final size:14
Alignment explanation
Indices: 24510389--24510417 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24510379 AATTTTTTCT
24510389 AAAGATTGCATTTA
1 AAAGATTGCATTTA
24510403 AAAGATT-CATTTA
1 AAAGATTGCATTTA
24510416 AA
1 AA
24510418 CAATTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (14 bp):
AAAGATTGCATTTA
Found at i:24510749 original size:15 final size:14
Alignment explanation
Indices: 24510724--24510762 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
24510714 TTTAAACAAT
24510724 TTATTTTTATTTTA
1 TTATTTTTATTTTA
24510738 TTATTTTATATTTTA
1 TTATTTT-TATTTTA
24510753 TTATTATTTA
1 TTATT-TTTA
24510763 CTTAGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 14 0.61
16 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:24511038 original size:6 final size:6
Alignment explanation
Indices: 24510998--24511074 Score: 50
Period size: 6 Copynumber: 12.2 Consensus size: 6
24510988 TAACAATATC
* *
24510998 ATAAAA AAAAAA CATAAAA ATCAACATA A-AAAA ATAAAA ATAAAA ATTGAAAC
1 ATAAAA ATAAAA -ATAAAA AT-AA-A-A ATAAAA ATAAAA ATAAAA A-T-AAAA
* *
24511051 A-AAAA ATAAAA AGAAAA AGAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
24511075 CTTGCGAAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
5 6 0.10
6 35 0.60
7 10 0.17
8 5 0.09
9 2 0.03
ACGTcount: A:0.79, C:0.05, G:0.04, T:0.12
Consensus pattern (6 bp):
ATAAAA
Found at i:24511054 original size:26 final size:26
Alignment explanation
Indices: 24511000--24511068 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
24510990 ACAATATCAT
* *
24511000 AAAAAAA-AAACATAAAAATCAACAT
1 AAAAAAATAAAAATAAAAATCAACAC
*
24511025 AAAAAAATAAAAATAAAAATTGAA-AC
1 AAAAAAATAAAAATAAAAA-TCAACAC
*
24511051 -AAAAAATAAAAAGAAAAA
1 AAAAAAATAAAAATAAAAA
24511069 GAAAAACTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 24 0.63
26 11 0.29
27 3 0.08
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.12
Consensus pattern (26 bp):
AAAAAAATAAAAATAAAAATCAACAC
Found at i:24511075 original size:25 final size:25
Alignment explanation
Indices: 24511026--24511075 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24511016 AATCAACATA
* ***
24511026 AAAAAATAAAAATAAAAATTGAAAC
1 AAAAAATAAAAAGAAAAAGAAAAAC
24511051 AAAAAATAAAAAGAAAAAGAAAAAC
1 AAAAAATAAAAAGAAAAAGAAAAAC
24511076 TTGCGAAACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (25 bp):
AAAAAATAAAAAGAAAAAGAAAAAC
Found at i:24511583 original size:21 final size:21
Alignment explanation
Indices: 24511539--24511599 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
24511529 ATTCTTGAAA
*
24511539 TTTTTTTTTTTTATGTTTGCTG
1 TTTTTTTTTTTTAT-TGTGCTG
24511561 TTGTTTTTTTTTTATTGTG-TG
1 TT-TTTTTTTTTTATTGTGCTG
24511582 TTTCCTTTTTTTTT-TTGT
1 TTT--TTTTTTTTTATTGT
24511600 TCCTCCCTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 1 0.03
21 8 0.23
22 14 0.40
23 12 0.34
ACGTcount: A:0.03, C:0.05, G:0.13, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTTTTATTGTGCTG
Found at i:24511854 original size:3 final size:3
Alignment explanation
Indices: 24511848--24511893 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
24511838 AGAAAAAAAG
24511848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24511894 GAAGAAGAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24512186 original size:40 final size:40
Alignment explanation
Indices: 24512116--24512253 Score: 104
Period size: 40 Copynumber: 3.5 Consensus size: 40
24512106 TCTCACCAGA
* *
24512116 GACAACAAACTTTAGAT--TCAAAAGTACTCCTTTAACCAAC
1 GACAACAAACTTTAAATGAT-AAAAG-GCTCCTTTAACCAAC
* *
24512156 GACAACAAACTTTAAATGATAAAAGGCTCCTTTCACTAGA-
1 GACAACAAACTTTAAATGATAAAAGGCTCCTTTAACCA-AC
* ** * * **
24512196 GGCAATGAACTTTAAATCCA-AAAAAGCTTTTTTAACCAAC
1 GACAACAAACTTTAAAT-GATAAAAGGCTCCTTTAACCAAC
*
24512236 GGCAACAAACTTTAAATG
1 GACAACAAACTTTAAATG
24512254 TTGAAAAGCT
Statistics
Matches: 77, Mismatches: 16, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.01
40 68 0.88
41 7 0.09
42 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (40 bp):
GACAACAAACTTTAAATGATAAAAGGCTCCTTTAACCAAC
Found at i:24512207 original size:80 final size:79
Alignment explanation
Indices: 24512095--24512292 Score: 220
Period size: 80 Copynumber: 2.5 Consensus size: 79
24512085 ATATTAAATT
* * ** * * *
24512095 TAAAAGGCTTCTCTCACCAGAGACAACAAACTTTAGATTCAAAAGTA-CTCCTTTAACCAACGAC
1 TAAAAGGC-TCTTTCACCAGAGGCAATGAACTTTAAATCCAAAA-AAGCTCCTTTAACCAACGAC
24512159 AACAAACTTTAAATGA
64 AACAAACTTTAAATGA
* ** *
24512175 TAAAAGGCTCCTTTCACTAGAGGCAATGAACTTTAAATCCAAAAAAGCTTTTTTAACCAACGGCA
1 TAAAAGGCT-CTTTCACCAGAGGCAATGAACTTTAAATCCAAAAAAGCTCCTTTAACCAACGACA
*
24512240 ACAAACTTTAAATGT
65 ACAAACTTTAAATGA
*
24512255 TGAAAA-GCTCTTCTGACCAGAGGCAATGAACTTTAAAT
1 T-AAAAGGCTCTT-TCACCAGAGGCAATGAACTTTAAAT
24512293 AGCTTCTTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.05
80 91 0.91
81 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (79 bp):
TAAAAGGCTCTTTCACCAGAGGCAATGAACTTTAAATCCAAAAAAGCTCCTTTAACCAACGACAA
CAAACTTTAAATGA
Found at i:24512261 original size:40 final size:39
Alignment explanation
Indices: 24512142--24512325 Score: 116
Period size: 40 Copynumber: 4.8 Consensus size: 39
24512132 TTCAAAAGTA
*
24512142 CTCCTTTAACCAACGACAACAAACTTTAAATGATAAAAGG
1 CTCCTTTAACCAACGGCAACAAACTTTAAATGATAAAA-G
* * ** * *
24512182 CTCCTTTCACTAGA-GGCAATGAACTTTAAATCCAAAAAAG
1 CTCCTTTAACCA-ACGGCAACAAACTTTAAAT-GATAAAAG
** *
24512222 CTTTTTTAACCAACGGCAACAAACTTTAAATGTTGAAAAG
1 CTCCTTTAACCAACGGCAACAAACTTTAAATGAT-AAAAG
* **
24512262 CT-CTTCTGACCAGA-GGCAATGAACTTT-AA--AT---AG
1 CTCCTT-TAACCA-ACGGCAACAAACTTTAAATGATAAAAG
* *
24512295 CTTCTTTAACCAAAGGCAACAAACTTTAAAT
1 CTCCTTTAACCAACGGCAACAAACTTTAAAT
24512326 TAAAGATCTT
Statistics
Matches: 110, Mismatches: 24, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
32 1 0.01
33 20 0.18
34 5 0.05
37 1 0.01
39 5 0.05
40 71 0.65
41 7 0.06
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (39 bp):
CTCCTTTAACCAACGGCAACAAACTTTAAATGATAAAAG
Found at i:24512481 original size:39 final size:39
Alignment explanation
Indices: 24512433--24512533 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 39
24512423 GATTAGAAGA
* *
24512433 AACAAACTTTAAATTCAAAAGGCT-TCTTTGACCAGAGGC
1 AACAAACTTTAAATTCAAAAAGCTCT-TTTGACCACAGGC
* *
24512472 AACAAACTTTAAATGTTAAAAAAGCTCTTTTGACCACAGGT
1 AACAAACTTTAAA--TTCAAAAAGCTCTTTTGACCACAGGC
*
24512513 AACGAACTTTAAATTCAAAAA
1 AACAAACTTTAAATTCAAAAA
24512534 TCTGAGAGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 20 0.38
41 32 0.60
42 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (39 bp):
AACAAACTTTAAATTCAAAAAGCTCTTTTGACCACAGGC
Found at i:24524721 original size:14 final size:13
Alignment explanation
Indices: 24524702--24524741 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
24524692 AACTTTCTCT
24524702 AAAGATTATATTTA
1 AAAGATT-TATTTA
*
24524716 AAAGATTGATTTA
1 AAAGATTTATTTA
*
24524729 AAAAATTTATTTA
1 AAAGATTTATTTA
24524742 TTTTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (13 bp):
AAAGATTTATTTA
Found at i:24525069 original size:15 final size:14
Alignment explanation
Indices: 24525041--24525080 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
24525031 ATCTAAACAA
24525041 TTTATTTTTATTTT
1 TTTATTTTTATTTT
24525055 TTTATTTTATATTTT
1 TTTATTTT-TATTTT
*
24525070 ATTATTATTTA
1 TTTATT-TTTA
24525081 CTTAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 13 0.57
16 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:24525677 original size:19 final size:19
Alignment explanation
Indices: 24525650--24525687 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24525640 TCCCAAATTT
*
24525650 CGATGGTCGAAAAATTCAA
1 CGATCGTCGAAAAATTCAA
24525669 CGATCGTCGAAAAATTCAA
1 CGATCGTCGAAAAATTCAA
24525688 ACTTTTTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (19 bp):
CGATCGTCGAAAAATTCAA
Found at i:24526120 original size:3 final size:3
Alignment explanation
Indices: 24526112--24526143 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24526102 TGTTTTAAAG
24526112 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24526144 AAGAAGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24534312 original size:19 final size:20
Alignment explanation
Indices: 24534263--24534312 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
24534253 ATATATAATA
* *
24534263 AATAAATTATATTTATATTT
1 AATAATTTATAATTATATTT
24534283 AA-AATTT-TAATT-TATTT
1 AATAATTTATAATTATATTT
24534300 AATAATTTATAAT
1 AATAATTTATAAT
24534313 ATTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 8 0.31
20 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATAATTTATAATTATATTT
Found at i:24534329 original size:24 final size:25
Alignment explanation
Indices: 24534267--24534334 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
24534257 ATAATAAATA
*
24534267 AATTATATTT-AT-ATTTAAAATTTT
1 AATT-TATTTAATAATTTATAATTTT
24534291 AATTTATTTAATAATTTATAATATTT
1 AATTTATTTAATAATTTATAAT-TTT
24534317 -ATTT-TTTAATAATTTATA
1 AATTTATTTAATAATTTATA
24534335 TAGTGTCTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 5 0.12
24 20 0.50
25 12 0.30
26 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
AATTTATTTAATAATTTATAATTTT
Found at i:24535231 original size:21 final size:21
Alignment explanation
Indices: 24535208--24535246 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24535198 AAAAAATTAT
24535208 TTTTA-TATTTTATATATTCC
1 TTTTATTATTTTATATATTCC
*
24535228 TTTTATTATTTTTTATATT
1 TTTTATTATTTTATATATT
24535247 TTATTATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTATTTTATATATTCC
Found at i:24544265 original size:16 final size:15
Alignment explanation
Indices: 24544234--24544278 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
24544224 AGATTTTTTT
*
24544234 ATAATTATTATTATA
1 ATAATTATTTTTATA
24544249 ATAATTATATTTTATA
1 ATAATTAT-TTTTATA
24544265 ATAAATTATTTTTA
1 AT-AATTATTTTTA
24544279 AAAAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.30
16 13 0.48
17 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATTATTTTTATA
Found at i:24550676 original size:13 final size:13
Alignment explanation
Indices: 24550660--24550755 Score: 58
Period size: 13 Copynumber: 7.5 Consensus size: 13
24550650 ATTTGATAAT
24550660 TTATATATTTATA
1 TTATATATTTATA
**
24550673 TTATATA-AAATA
1 TTATATATTTATA
*
24550685 TTGATA-ATTTATG
1 TT-ATATATTTATA
* *
24550698 TCATGTATTTATA
1 TTATATATTTATA
*
24550711 TTATAT-TTTACA
1 TTATATATTTATA
* *
24550723 -TAAAAATTTTATA
1 TTATATA-TTTATA
24550736 TTATA-ATTTATA
1 TTATATATTTATA
24550748 TTCATATA
1 TT-ATATA
24550756 AAAATATAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 15
0.67 0.17 0.17
Matches are distributed among these distances:
11 3 0.05
12 21 0.35
13 32 0.53
14 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:24551858 original size:15 final size:15
Alignment explanation
Indices: 24551825--24551880 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
24551815 TGGACGTTAA
*
24551825 TAAAAATTTATTTAAAT
1 TAAAAAATTATTT--AT
24551842 TAAAAAATTATTTAT
1 TAAAAAATTATTTAT
24551857 TAAATAAATT-TTTAT
1 TAAA-AAATTATTTAT
24551872 TAATAAAAT
1 TAA-AAAAT
24551881 ATTCTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 18 0.50
16 6 0.17
17 12 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAAAATTATTTAT
Found at i:24555005 original size:14 final size:15
Alignment explanation
Indices: 24554982--24555022 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
24554972 TTTTTAATAT
24554982 ATCATGAATA-AAAA
1 ATCATGAATATAAAA
*
24554996 ATCATTAATATAAAA
1 ATCATGAATATAAAA
*
24555011 AT-AAGAATATAA
1 ATCATGAATATAA
24555023 TTAAACAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (15 bp):
ATCATGAATATAAAA
Found at i:24566066 original size:15 final size:15
Alignment explanation
Indices: 24566046--24566076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24566036 ATTGTTGATA
*
24566046 TGCTTGTTATTGTTT
1 TGCTTGCTATTGTTT
24566061 TGCTTGCTATTGTTT
1 TGCTTGCTATTGTTT
24566076 T
1 T
24566077 TTTTTCTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.10, G:0.19, T:0.65
Consensus pattern (15 bp):
TGCTTGCTATTGTTT
Found at i:24568277 original size:13 final size:13
Alignment explanation
Indices: 24568257--24568300 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
24568247 TAAAATTTAA
24568257 AATTATTAAATAT
1 AATTATTAAATAT
* *
24568270 ATTTATTAAAAAT
1 AATTATTAAATAT
24568283 AATTATATAAAT-T
1 AATTAT-TAAATAT
24568296 AATTA
1 AATTA
24568301 AATTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTATTAAATAT
Found at i:24568287 original size:23 final size:23
Alignment explanation
Indices: 24568250--24568302 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
24568240 TGAAATTTAA
* * *
24568250 AATTTAAAATTATTAAATATATT
1 AATTAAAAATAATTAAATAAATT
* *
24568273 TATTAAAAATAATTATATAAATT
1 AATTAAAAATAATTAAATAAATT
24568296 AATTAAA
1 AATTAAA
24568303 TTAAAATTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTAAAAATAATTAAATAAATT
Found at i:24568350 original size:2 final size:2
Alignment explanation
Indices: 24568337--24568387 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
24568327 TAAAATCTTT
* * *
24568337 TA TA TT TA TA TA TA TC T- TA T- TA -A TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24568376 TA TA TA TA TA TA
1 TA TA TA TA TA TA
24568388 AATTCGTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:24570290 original size:20 final size:21
Alignment explanation
Indices: 24570267--24570307 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24570257 ATAATTATTT
*
24570267 TATACTTAAATTAAT-TTAAA
1 TATACTTAAAATAATATTAAA
*
24570287 TATATTTAAAATAATATTAAA
1 TATACTTAAAATAATATTAAA
24570308 ACAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATACTTAAAATAATATTAAA
Found at i:24570321 original size:27 final size:27
Alignment explanation
Indices: 24570290--24570342 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24570280 ATTTAAATAT
24570290 ATTTAAAATAA-T-ATTAAAACAATAAAA
1 ATTT-AAATAATTAATTAAAA-AATAAAA
24570317 ATTTAAATAATTAATTAAAAAATAAA
1 ATTTAAATAATTAATTAAAAAATAAA
24570343 TCAAACCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 11 0.46
28 7 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
ATTTAAATAATTAATTAAAAAATAAAA
Found at i:24577673 original size:21 final size:20
Alignment explanation
Indices: 24577636--24577674 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24577626 AGATCGAAAC
*
24577636 AAAAAAAAGTTGATAAAGGA
1 AAAAAAAAGTAGATAAAGGA
*
24577656 AAAAGAAAAGTAGGTAAAG
1 AAAA-AAAAGTAGATAAAG
24577675 TTTCTAATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (20 bp):
AAAAAAAAGTAGATAAAGGA
Found at i:24585318 original size:22 final size:21
Alignment explanation
Indices: 24585276--24585321 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
24585266 ATTTTTATAG
24585276 TTTTTATTTTTTGATTCATAT
1 TTTTTATTTTTTGATTCATAT
24585297 TTTTTATTTTTT-ATTCTAATAT
1 TTTTTATTTTTTGATTC--ATAT
24585319 TTT
1 TTT
24585322 GACTCTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 7 0.30
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTATTTTTTGATTCATAT
Found at i:24593437 original size:23 final size:23
Alignment explanation
Indices: 24593392--24593437 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24593382 AAATTAAAAT
* *
24593392 AAATTTTTATTATTTATATTTTA
1 AAATTTTTATTATTTAAAATTTA
24593415 AAATTTTTAATT-TTTAAAATTTA
1 AAATTTTT-ATTATTTAAAATTTA
24593438 CATAATGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AAATTTTTATTATTTAAAATTTA
Found at i:24596881 original size:22 final size:22
Alignment explanation
Indices: 24596853--24596903 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
24596843 AAGTCATTAC
*
24596853 TGGTTTATTACTACATTATCAA
1 TGGTTTATTACTAAATTATCAA
* *
24596875 TGGTTTATTATTAAATTATTAA
1 TGGTTTATTACTAAATTATCAA
*
24596897 TGATTTA
1 TGGTTTA
24596904 CTAATAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (22 bp):
TGGTTTATTACTAAATTATCAA
Found at i:24596915 original size:22 final size:23
Alignment explanation
Indices: 24596886--24596994 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 23
24596876 GGTTTATTAT
*
24596886 TAAA-TTATTAATGATTTACTAA
1 TAAAGTTATTGATGATTTACTAA
* *
24596908 T-AAGTTATTGATGATTTAGTAC
1 TAAAGTTATTGATGATTTACTAA
* *
24596930 T-AAGTTATTGATAATTTA-TTA
1 TAAAGTTATTGATGATTTACTAA
* *
24596951 TAAAGTTA-TAACTAATTTACT-A
1 TAAAGTTATTGA-TGATTTACTAA
* *
24596973 TGAAGTTATCGATGATTTACTA
1 TAAAGTTATTGATGATTTACTA
24596995 CAAAATTATC
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
21 6 0.09
22 62 0.89
23 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.45
Consensus pattern (23 bp):
TAAAGTTATTGATGATTTACTAA
Found at i:24597170 original size:22 final size:22
Alignment explanation
Indices: 24597110--24597192 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
24597100 AATTACATTG
* *
24597110 ATTTATTACTAAGTTTTCAA-T
1 ATTTACTACTAAGTTATCAATT
*
24597131 ATTTAGCTATTAAGTTATCAATT
1 ATTTA-CTACTAAGTTATCAATT
* *
24597154 ATTTACTACTAAATTAT-TATT
1 ATTTACTACTAAGTTATCAATT
*
24597175 GAATTACTACTAAGTTAT
1 -ATTTACTACTAAGTTAT
24597193 TTATGGTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 8 0.16
22 37 0.73
23 6 0.12
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTACTACTAAGTTATCAATT
Found at i:24597205 original size:22 final size:22
Alignment explanation
Indices: 24597156--24597198 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24597146 TATCAATTAT
*
24597156 TTACTACTAAATTATTATTGAA
1 TTACTACTAAATTATTATGGAA
*
24597178 TTACTACTAAGTTATTTATGG
1 TTACTACTAAATTA-TTATGG
24597199 TATACTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (22 bp):
TTACTACTAAATTATTATGGAA
Found at i:24597498 original size:22 final size:22
Alignment explanation
Indices: 24597453--24597533 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
24597443 TTATCACTAG
* * *
24597453 TTTATTACTAAATTAT-CATGA
1 TTTATCACTAAGTTATAAATGA
24597474 TTTATCACTAAGTTATAAATGA
1 TTTATCACTAAGTTATAAATGA
*
24597496 TTTA-CTGCTAAGTTATAAATGA
1 TTTATC-ACTAAGTTATAAATGA
* *
24597518 TTTATTACTTAGTTAT
1 TTTATCACTAAGTTAT
24597534 TGATAATTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 15 0.30
22 35 0.70
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (22 bp):
TTTATCACTAAGTTATAAATGA
Found at i:24597520 original size:44 final size:44
Alignment explanation
Indices: 24597453--24597599 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
24597443 TTATCACTAG
* * * * *
24597453 TTTATTACTAAATTAT-CATGATTTATCACTAAGTTATAAATGA
1 TTTACTACTAAGTTATAAATGATTTATTACTAAGTTATTAATGA
* * * *
24597496 TTTACTGCTAAGTTATAAATGATTTATTACTTAGTTATTGATAA
1 TTTACTACTAAGTTATAAATGATTTATTACTAAGTTATTAATGA
* * * *
24597540 TTTACTATTAAGTTATTAATAATTTATTA-TAATGTTATTACTGA
1 TTTACTACTAAGTTATAAATGATTTATTACTAA-GTTATTAATGA
24597584 TTTACTA-TAAAGTTAT
1 TTTACTACT-AAGTTAT
24597600 TAATAATTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
43 16 0.19
44 68 0.81
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (44 bp):
TTTACTACTAAGTTATAAATGATTTATTACTAAGTTATTAATGA
Found at i:24597542 original size:22 final size:22
Alignment explanation
Indices: 24597504--24597607 Score: 104
Period size: 22 Copynumber: 4.7 Consensus size: 22
24597494 GATTTACTGC
* *
24597504 TAAGTTATAAATGATTTATTACT
1 TAAGTTATTAATAATTTATTA-T
* *
24597527 T-AGTTATTGATAATTTACTAT
1 TAAGTTATTAATAATTTATTAT
24597548 TAAGTTATTAATAATTTATTA-
1 TAAGTTATTAATAATTTATTAT
* * *
24597569 TAATGTTATTACTGATTTACTAT
1 TAA-GTTATTAATAATTTATTAT
*
24597592 AAAGTTATTAATAATT
1 TAAGTTATTAATAATT
24597608 AACTAATTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.08
22 58 0.88
23 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (22 bp):
TAAGTTATTAATAATTTATTAT
Found at i:24597568 original size:11 final size:11
Alignment explanation
Indices: 24597530--24597607 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
24597520 TATTACTTAG
*
24597530 TTATTGATAAT
1 TTATTAATAAT
* * *
24597541 TTACTATTAAG
1 TTATTAATAAT
24597552 TTATTAATAAT
1 TTATTAATAAT
24597563 TTATT-ATAAT
1 TTATTAATAAT
* *
24597573 GTTATTACTGAT
1 -TTATTAATAAT
* *
24597585 TTACT-ATAAAG
1 TTATTAAT-AAT
24597596 TTATTAATAAT
1 TTATTAATAAT
24597607 T
1 T
24597608 AACTAATTTA
Statistics
Matches: 48, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
10 6 0.12
11 37 0.77
12 5 0.10
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (11 bp):
TTATTAATAAT
Found at i:24597612 original size:22 final size:22
Alignment explanation
Indices: 24597528--24597612 Score: 107
Period size: 22 Copynumber: 3.9 Consensus size: 22
24597518 TTTATTACTT
* *
24597528 AGTTATTGATAATTTACTATTA
1 AGTTATTAATAATTTACTATAA
*
24597550 AGTTATTAATAATTTATTATAA
1 AGTTATTAATAATTTACTATAA
* * *
24597572 TGTTATTACTGATTTACTATAA
1 AGTTATTAATAATTTACTATAA
*
24597594 AGTTATTAATAATTAACTA
1 AGTTATTAATAATTTACTA
24597613 ATTTACAACT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (22 bp):
AGTTATTAATAATTTACTATAA
Found at i:24597637 original size:22 final size:22
Alignment explanation
Indices: 24597611--24597750 Score: 118
Period size: 22 Copynumber: 6.4 Consensus size: 22
24597601 AATAATTAAC
*
24597611 TAATTTACAACTAAATTATCAT
1 TAATTTACAACTAAATTATCAA
* *
24597633 TAATTTATAACTAAATTATCAC
1 TAATTTACAACTAAATTATCAA
* *
24597655 TGATTTACAACTAAGTTATCAA
1 TAATTTACAACTAAATTATCAA
* * * ** * *
24597677 TATTTTACTATTATGTTATTAG
1 TAATTTACAACTAAATTATCAA
* *
24597699 TGATTTACTACTAAATTATCAA
1 TAATTTACAACTAAATTATCAA
* * *
24597721 TAATTTACTACTAAATCATTAA
1 TAATTTACAACTAAATTATCAA
*
24597743 TGATTTAC
1 TAATTTAC
24597751 TATTATACTA
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 94 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (22 bp):
TAATTTACAACTAAATTATCAA
Found at i:24597752 original size:44 final size:44
Alignment explanation
Indices: 24597613--24597750 Score: 161
Period size: 44 Copynumber: 3.1 Consensus size: 44
24597603 TAATTAACTA
* * *
24597613 ATTTACAACTAAATTATCATTAATTTA-TAACTAAATTATCACTG
1 ATTTACAACTAAATTATCAATAATTTACT-ACTAAATTATTAATG
* * * ** *
24597657 ATTTACAACTAAGTTATCAATATTTTACTATTATGTTATTAGTG
1 ATTTACAACTAAATTATCAATAATTTACTACTAAATTATTAATG
* *
24597701 ATTTACTACTAAATTATCAATAATTTACTACTAAATCATTAATG
1 ATTTACAACTAAATTATCAATAATTTACTACTAAATTATTAATG
24597745 ATTTAC
1 ATTTAC
24597751 TATTATACTA
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 76 0.99
45 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (44 bp):
ATTTACAACTAAATTATCAATAATTTACTACTAAATTATTAATG
Found at i:24597763 original size:22 final size:22
Alignment explanation
Indices: 24597655--24597763 Score: 78
Period size: 22 Copynumber: 5.0 Consensus size: 22
24597645 AAATTATCAC
* *
24597655 TGATTTACAACTA-AGTTATCAA
1 TGATTTACTACTATA-TTATTAA
* * *
24597677 T-ATTTTACTATTATGTTATTAG
1 TGA-TTTACTACTATATTATTAA
* *
24597699 TGATTTACTACTAAATTATCAA
1 TGATTTACTACTATATTATTAA
* * *
24597721 TAATTTACTACTAAATCATTAA
1 TGATTTACTACTATATTATTAA
* *
24597743 TGATTTACTATTATACTATTA
1 TGATTTACTACTATATTATTA
24597764 TACATTTGCT
Statistics
Matches: 66, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 64 0.97
23 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (22 bp):
TGATTTACTACTATATTATTAA
Found at i:24597776 original size:66 final size:66
Alignment explanation
Indices: 24597642--24597776 Score: 148
Period size: 66 Copynumber: 2.0 Consensus size: 66
24597632 TTAATTTATA
* * * * ** *
24597642 ACTAAATTATCACTGATTTACAACTAAGTTATCAATATTTTACTATTATGTTATTAGTGATTTAC
1 ACTAAATTATCAATAATTTACAACTAAATCATCAATATTTTACTATTATACTATTAGTCATTTAC
24597707 T
66 T
* *
24597708 ACTAAATTATCAATAATTTACTACTAAATCATTAATGA-TTTACTATTATACTATTA-TACATTT
1 ACTAAATTATCAATAATTTACAACTAAATCATCAAT-ATTTTACTATTATACTATTAGT-CATTT
*
24597771 GCT
64 ACT
24597774 ACT
1 ACT
24597777 TTCTTATCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 1 0.02
66 55 0.96
67 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.44
Consensus pattern (66 bp):
ACTAAATTATCAATAATTTACAACTAAATCATCAATATTTTACTATTATACTATTAGTCATTTAC
T
Found at i:24597871 original size:19 final size:20
Alignment explanation
Indices: 24597847--24597884 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24597837 TCGCTAAGTT
*
24597847 ATTTATGATTT-ATTACTAA
1 ATTTATAATTTAATTACTAA
24597866 ATTTATAATTTAATTACTA
1 ATTTATAATTTAATTACTA
24597885 TTAAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTATAATTTAATTACTAA
Found at i:24597904 original size:22 final size:22
Alignment explanation
Indices: 24597879--24597932 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
24597869 TATAATTTAA
24597879 TTACTATTAAACTA-AACTAAAT
1 TTACTATTAAACTATAACT-AAT
** *
24597901 TTACTATTATGCTATCACTAAT
1 TTACTATTAAACTATAACTAAT
24597923 TTACTATTAA
1 TTACTATTAA
24597933 GTTTTCATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.43
Consensus pattern (22 bp):
TTACTATTAAACTATAACTAAT
Found at i:24597946 original size:22 final size:22
Alignment explanation
Indices: 24597899--24598275 Score: 108
Period size: 22 Copynumber: 17.2 Consensus size: 22
24597889 ACTAAACTAA
* * * *
24597899 ATTTACTATTATGCTATCACTA
1 ATTTACTATTAAGTTATCATTG
*
24597921 ATTTACTATTAAGTTTTCATTG
1 ATTTACTATTAAGTTATCATTG
* * *
24597943 ATTTACTACTAAATTATCAGTG
1 ATTTACTATTAAGTTATCATTG
*
24597965 ATTAACTATTAAGTTATCATT-
1 ATTTACTATTAAGTTATCATTG
* *
24597986 -TTT--TATGAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTG
* * * *
24598005 ATTTACAACTATGTTATTA-TG
1 ATTTACTATTAAGTTATCATTG
* * *
24598026 CATTTA-TAACTATGTTATAATTG
1 -ATTTACT-ATTAAGTTATCATTG
* *
24598049 ATTTATTATTAAGTTATTA-TG
1 ATTTACTATTAAGTTATCATTG
* * * *
24598070 CTTGCTACTA-T-A-TTATTACTA
1 ATT--TACTATTAAGTTATCATTG
* *
24598091 ATTTACTACTAAATTA-CAATTG
1 ATTTACTATTAAGTTATC-ATTG
* *
24598113 ATATACTATTAAGTTAT-ATCTCTA
1 ATTTACTATTAAGTTATCA--T-TG
* * *
24598137 ATTTATCATATTAAATTATTACTG
1 ATTTA-C-TATTAAGTTATCATTG
* * * *
24598161 ATTAACTATTAATTTGCTGA-TG
1 ATTTACTATTAAGTT-ATCATTG
*
24598183 A-TTACCATTAAGTTAT-ATTG
1 ATTTACTATTAAGTTATCATTG
* *
24598203 ATTTACTTTTAA-TTTTCAATT-
1 ATTTACTATTAAGTTATC-ATTG
*
24598224 ATTAATTACTACTT-AGTTATAAATT-
1 A-T--TTACTA-TTAAGTTAT-CATTG
*
24598249 ATTTACTATTAAATTATCATTG
1 ATTTACTATTAAGTTATCATTG
24598271 ATTTA
1 ATTTA
24598276 TTACTAAGCT
Statistics
Matches: 263, Mismatches: 57, Indels: 70
0.67 0.15 0.18
Matches are distributed among these distances:
18 14 0.05
19 6 0.02
20 19 0.07
21 35 0.13
22 140 0.53
23 11 0.04
24 17 0.06
25 10 0.04
26 10 0.04
27 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTG
Found at i:24598620 original size:22 final size:22
Alignment explanation
Indices: 24598595--24599036 Score: 161
Period size: 22 Copynumber: 20.5 Consensus size: 22
24598585 AATGAATCTT
24598595 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
* *
24598617 ATTTACTATTAGGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * * *
24598639 ATTTATTACTAAATTATCAATA
1 ATTTACTATTAAGTTATCATTA
* * *
24598661 ATTAACTACTAAGTTATCATTT
1 ATTTACTATTAAGTTATCATTA
** *
24598683 ATTTTTTATTAAGTTATCTTTA
1 ATTTACTATTAAGTTATCATTA
* *
24598705 ATTTACTAATATGTGT-T-A-TA
1 ATTTACTATTAAGT-TATCATTA
* * * *
24598725 CATTTACAATT-A-TATATAAATG
1 -ATTTACTATTAAGT-TATCATTA
* * *
24598747 ATTTACTGTTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* * * *
24598769 CTTTCCTATTATGTTATTATGT-
1 ATTTACTATTAAGTTATCAT-TA
*
24598791 ATTTACTATTATGTTATCA-T-
1 ATTTACTATTAAGTTATCATTA
*
24598811 A--CACTATT---TTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* * * * *
24598828 ATTGACTACTAAATTATTATTT
1 ATTTACTATTAAGTTATCATTA
*
24598850 ATTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
* * *
24598872 TTTTACTATTAAGTTATTAATA
1 ATTTACTATTAAGTTATCATTA
24598894 ATTTACTA-TATAGTTATCATTA
1 ATTTACTATTA-AGTTATCATTA
* * * *
24598916 ATTTAGTATAAAGTTATTATTG
1 ATTTACTATTAAGTTATCATTA
* * *
24598938 ATTT--TGTCTAAATTATCACTA
1 ATTTACTAT-TAAGTTATCATTA
* * *
24598959 ATTTA-TAATAAAATTATCAATA
1 ATTTACT-ATTAAGTTATCATTA
* * *
24598981 ATTTGCTACTATA-TTATTA-TA
1 ATTTACTATTA-AGTTATCATTA
* * *
24599002 CATTTACTACTAAGTTATAATTG
1 -ATTTACTATTAAGTTATCATTA
*
24599025 ATTTACCATTAA
1 ATTTACTATTAA
24599037 ATCTTCTATA
Statistics
Matches: 316, Mismatches: 77, Indels: 54
0.71 0.17 0.12
Matches are distributed among these distances:
15 5 0.02
16 1 0.00
17 2 0.01
18 6 0.02
19 7 0.02
20 7 0.02
21 37 0.12
22 241 0.76
23 10 0.03
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:24598870 original size:11 final size:11
Alignment explanation
Indices: 24598841--24598936 Score: 59
Period size: 11 Copynumber: 8.7 Consensus size: 11
24598831 GACTACTAAA
* *
24598841 TTATTATTTAT
1 TTATTATTAAG
*
24598852 TTACTATTAAG
1 TTATTATTAAG
**
24598863 TTATTATTATT
1 TTATTATTAAG
*
24598874 TTACTATTAAG
1 TTATTATTAAG
* *
24598885 TTATTAATAAT
1 TTATTATTAAG
*
24598896 TTACTA-TATAG
1 TTATTATTA-AG
* *
24598907 TTATCATTAAT
1 TTATTATTAAG
* *
24598918 TTAGTATAAAG
1 TTATTATTAAG
24598929 TTATTATT
1 TTATTATT
24598937 GATTTTGTCT
Statistics
Matches: 60, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
10 2 0.03
11 56 0.93
12 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.55
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:24600348 original size:35 final size:37
Alignment explanation
Indices: 24600302--24600377 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
24600292 TTAAGCTTCA
* *
24600302 GAGTATATT-AAAAAAGA-CTAAGTGAAAAAATAAGT
1 GAGTACATTAAAAAAAAATCTAAGTGAAAAAATAAGT
*
24600337 GAGTACATTAAAAAAAAATCTAATTGAAAAAATAAGT
1 GAGTACATTAAAAAAAAATCTAAGTGAAAAAATAAGT
24600374 GAGT
1 GAGT
24600378 GATGTGTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 8 0.22
36 7 0.19
37 21 0.58
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.24
Consensus pattern (37 bp):
GAGTACATTAAAAAAAAATCTAAGTGAAAAAATAAGT
Found at i:24601501 original size:148 final size:149
Alignment explanation
Indices: 24601332--24601623 Score: 387
Period size: 148 Copynumber: 2.0 Consensus size: 149
24601322 AATTGATTTA
* * *
24601332 AATTTAAATAACTAACGAATAAAA-GATTATATATTTAATGATAAATAATCTTTATTA-A-ATAA
1 AATTTAAATAACTAACGAATAAAATG--TATATATTTAATGAAAAATAATCTTTAATACATAAAA
* *
24601394 ATAAATGATAGAAATTTAAAGGTAAATTTGTTATTTTTTAAA-TTTATAAGGATATTTAT-ACGA
64 AAAAAT-ATAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAGTTTATAAGGATATTTATGAC-A
24601457 TTCACTTTTAATACTTTTGGATT
127 TTCACTTTTAATACTTTTGGATT
* * *
24601480 AATTTAAATAATTAACTAATAAATTGTATATATTTAATGAAAAATAATCTTTAATACATAAAAAA
1 AATTTAAATAACTAACGAATAAAATGTATATATTTAATGAAAAATAATCTTTAATACATAAAAAA
* * * * *
24601545 AAATTTAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAGTTTGTAAGGGTATTTATGTCATTTA
66 AAATATAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAGTTTATAAGGATATTTATGACATTCA
*
24601610 CTTTTAATAGTTTT
131 CTTTTAATACTTTT
24601624 AGAGTTCATA
Statistics
Matches: 125, Mismatches: 14, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
147 28 0.22
148 55 0.44
149 41 0.33
150 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (149 bp):
AATTTAAATAACTAACGAATAAAATGTATATATTTAATGAAAAATAATCTTTAATACATAAAAAA
AAATATAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAGTTTATAAGGATATTTATGACATTCA
CTTTTAATACTTTTGGATT
Found at i:24606087 original size:52 final size:52
Alignment explanation
Indices: 24606001--24606125 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
24605991 TATAACCATA
* *
24606001 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
24606053 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
*
24606105 CAAACTTACCTATTAAGAATC
1 CAAACTTGCCTATTAAGAATC
24606126 TTCTTTCTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:24606142 original size:52 final size:51
Alignment explanation
Indices: 24606001--24606156 Score: 195
Period size: 52 Copynumber: 3.0 Consensus size: 51
24605991 TATAACCATA
* * * *
24606001 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCT-TTCTCTTAGAATTCTTCTCTTGCAAGT
*
24606053 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTCTTGCAAGT
* * * * *
24606105 CAAACTTACCTATTAAGAATCTTCTTTCTCTTGGAATTTTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCTCTTAGAATTCTTCTCTTGCAAGT
24606157 TTTCTTGTCC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.01
52 86 0.95
53 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:24609540 original size:21 final size:21
Alignment explanation
Indices: 24609515--24609554 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24609505 AAATGCAAAT
*
24609515 ATAAAGATAACAGTGAAAAAA
1 ATAAAAATAACAGTGAAAAAA
* *
24609536 ATAAAAATGACAGTTAAAA
1 ATAAAAATAACAGTGAAAA
24609555 GACTTTACTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (21 bp):
ATAAAAATAACAGTGAAAAAA
Found at i:24609606 original size:21 final size:23
Alignment explanation
Indices: 24609570--24609634 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 23
24609560 TACTCTAAAA
*
24609570 ATGA-ATTTGTAA-ATTATTTTT
1 ATGATATTTATAATATTATTTTT
24609591 AT-ATATTT-TAATATTA--TTT
1 ATGATATTTATAATATTATTTTT
*
24609610 ATGATATTTATAATTTTATTTTT
1 ATGATATTTATAATATTATTTTT
24609633 AT
1 AT
24609635 TATCAAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 5 0.14
20 10 0.27
21 17 0.46
23 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (23 bp):
ATGATATTTATAATATTATTTTT
Found at i:24611373 original size:8 final size:8
Alignment explanation
Indices: 24611360--24611386 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
24611350 AAAGAAAAGA
24611360 TTTCTTGG
1 TTTCTTGG
24611368 TTTCTTGG
1 TTTCTTGG
24611376 TTTCTTGG
1 TTTCTTGG
24611384 TTT
1 TTT
24611387 AAGGTCTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (8 bp):
TTTCTTGG
Found at i:24611986 original size:16 final size:16
Alignment explanation
Indices: 24611965--24611998 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
24611955 TTTTTAATAT
24611965 TTTATTTA-ATTTTATA
1 TTTATTTATA-TTTATA
24611981 TTTATTTATATTTATA
1 TTTATTTATATTTATA
24611997 TT
1 TT
24611999 AAAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTATATTTATA
Found at i:24612836 original size:24 final size:25
Alignment explanation
Indices: 24612799--24612851 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24612789 TAAAATGTTT
24612799 AAAATAATTGAAATTAA-TTTA-TTA
1 AAAATAATTGAAA-TAATTTTATTTA
24612823 AAAATTAATT-AAATAATTTTATTTA
1 AAAA-TAATTGAAATAATTTTATTTA
24612848 AAAA
1 AAAA
24612852 ATATTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATAATTGAAATAATTTTATTTA
Found at i:24613198 original size:24 final size:25
Alignment explanation
Indices: 24613161--24613213 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24613151 TAAAATGTTT
24613161 AAAATAATTGAAATTAA-TTTA-TTA
1 AAAATAATTGAAA-TAATTTTATTTA
24613185 AAAATTAATT-AAATAATTTTATTTA
1 AAAA-TAATTGAAATAATTTTATTTA
24613210 AAAA
1 AAAA
24613214 ATATTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATAATTGAAATAATTTTATTTA
Found at i:24613315 original size:362 final size:364
Alignment explanation
Indices: 24612693--24613356 Score: 1208
Period size: 362 Copynumber: 1.8 Consensus size: 364
24612683 AAAAGAGCAA
*
24612693 TTTTTATCTTGATCATTTTTTTATGTATATTGTCATAATATACAAAATAATAAGAGTAGTTGTAA
1 TTTTTATCTTGATCATTTTTTTATGTATATTGTCATAATATACAAAATAATAAGAATAGTTGTAA
24612758 TAATTTAAAATATGTGATGGAAACGAAAAAATAAAATGTTTAAAATAATTGAAATTAATTTATTA
66 TAATTTAAAATATGTGATGGAAACGAAAAAATAAAATGTTTAAAATAATTGAAATTAATTTATTA
**
24612823 AAAATTAATTAAATAATTTTATTTAAAAAATATTTTATAAAATAATTTAAATGTATCGAGCAATT
131 AAAATTAATTAAATAATTTTATTTAAAAAATATTTTATAAAATAATTTAAATGTATAAAGCAATT
* *
24612888 CTTGAAAATACAAGTAGAAGCTCCAAGTAAAACATTGAATAACCAAGGCTAAAGTAAAAAGCATA
196 CTTGAAAATACAAGTAGAAGCTCCAAGTAAAACACTGAATAACAAAGGCTAAAGTAAAAAGCATA
24612953 CTGCCTTATTTGTTTTTTACTCGAAACTAATCCAAACATTAAATGTAAATTAAAAAAATTTTAAA
261 CTGCCTTATTTGTTTTTTACTCGAAACTAATCCAAACATTAAATGTAAATTAAAAAAATTTTAAA
24613018 AGAGCAATTTTTTAATAATTTTAATGATTTATTCGTCAC
326 AGAGCAATTTTTTAATAATTTTAATGATTTATTCGTCAC
*
24613057 TTTTTATCTTGATCATTTTTTTTATGTATATTGTCATAATATACAAAATAATACGAATAG-T-T-
1 TTTTTATCTTGATCA-TTTTTTTATGTATATTGTCATAATATACAAAATAATAAGAATAGTTGTA
* *
24613119 ATAATTTAAAATTTGTGATGGAGACGAAAAAATAAAATGTTTAAAATAATTGAAATTAATTTATT
65 ATAATTTAAAATATGTGATGGAAACGAAAAAATAAAATGTTTAAAATAATTGAAATTAATTTATT
24613184 AAAAATTAATTAAATAATTTTATTTAAAAAATATTTTATAAAATAATTTAAATGTATAAAGCAAT
130 AAAAATTAATTAAATAATTTTATTTAAAAAATATTTTATAAAATAATTTAAATGTATAAAGCAAT
* *
24613249 TCTTGAAAATACAAGTAGAAGCTCCAAGTAAAACACTGAATAACAAAGGCTAAAGTGAAGAGCAT
195 TCTTGAAAATACAAGTAGAAGCTCCAAGTAAAACACTGAATAACAAAGGCTAAAGTAAAAAGCAT
24613314 ACTGCCTTATTTGTTTTTTACTCGAAACTAATCCAAACATTAA
260 ACTGCCTTATTTGTTTTTTACTCGAAACTAATCCAAACATTAA
24613357 CCTTTTTATA
Statistics
Matches: 289, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
362 230 0.80
363 1 0.00
364 16 0.06
365 42 0.15
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (364 bp):
TTTTTATCTTGATCATTTTTTTATGTATATTGTCATAATATACAAAATAATAAGAATAGTTGTAA
TAATTTAAAATATGTGATGGAAACGAAAAAATAAAATGTTTAAAATAATTGAAATTAATTTATTA
AAAATTAATTAAATAATTTTATTTAAAAAATATTTTATAAAATAATTTAAATGTATAAAGCAATT
CTTGAAAATACAAGTAGAAGCTCCAAGTAAAACACTGAATAACAAAGGCTAAAGTAAAAAGCATA
CTGCCTTATTTGTTTTTTACTCGAAACTAATCCAAACATTAAATGTAAATTAAAAAAATTTTAAA
AGAGCAATTTTTTAATAATTTTAATGATTTATTCGTCAC
Found at i:24615635 original size:525 final size:524
Alignment explanation
Indices: 24614670--24615701 Score: 1381
Period size: 525 Copynumber: 2.0 Consensus size: 524
24614660 TTGTTCTTTG
* * *
24614670 ATTTAATTGAAGTCAGAATAAGAGAGGGGTTGATAGAAAGTTTAGGTGGCAAATCTATTGATAAG
1 ATTTAATTGAAGTCAGAATAAGAAAAGGGTTGATAGAAAGTTTAGGTGACAAATCTATTGATAAG
* * * * *
24614735 ATATATTTTATATTAATAAAATTGTATCTGTAGCCTTTTGAACACTGATTTAGAGACAAATGTAG
66 ATAAATTTTATATTAATAAAATTGTACCTGTAACCTTTTGAACACTAATTTAGAGACAAACGTAG
* * * *
24614800 TTGATTATTGTAATTCAATATTTTTTAATTCTTTTTTTAGGAAAAACACTACATTTTTGTTCTTT
131 TGGATGATTATAATTCAATATTTTTTAATTCTTTTTTTAAGAAAAACACTACATTTTTGTTCTTT
** * ** * *
24614865 GAAATGTAATGAATTATTTGATTTATACTGTGTTGAGTTTGATTTGTCACGTTATTGTTTATATC
196 GAAACATAATGAATCATTTGATCAATACTGTGTTGAGTTTGATTTGTCACATTATTGTCTATATC
* *
24614930 AACCATGTTTATAATGTTGGTAACATAGTGATTGACGTAATTTAAAAAAAATATTTATGATACCT
261 AACCATGTTTATAATGTTCGTAACATAGTGATTGACGTAATTTAAAAAAAATATTAATGATACCT
* * *
24614995 AAAAATATAGCATTTAGGGTACAAACTTCACGTTCATTAGTTCGAAAATGTCTTTGATGATTTAT
326 AAAAATATAGCATTTAGGGTACAAACTTCACGTTCATTAATTCAAAAATATCTTTGATGATTTAT
* * * * * * *
24615060 CTAAAATAACGTCTTTTGGTTTCCAAATGTGATTGATAATAAATAAAAATGTTAGATATAAGAAT
391 CCAAAACAACATCTTTTAGTTTCAAAATGTGATTGATAATAAATAAAAATGTTAAACATAAGAAT
* * **
24615125 TGGTTTTATTGTGTTTCTAATGTTAGAAATGTGGGGTTTAAAGAAAAAAATAATGGTGGTTTTTC
456 TGGTGTTATTGTGTTTCCAATGTTAGAAACATGGGGTTTAAAGAAAAAAATAATGGTGGTTTTTC
24615190 CTTA
521 CTTA
* * * * * * *
24615194 ATTTAGTTGAAGTTAGAATCAGAAAAGGGTTGATGGAAGGTTTATGTGATAAATCTATTGATAAG
1 ATTTAATTGAAGTCAGAATAAGAAAAGGGTTGATAGAAAGTTTAGGTGACAAATCTATTGATAAG
* *
24615259 ATAAATTTTGTATTAATAAAATTGTACCTGTAACCTTTTGAACACTAATTTAGAGACAAACGTGG
66 ATAAATTTTATATTAATAAAATTGTACCTGTAACCTTTTGAACACTAATTTAGAGACAAACGTAG
* * *
24615324 TGGATGATTATAATTCAATATTTTTTTAATTCTTTTTTTAAGAAAAACTCTACTTTTTTGTTTTT
131 TGGATGATTATAATTCAATA-TTTTTTAATTCTTTTTTTAAGAAAAACACTACATTTTTGTTCTT
*
24615389 TGAAACATAGT-AGATCATTTGATCAATACTGTGTTGAGTTTGATTTG-CAACATTATTGTCTAT
195 TGAAACATAATGA-ATCATTTGATCAATACTGTGTTGAGTTTGATTTGTC-ACATTATTGTCTAT
*
24615452 ATCAACCATGTTTATAATGTTCGTAACGCT-GTGATTGACGTAATTTAAAAAAAATATTAATGAT
258 ATCAACCATGTTTATAATGTTCGTAAC-ATAGTGATTGACGTAATTTAAAAAAAATATTAATGAT
* * ** * * * *
24615516 ACCTAAAAGTGTAGTGTTTAGGGTACAAACTTTATGTTTATTAATTCAAAAATATTTTTGATGAT
322 ACCTAAAAATATAGCATTTAGGGTACAAACTTCACGTTCATTAATTCAAAAATATCTTTGATGAT
* * * *
24615581 TTATCCAAGACCACATCTTTTTATTTTTAAACATG-GA-TGATAATAAATAAAAATGTTAAACAT
387 TTATCCAAAACAACATC-TTTTAGTTTCAAA-ATGTGATTGATAATAAATAAAAATGTTAAACAT
* * * * *
24615644 AAGAATTTGTGTTATTTTGTTTCCAATGTTAGAAACATGGTGTTTAGAGAAATAAATA
450 AAGAATTGGTGTTATTGTGTTTCCAATGTTAGAAACATGGGGTTTAAAGAAAAAAATA
24615702 CCATGTTTTT
Statistics
Matches: 436, Mismatches: 66, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
524 132 0.30
525 289 0.66
526 12 0.03
527 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (524 bp):
ATTTAATTGAAGTCAGAATAAGAAAAGGGTTGATAGAAAGTTTAGGTGACAAATCTATTGATAAG
ATAAATTTTATATTAATAAAATTGTACCTGTAACCTTTTGAACACTAATTTAGAGACAAACGTAG
TGGATGATTATAATTCAATATTTTTTAATTCTTTTTTTAAGAAAAACACTACATTTTTGTTCTTT
GAAACATAATGAATCATTTGATCAATACTGTGTTGAGTTTGATTTGTCACATTATTGTCTATATC
AACCATGTTTATAATGTTCGTAACATAGTGATTGACGTAATTTAAAAAAAATATTAATGATACCT
AAAAATATAGCATTTAGGGTACAAACTTCACGTTCATTAATTCAAAAATATCTTTGATGATTTAT
CCAAAACAACATCTTTTAGTTTCAAAATGTGATTGATAATAAATAAAAATGTTAAACATAAGAAT
TGGTGTTATTGTGTTTCCAATGTTAGAAACATGGGGTTTAAAGAAAAAAATAATGGTGGTTTTTC
CTTA
Found at i:24626919 original size:26 final size:27
Alignment explanation
Indices: 24626871--24626928 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
24626861 GGGGTTTCTA
* * *
24626871 TATAAAAAAAAAGTTAAATGATCCTTT
1 TATAAAAAAAAAGTAAAAAGATCATTT
24626898 TATAAAAAAAAA-TAAAAAGATCATTT
1 TATAAAAAAAAAGTAAAAAGATCATTT
*
24626924 GATAA
1 TATAA
24626929 TTATCTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (27 bp):
TATAAAAAAAAAGTAAAAAGATCATTT
Found at i:24628192 original size:21 final size:21
Alignment explanation
Indices: 24628151--24628199 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
24628141 GTGTTTGTAA
*
24628151 ATTATTTATATATTTTTTAAT
1 ATTATTTATATATTTTATAAT
24628172 ATTATTTATGATA-TTTATAAT
1 ATTATTTAT-ATATTTTATAAT
*
24628193 TTTATTT
1 ATTATTT
24628200 TTATTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTATTTATATATTTTATAAT
Found at i:24628225 original size:27 final size:27
Alignment explanation
Indices: 24628194--24628257 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
24628184 ATTTATAATT
24628194 TTATTTTTATTATCA-AAATATTAATAAA
1 TTATTTTTATTAT-ATAAA-ATTAATAAA
*
24628222 -TATTATTTATTATATTAAATTAATAAA
1 TTATT-TTTATTATATAAAATTAATAAA
24628249 TTATTTTTA
1 TTATTTTTA
24628258 AATTTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATTTTTATTATATAAAATTAATAAA
Found at i:24633190 original size:23 final size:23
Alignment explanation
Indices: 24633160--24633205 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24633150 GTTTGGGCAC
24633160 TTGTGGAAGTGAAGAATAAGCAT
1 TTGTGGAAGTGAAGAATAAGCAT
24633183 TTGTGGAAGTGAAGAATAAGCAT
1 TTGTGGAAGTGAAGAATAAGCAT
24633206 ACTTAGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.30, T:0.26
Consensus pattern (23 bp):
TTGTGGAAGTGAAGAATAAGCAT
Found at i:24635704 original size:17 final size:18
Alignment explanation
Indices: 24635679--24635712 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24635669 GAATGAAAGT
24635679 GTTTCATCTT-TTTTATG
1 GTTTCATCTTATTTTATG
*
24635696 GTTTTATCTTATTTTAT
1 GTTTCATCTTATTTTAT
24635713 CTTGTTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (18 bp):
GTTTCATCTTATTTTATG
Found at i:24637360 original size:28 final size:28
Alignment explanation
Indices: 24637320--24637374 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
24637310 TAGTAATTTT
*
24637320 TTTAGTTTAGATGCCAAATCCAATAAAG
1 TTTAGTATAGATGCCAAATCCAATAAAG
24637348 TTTAGTATAGATGCCAAATCCAATAAA
1 TTTAGTATAGATGCCAAATCCAATAAA
24637375 CCACTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (28 bp):
TTTAGTATAGATGCCAAATCCAATAAAG
Found at i:24637906 original size:13 final size:12
Alignment explanation
Indices: 24637873--24637914 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
24637863 TTGAATTTTT
24637873 AAAAACAAAGACA
1 AAAAACAAAGA-A
*
24637886 AAAGACAAAGATA
1 AAAAACAAAGA-A
24637899 AAAAAC-AAGAA
1 AAAAACAAAGAA
24637910 AAAAA
1 AAAAA
24637915 AAATCATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
13 16 0.62
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.02
Consensus pattern (12 bp):
AAAAACAAAGAA
Found at i:24638274 original size:17 final size:17
Alignment explanation
Indices: 24638241--24638272 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24638231 TAAACTCTCA
24638241 TTTTTATATATTAAAAT
1 TTTTTATATATTAAAAT
24638258 TTTTTA-ATATTAAAA
1 TTTTTATATATTAAAA
24638273 ATAATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTATATATTAAAAT
Found at i:24638300 original size:19 final size:19
Alignment explanation
Indices: 24638273--24638311 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24638263 AATATTAAAA
* *
24638273 ATAATAAAACTTTAATTTT
1 ATAAAAAAAATTTAATTTT
24638292 ATAAAAAAAATTTAATTTT
1 ATAAAAAAAATTTAATTTT
24638311 A
1 A
24638312 ATATTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAAAAAATTTAATTTT
Found at i:24639694 original size:17 final size:16
Alignment explanation
Indices: 24639674--24639715 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24639664 TTCACAAAAA
24639674 TAAAAATTTAAAATTTT
1 TAAAAATTT-AAATTTT
*
24639691 TAAAAATATAAATTTT
1 TAAAAATTTAAATTTT
*
24639707 TAATAATTT
1 TAAAAATTT
24639716 TAATAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAAATTTAAATTTT
Found at i:24639701 original size:25 final size:25
Alignment explanation
Indices: 24639669--24639716 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24639659 AAAAGTTCAC
24639669 AAAAATAAAAATTTAA-AATTTTTA
1 AAAAATAAAAATTTAATAATTTTTA
**
24639693 AAAATATAAATTTTTAATAATTTT
1 AAAA-ATAAAAATTTAATAATTTT
24639717 AATAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAATAAAAATTTAATAATTTTTA
Found at i:24642938 original size:146 final size:146
Alignment explanation
Indices: 24642671--24642962 Score: 494
Period size: 146 Copynumber: 2.0 Consensus size: 146
24642661 TGCTCACAAA
* * *
24642671 TGAACCAGAAGGAAAGTGTAAGGTTATGTAGTAAGGGTTGCTACTTAATATTTAAAATGCATCAC
1 TGAACCAGAAGCAAAATGCAAGGTTATGTAGTAAGGGTTGCTACTTAATATTTAAAATGCATCAC
24642736 CACTTCATAATCCTTGTTCTTAAAAACGCATTACCAGTAATTGATAATCTACCTATCAATTATTT
66 CACTTCATAATCCTTGTTCTTAAAAACGCATTACCAGTAATTGATAATCTACCTATCAATTATTT
24642801 TAGTAGATTAGATTAG
131 TAGTAGATTAGATTAG
24642817 TGAACCAGAAGCAAAATGCAAGGTTATGTAGTAAGGGTTGCTACTTAATATTTAAAATGCATCAC
1 TGAACCAGAAGCAAAATGCAAGGTTATGTAGTAAGGGTTGCTACTTAATATTTAAAATGCATCAC
* ** * * *
24642882 CACTTCATAGTCCTTGTTCTTAAAAGTGCATTACCAGTAATTTATATTCTATCTATCAATTATTT
66 CACTTCATAATCCTTGTTCTTAAAAACGCATTACCAGTAATTGATAATCTACCTATCAATTATTT
*
24642947 TAGTAGGTTAGATTAG
131 TAGTAGATTAGATTAG
24642963 ATGACTGTGC
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 136 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (146 bp):
TGAACCAGAAGCAAAATGCAAGGTTATGTAGTAAGGGTTGCTACTTAATATTTAAAATGCATCAC
CACTTCATAATCCTTGTTCTTAAAAACGCATTACCAGTAATTGATAATCTACCTATCAATTATTT
TAGTAGATTAGATTAG
Found at i:24645525 original size:2 final size:2
Alignment explanation
Indices: 24645518--24645548 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24645508 CCTAGGTTTC
24645518 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 T
24645549 TAACATACAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24646719 original size:18 final size:17
Alignment explanation
Indices: 24646696--24646744 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
24646686 GAAATTGAAT
24646696 AAAATATTATTTTATAAA
1 AAAATATT-TTTTATAAA
*
24646714 AAAATAATTTTTTTTAAA
1 AAAAT-ATTTTTTATAAA
*
24646732 TAAAT-TTTTTTAT
1 AAAATATTTTTTAT
24646745 TTATAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.26
18 17 0.63
19 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAATATTTTTTATAAA
Found at i:24647200 original size:30 final size:30
Alignment explanation
Indices: 24647165--24647231 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
24647155 ATTTAAATTT
** *
24647165 AAATAAATAATTAATTTTTCATTTGTATTC
1 AAATAAATAATTAACATTTAATTTGTATTC
* *
24647195 AAATAAATTATTAACATTTAATTTGTATTT
1 AAATAAATAATTAACATTTAATTTGTATTC
24647225 AAATAAA
1 AAATAAA
24647232 ATTTTAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATAAATAATTAACATTTAATTTGTATTC
Found at i:24647732 original size:25 final size:26
Alignment explanation
Indices: 24647694--24647757 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
24647684 AATTTATACG
*
24647694 TAATAA-AAAATTTAAATT-ATAAAA
1 TAATAATAAATTTTAAATTCATAAAA
* * *
24647718 TAATAAT-AATTTTTAATTCTTAATA
1 TAATAATAAATTTTAAATTCATAAAA
24647743 TAATAATAAATTTTA
1 TAATAATAAATTTTA
24647758 TTAATTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 15 0.47
25 11 0.34
26 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATAATAAATTTTAAATTCATAAAA
Found at i:24647761 original size:28 final size:25
Alignment explanation
Indices: 24647694--24647784 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 25
24647684 AATTTATACG
* *
24647694 TAATAAAAAATTTA--AATTATAAAA
1 TAATAATAAATTTATTAATT-TAATA
24647718 TAATAAT-AATTT-TTAATTCTTAATA
1 TAATAATAAATTTATTAA-T-TTAATA
*
24647743 TAATAATAAATTTTATTAATTTATTA
1 TAATAATAAA-TTTATTAATTTAATA
24647769 T-ATAATAAAATTTATT
1 TAATAAT-AAATTTATT
24647785 TTTATATTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
23 5 0.09
24 8 0.14
25 23 0.41
26 12 0.21
27 4 0.07
28 4 0.07
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATAATAAATTTATTAATTTAATA
Found at i:24648231 original size:25 final size:25
Alignment explanation
Indices: 24648201--24648250 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
24648191 TTTCAACAAA
*
24648201 ACTAATTAATTTTCAGAATTTCAAT
1 ACTAATTAATTTTCAAAATTTCAAT
24648226 ACTAATTAATTTTCAAAATTTCAAT
1 ACTAATTAATTTTCAAAATTTCAAT
24648251 GAGAACCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (25 bp):
ACTAATTAATTTTCAAAATTTCAAT
Found at i:24649409 original size:18 final size:16
Alignment explanation
Indices: 24649370--24649401 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24649360 ATTAATTTTT
24649370 ATTAAATAAAAATATA
1 ATTAAATAAAAATATA
*
24649386 ATTAAATAAAATTATA
1 ATTAAATAAAAATATA
24649402 TATTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAATAAAAATATA
Found at i:24656189 original size:16 final size:16
Alignment explanation
Indices: 24656168--24656198 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24656158 ACTCAGTTAA
24656168 GAGATGCTAACAGACG
1 GAGATGCTAACAGACG
*
24656184 GAGATGCTAGCAGAC
1 GAGATGCTAACAGAC
24656199 AATCTCAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (16 bp):
GAGATGCTAACAGACG
Found at i:24664766 original size:2 final size:2
Alignment explanation
Indices: 24664754--24664783 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24664744 CCAGCATACT
24664754 TA TA T- 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 T
24664784 GATTCAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:24667960 original size:38 final size:38
Alignment explanation
Indices: 24667912--24668028 Score: 110
Period size: 38 Copynumber: 3.3 Consensus size: 38
24667902 AAAATTGGCA
*
24667912 TAAATTATTAACAATTATATTATTTACTGATAAAATGC
1 TAAAATATTAACAATTATATTATTTACTGATAAAATGC
* *
24667950 TAAAATATT---AA-T-T-TTA---ATTGA-AAATTGGC
1 TAAAATATTAACAATTATATTATTTACTGATAAAAT-GC
*
24667979 ATAAATTATTAACAATTATATTATTTACTGATAAAATGC
1 -TAAAATATTAACAATTATATTATTTACTGATAAAATGC
24668018 TAAAATATTAA
1 TAAAATATTAA
24668029 TTTTAATTGT
Statistics
Matches: 60, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
28 4 0.07
29 6 0.10
30 8 0.13
32 3 0.05
33 3 0.05
34 2 0.03
35 3 0.05
36 3 0.05
38 18 0.30
39 6 0.10
40 4 0.07
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (38 bp):
TAAAATATTAACAATTATATTATTTACTGATAAAATGC
Found at i:24667981 original size:68 final size:68
Alignment explanation
Indices: 24667896--24668037 Score: 277
Period size: 68 Copynumber: 2.1 Consensus size: 68
24667886 AGGGAAGTAC
24667896 TTAATT-AAAATTGGCATAAATTATTAACAATTATATTATTTACTGATAAAATGCTAAAATATTA
1 TTAATTGAAAATTGGCATAAATTATTAACAATTATATTATTTACTGATAAAATGCTAAAATATTA
24667960 ATT
66 ATT
24667963 TTAATTGAAAATTGGCATAAATTATTAACAATTATATTATTTACTGATAAAATGCTAAAATATTA
1 TTAATTGAAAATTGGCATAAATTATTAACAATTATATTATTTACTGATAAAATGCTAAAATATTA
24668028 ATT
66 ATT
24668031 TTAATTG
1 TTAATTG
24668038 TATATTTTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 6 0.08
68 68 0.92
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (68 bp):
TTAATTGAAAATTGGCATAAATTATTAACAATTATATTATTTACTGATAAAATGCTAAAATATTA
ATT
Found at i:24668379 original size:29 final size:31
Alignment explanation
Indices: 24668324--24668417 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 31
24668314 AAAGATTAAT
*
24668324 AATTAAAAAAAATT-ATTTAAATTTAAGTGATTA
1 AATT-AAAAAAATTCATAT-AA-TTAAGTGATTA
24668357 AATTAAAAAAATT-A-ATAATTAAGTGATTA
1 AATTAAAAAAATTCATATAATTAAGTGATTA
** * *
24668386 TTTTAAAAACATTCATATAATTAGGTGATTA
1 AATTAAAAAAATTCATATAATTAAGTGATTA
24668417 A
1 A
24668418 TTATATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 21 0.40
30 3 0.06
31 15 0.28
32 10 0.19
33 4 0.08
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (31 bp):
AATTAAAAAAATTCATATAATTAAGTGATTA
Found at i:24674417 original size:25 final size:24
Alignment explanation
Indices: 24674376--24674440 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 24
24674366 TTTACCTATC
*
24674376 AATAAGTATATTTATTAATTAATAATT
1 AATAA-TAT-TTTATTAATTAA-AATA
24674403 AATAATATTTTATT-A-TAAAATA
1 AATAATATTTTATTAATTAAAATA
*
24674425 AATAA-ATATTATTAAT
1 AATAATATTTTATTAAT
24674441 GTTATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 7 0.21
22 9 0.26
23 3 0.09
24 1 0.03
25 6 0.18
26 3 0.09
27 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AATAATATTTTATTAATTAAAATA
Found at i:24674568 original size:22 final size:22
Alignment explanation
Indices: 24674514--24674570 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
24674504 CGTAATTATT
* *
24674514 TTTGTATTTTAAACAAAATAATA
1 TTTG-ATTTTTAACAAAATAACA
24674537 TTTGATTTTTAACAAAATAACA
1 TTTGATTTTTAACAAAATAACA
24674559 TTTGATTTTTAA
1 TTTGATTTTTAA
24674571 TAATACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTGATTTTTAACAAAATAACA
Found at i:24676469 original size:5 final size:5
Alignment explanation
Indices: 24676459--24676483 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24676449 TTTTTTAGAA
24676459 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
24676484 TACCATGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:24676919 original size:15 final size:15
Alignment explanation
Indices: 24676901--24676951 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
24676891 ATAAGTAAAT
24676901 ATTTAAAATAATTTA
1 ATTTAAAATAATTTA
* *
24676916 ATTTAAATATATTTTT
1 ATTTAAA-ATAATTTA
*
24676932 ATTTTAAAT-ATTTA
1 ATTTAAAATAATTTA
24676946 TATTTA
1 -ATTTA
24676952 TTCATTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAAAATAATTTA
Found at i:24676947 original size:21 final size:25
Alignment explanation
Indices: 24676923--24676968 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 25
24676913 TTAATTTAAA
24676923 TATATTT-TT-ATT-TTAAA-TATT
1 TATATTTATTCATTATTAAAGTATT
24676944 TATATTTATTCATTATTAAAGTATT
1 TATATTTATTCATTATTAAAGTATT
24676969 ATCATCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 3 0.14
24 5 0.24
25 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
TATATTTATTCATTATTAAAGTATT
Found at i:24677556 original size:20 final size:20
Alignment explanation
Indices: 24677519--24677557 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24677509 ATTTAAAATT
*
24677519 ATTATTTTTTATATTTTTAA
1 ATTATATTTTATATTTTTAA
24677539 ATTATATTTTATGATTTTT
1 ATTATATTTTAT-ATTTTT
24677558 TATTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTATATTTTATATTTTTAA
Found at i:24677558 original size:23 final size:23
Alignment explanation
Indices: 24677496--24677559 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
24677486 AATTATGTCA
*
24677496 TATT-TTTTTGA-ATATTTAAAAT
1 TATTATTTTTGATAT-TTTTAAAT
*
24677518 TATTATTTTTTATATTTTTAAAT
1 TATTATTTTTGATATTTTTAAAT
24677541 TA-TATTTTATGAT-TTTTTA
1 TATTATTTT-TGATATTTTTA
24677560 TTTTTTGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 16 0.44
23 18 0.50
24 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (23 bp):
TATTATTTTTGATATTTTTAAAT
Found at i:24678978 original size:6 final size:6
Alignment explanation
Indices: 24678932--24678994 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
24678922 AAATTCGATC
* * * *
24678932 AAATTT -AATTT GAATTTT AAATTT CATATTT AAAATT AAATTC AAATTT
1 AAATTT AAATTT -AAATTT AAATTT -AAATTT AAATTT AAATTT AAATTT
24678981 AAATTT AAATTT AA
1 AAATTT AAATTT AA
24678995 TATTATATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 5 0.11
6 32 0.70
7 9 0.20
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:24683144 original size:13 final size:13
Alignment explanation
Indices: 24683093--24683153 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
24683083 AATTTCATAA
24683093 TTTATTAAA-ATT
1 TTTATTAAATATT
**
24683105 TTTAACATAATATT
1 TTTATTA-AATATT
24683119 TTAGTATTTAAATATT
1 TT--TA-TTAAATATT
*
24683135 TTTATTAAATAAT
1 TTTATTAAATATT
24683148 TTTATT
1 TTTATT
24683154 TAATTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 5 0.13
13 16 0.41
14 7 0.18
16 10 0.26
17 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (13 bp):
TTTATTAAATATT
Found at i:24683181 original size:16 final size:16
Alignment explanation
Indices: 24683160--24683190 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24683150 TATTTAATTT
24683160 ATTTAAAATATAAAAA
1 ATTTAAAATATAAAAA
*
24683176 ATTTAAAATTTAAAA
1 ATTTAAAATATAAAA
24683191 TATAATTTAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTTAAAATATAAAAA
Found at i:24683611 original size:15 final size:15
Alignment explanation
Indices: 24683568--24683615 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
24683558 TAATTTTTTC
*
24683568 AAAAAATTAAATTTTA
1 AAAAAATTAAA-ATTA
*
24683584 GATAAAA-TAAAATTA
1 -AAAAAATTAAAATTA
24683599 AAAAAATTAAAATTA
1 AAAAAATTAAAATTA
24683614 AA
1 AA
24683616 TCGGATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 13 0.48
16 4 0.15
17 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAAATTAAAATTA
Found at i:24683752 original size:22 final size:22
Alignment explanation
Indices: 24683724--24683765 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
24683714 AATTATATAT
24683724 AAAATAATATTTTATATTTTAA
1 AAAATAATATTTTATATTTTAA
24683746 AAAATAATATTTTATATTTT
1 AAAATAATATTTTATATTTT
24683766 GAATCGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAAATAATATTTTATATTTTAA
Found at i:24684406 original size:6 final size:6
Alignment explanation
Indices: 24684384--24684441 Score: 80
Period size: 6 Copynumber: 9.2 Consensus size: 6
24684374 AAATTTTTTT
*
24684384 ATTAAA ATAATAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAATA
1 ATTAAA ATTA-AA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAA-A
24684434 TATTAAA A
1 -ATTAAA A
24684442 GATTTCGTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
6 35 0.74
7 7 0.15
8 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATTAAA
Found at i:24684514 original size:14 final size:13
Alignment explanation
Indices: 24684490--24684528 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
24684480 AAATTTAATA
24684490 AATTTTAATAAAT
1 AATTTTAATAAAT
24684503 AATTTTAGATAAAT
1 AATTTTA-ATAAAT
*
24684517 ATTTTTAATAAA
1 AATTTTAATAAA
24684529 AATATTGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AATTTTAATAAAT
Done.