Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 95 of 126
Found at i:18483476 original size:28 final size:28
Alignment explanation
Indices: 18483445--18483498 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
18483435 CTAAATGTAC
18483445 ATATCCTATAAGTAATATATATATATAT
1 ATATCCTATAAGTAATATATATATATAT
* *
18483473 ATATCTTATAAGTAATATGTATATAT
1 ATATCCTATAAGTAATATATATATAT
18483499 CCTATAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (28 bp):
ATATCCTATAAGTAATATATATATATAT
Found at i:18483588 original size:21 final size:22
Alignment explanation
Indices: 18483554--18483595 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18483544 CGATTTTGAC
18483554 ATTATGATGAGATGTACATATT
1 ATTATGATGAGATGTACATATT
* *
18483576 ATTAT-ATTAGATGTATATAT
1 ATTATGATGAGATGTACATAT
18483596 CTTATAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTATGATGAGATGTACATATT
Found at i:18483717 original size:100 final size:100
Alignment explanation
Indices: 18483539--18483718 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 100
18483529 AAACTTAATC
* * * * *
18483539 AATTACGATTTTGACATTATGATGAGATGTACATATTATTATATTAGATGTATATATCTTATAAG
1 AATTACAATTTTGACAATATAATGAGATGTACATATAATTATATTAAATGTATATATCTTATAAG
* *
18483604 CAGTATGTGCATATCTTATAAAAAGATAAGTTATG
66 CAGTATATACATATCTTATAAAAAGATAAGTTATG
*
18483639 AATTACAATTTTGACAATATAATGAGATGTACATATAATTATATTTAAATGTATCTATCTTATAA
1 AATTACAATTTTGACAATATAATGAGATGTACATATAATTATA-TTAAATGTATATATCTTATAA
*
18483704 GTA-TATATACATATC
65 GCAGTATATACATATC
18483719 CTCACTAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
100 49 0.70
101 21 0.30
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (100 bp):
AATTACAATTTTGACAATATAATGAGATGTACATATAATTATATTAAATGTATATATCTTATAAG
CAGTATATACATATCTTATAAAAAGATAAGTTATG
Found at i:18486274 original size:31 final size:30
Alignment explanation
Indices: 18486237--18486319 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 30
18486227 TTATGTTAGC
*
18486237 AATTTATTTAAGTACAAATTAGAAGTTTAAG
1 AATTTATTTAAGTACAAATTA-AAGTTTAAA
18486268 AATTTATTT-AGATACAAATTAAAGTTTAAA
1 AATTTATTTAAG-TACAAATTAAAGTTTAAA
* *
18486298 AATTT-TTTAGGTGCAAATTAAA
1 AATTTATTTAAGTACAAATTAAA
18486320 TAATAAGAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 13 0.28
30 16 0.34
31 18 0.38
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (30 bp):
AATTTATTTAAGTACAAATTAAAGTTTAAA
Found at i:18486295 original size:30 final size:30
Alignment explanation
Indices: 18486237--18486336 Score: 107
Period size: 29 Copynumber: 3.3 Consensus size: 30
18486227 TTATGTTAGC
18486237 AATTTATTTA-AGTACAAATTAGAAGTTTAAG
1 AATTTATTTAGA-TACAAATTA-AAGTTTAAG
*
18486268 AATTTATTTAGATACAAATTAAAGTTTAAA
1 AATTTATTTAGATACAAATTAAAGTTTAAG
* * *
18486298 AATTT-TTTAGGTGCAAATTAAA-TAATAAG
1 AATTTATTTAGATACAAATTAAAGT-TTAAG
*
18486327 AACTTATTTA
1 AATTTATTTA
18486337 AATGCATTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.02
29 22 0.37
30 17 0.28
31 19 0.32
32 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (30 bp):
AATTTATTTAGATACAAATTAAAGTTTAAG
Found at i:18490089 original size:14 final size:14
Alignment explanation
Indices: 18490070--18490096 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18490060 ATTAACTCTT
18490070 AAAATTAATATATA
1 AAAATTAATATATA
18490084 AAAATTAATATAT
1 AAAATTAATATAT
18490097 TTTAAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTAATATATA
Found at i:18500424 original size:22 final size:22
Alignment explanation
Indices: 18500396--18500439 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18500386 TGTAACTAAT
18500396 TGTTTTCCGTGGAGTGGTTTGG
1 TGTTTTCCGTGGAGTGGTTTGG
*
18500418 TGTTTTCTGTGGAGTGGTTTGG
1 TGTTTTCCGTGGAGTGGTTTGG
18500440 GACAAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.05, C:0.07, G:0.41, T:0.48
Consensus pattern (22 bp):
TGTTTTCCGTGGAGTGGTTTGG
Found at i:18505324 original size:5 final size:5
Alignment explanation
Indices: 18505314--18505338 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18505304 TGCTACATCG
18505314 AGAAT AGAAT AGAAT AGAAT AGAAT
1 AGAAT AGAAT AGAAT AGAAT AGAAT
18505339 GCTAATATAG
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
AGAAT
Found at i:18506236 original size:19 final size:19
Alignment explanation
Indices: 18506209--18506245 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18506199 ATTTCAAGTA
18506209 GTTTAGTTTGCTTTGTTTT
1 GTTTAGTTTGCTTTGTTTT
* *
18506228 GTTTCGTTTGGTTTGTTT
1 GTTTAGTTTGCTTTGTTT
18506246 ATTTTTACAT
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:0.03, C:0.05, G:0.24, T:0.68
Consensus pattern (19 bp):
GTTTAGTTTGCTTTGTTTT
Found at i:18506568 original size:2 final size:2
Alignment explanation
Indices: 18506557--18506585 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18506547 AACTATAACC
18506557 TA TA -A 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
18506586 ATCATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18514573 original size:166 final size:166
Alignment explanation
Indices: 18514299--18514631 Score: 630
Period size: 166 Copynumber: 2.0 Consensus size: 166
18514289 GCCCATGTGA
*
18514299 TTCAGAGAAGCCCCACAAGACAATCCAAATGCACTAACTCACTACTAGTCTTTCCTAACCCTTTT
1 TTCAGAGAAGCCCCACAAGACAATCCAAATGCACTAACTCACCACTAGTCTTTCCTAACCCTTTT
18514364 TATTACAGCATCAAAATCAAAGTCATCACTGCTCAGCTTTTTTTTTTTTTCCTTTCTGTTTTGAG
66 TATTACAGCATCAAAATCAAAGTCATCACTGCTCAGCTTTTTTTTTTTTTCCTTTCTGTTTTGAG
* *
18514429 ACTCCTAGGTGGGACTACCCTTTTGCTGACCCACTT
131 ACACCTAGGTGGGACTACCCTTTTGCAGACCCACTT
*
18514465 TTCAGAGAAGCCCCCCAAGACAATCCAAATGCACTAACTCACCACTAGTCTTTCCTAACCCTTTT
1 TTCAGAGAAGCCCCACAAGACAATCCAAATGCACTAACTCACCACTAGTCTTTCCTAACCCTTTT
18514530 TATTACAGCATCAAAATCAAAGTCATCACTGCTCAGCTTTTTTTTTTTTTCCTTTCTGTTTTGAG
66 TATTACAGCATCAAAATCAAAGTCATCACTGCTCAGCTTTTTTTTTTTTTCCTTTCTGTTTTGAG
18514595 ACACCTAGGTGGGACTACCCTTTTGCAGACCCACTT
131 ACACCTAGGTGGGACTACCCTTTTGCAGACCCACTT
18514631 T
1 T
18514632 GTCTATATCA
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (166 bp):
TTCAGAGAAGCCCCACAAGACAATCCAAATGCACTAACTCACCACTAGTCTTTCCTAACCCTTTT
TATTACAGCATCAAAATCAAAGTCATCACTGCTCAGCTTTTTTTTTTTTTCCTTTCTGTTTTGAG
ACACCTAGGTGGGACTACCCTTTTGCAGACCCACTT
Found at i:18518466 original size:13 final size:13
Alignment explanation
Indices: 18518448--18518473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18518438 TATAATCATG
18518448 ATTATAAAATAGT
1 ATTATAAAATAGT
18518461 ATTATAAAATAGT
1 ATTATAAAATAGT
18518474 GTTGTTAGAT
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):
ATTATAAAATAGT
Found at i:18520591 original size:18 final size:18
Alignment explanation
Indices: 18520558--18520592 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18520548 TTTAATAAGC
* *
18520558 TTGGTGTTGGTTTTGGTT
1 TTGGTGTTGATGTTGGTT
18520576 TTGGTGTTGATGTTGGT
1 TTGGTGTTGATGTTGGT
18520593 GTGCTCATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.40, T:0.57
Consensus pattern (18 bp):
TTGGTGTTGATGTTGGTT
Found at i:18522253 original size:29 final size:29
Alignment explanation
Indices: 18522221--18522278 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
18522211 ATTTATCCAA
18522221 TTAAAATTTTAATTAAGTGAAATAAAAAT
1 TTAAAATTTTAATTAAGTGAAATAAAAAT
* * *
18522250 TTAAAATTTTAATTTATTGTAATAAAAAT
1 TTAAAATTTTAATTAAGTGAAATAAAAAT
18522279 AATAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (29 bp):
TTAAAATTTTAATTAAGTGAAATAAAAAT
Found at i:18524920 original size:17 final size:16
Alignment explanation
Indices: 18524899--18524986 Score: 70
Period size: 17 Copynumber: 5.3 Consensus size: 16
18524889 AAGCTTTATT
*
18524899 ATTTAATTATTAAAAA
1 ATTTTATTATTAAAAA
18524915 ATTTTATTTATTAAAAA
1 ATTTTA-TTATTAAAAA
* *
18524932 CTCTTATTCATT-AAAA
1 ATTTTATT-ATTAAAAA
*
18524948 ATATTTATTTTTAAATAA
1 AT-TTTATTATTAAA-AA
* * *
18524966 TTTTTATTAATAAATA
1 ATTTTATTATTAAAAA
18524982 ATTTT
1 ATTTT
18524987 TTAATCGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
16 19 0.34
17 34 0.61
18 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTATTATTAAAAA
Found at i:18524975 original size:30 final size:34
Alignment explanation
Indices: 18524904--18524989 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 34
18524894 TTATTATTTA
18524904 ATTATTAAAAA-ATTTTATTTATTAAAAACTCTT
1 ATTATTAAAAATATTTTATTTATTAAAAACTCTT
* *
18524937 ATTCATTAAAAATA-TTTATTT-TTAAATAATTTTT
1 ATT-ATTAAAAATATTTTATTTATTAAA-AACTCTT
* *
18524971 ATTAATAAATAATTTTTTA
1 ATTATTAAA-AATATTTTA
18524990 ATCGATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 13 0.30
34 26 0.59
35 5 0.11
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (34 bp):
ATTATTAAAAATATTTTATTTATTAAAAACTCTT
Found at i:18531849 original size:24 final size:24
Alignment explanation
Indices: 18531817--18531863 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
18531807 GCTTTAGCTT
18531817 TGTAGAAAATTCTGACAAAGCAAG
1 TGTAGAAAATTCTGACAAAGCAAG
18531841 TGTAGAAAATTCTGACAAAGCAA
1 TGTAGAAAATTCTGACAAAGCAA
18531864 AGTGGCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (24 bp):
TGTAGAAAATTCTGACAAAGCAAG
Found at i:18533513 original size:2 final size:2
Alignment explanation
Indices: 18533506--18533555 Score: 55
Period size: 2 Copynumber: 24.0 Consensus size: 2
18533496 TATGTATGTT
* *
18533506 TG TG TG TG TG TG TG TG TG TG TG GG TG TG TG TA TG CTCG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG -T-G TG TG TG
*
18533550 TA TG TG
1 TG TG TG
18533556 GTTGGATACA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 37 0.93
3 2 0.05
4 1 0.03
ACGTcount: A:0.04, C:0.04, G:0.46, T:0.46
Consensus pattern (2 bp):
TG
Found at i:18538306 original size:2 final size:2
Alignment explanation
Indices: 18538301--18538333 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18538291 TCATATATAC
18538301 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
18538334 GCTGTGTCTA
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:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:18549048 original size:25 final size:26
Alignment explanation
Indices: 18548994--18549048 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
18548984 TAATTTCTTT
* *
18548994 TAATTTTTTATATATTAATTTAATAA
1 TAATTTTTAATATATTAATATAATAA
*
18549020 -AATTTTTAATATATTTATATAA-AA
1 TAATTTTTAATATATTAATATAATAA
18549044 TAATT
1 TAATT
18549049 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TAATTTTTAATATATTAATATAATAA
Found at i:18554965 original size:22 final size:22
Alignment explanation
Indices: 18554937--18554980 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18554927 ATTTTTTGTC
* *
18554937 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
18554959 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
18554981 TAAATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:18554992 original size:22 final size:22
Alignment explanation
Indices: 18554949--18554992 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18554939 TAATTTTAGG
* *
18554949 GATACAAATACTTAATTCTAGA
1 GATACAAATACTAAATACTAGA
18554971 GATACAAATA-TAAATACATAGA
1 GATACAAATACTAAATAC-TAGA
18554993 TTACAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (22 bp):
GATACAAATACTAAATACTAGA
Found at i:18566502 original size:21 final size:21
Alignment explanation
Indices: 18566477--18566518 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18566467 TAAAACATTG
18566477 GCCTCTTGCAACAGGTAACTT
1 GCCTCTTGCAACAGGTAACTT
18566498 GCCTCTTGCAACAGGTAACTT
1 GCCTCTTGCAACAGGTAACTT
18566519 TTCTATTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (21 bp):
GCCTCTTGCAACAGGTAACTT
Found at i:18587822 original size:23 final size:24
Alignment explanation
Indices: 18587790--18587834 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18587780 AATATAAAAT
*
18587790 ATTTTTTATT-TATAATTTTTAAA
1 ATTTTATATTATATAATTTTTAAA
*
18587813 ATTTTATATTATATTATTTTTA
1 ATTTTATATTATATAATTTTTA
18587835 TATCGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTATATTATATAATTTTTAAA
Found at i:18589764 original size:22 final size:24
Alignment explanation
Indices: 18589720--18589765 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
18589710 TATTAATTTT
*
18589720 AATTTTTATATATTATTTTAATAA
1 AATTTTTATATATTATTTAAATAA
18589744 AATTTTTA-ATA-TATTTAAATAA
1 AATTTTTATATATTATTTAAATAA
18589766 TTTATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTTTTATATATTATTTAAATAA
Found at i:18589777 original size:15 final size:15
Alignment explanation
Indices: 18589753--18589782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18589743 AAATTTTTAA
*
18589753 TATATTTAAATAATT
1 TATATATAAATAATT
18589768 TATATATAAATAATT
1 TATATATAAATAATT
18589783 ATTTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATAAATAATT
Found at i:18589949 original size:20 final size:24
Alignment explanation
Indices: 18589924--18589979 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
18589914 TTAATCCAAA
18589924 TCAAAT-AA-TAAATAATA-AA-T
1 TCAAATAAATTAAATAATACAATT
18589944 TCAAATTAAATTAAATAATACAATT
1 TCAAA-TAAATTAAATAATACAATT
*
18589969 TCAAATCAATT
1 TCAAATAAATT
18589980 TTTAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.17
21 1 0.03
22 2 0.07
23 9 0.30
24 7 0.23
25 6 0.20
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (24 bp):
TCAAATAAATTAAATAATACAATT
Found at i:18589949 original size:25 final size:25
Alignment explanation
Indices: 18589920--18589977 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
18589910 AAATTTAATC
18589920 CAAATCAAATAATAAATAATA-AA-TT
1 CAAATCAAAT--TAAATAATACAATTT
*
18589945 CAAATTAAATTAAATAATACAATTT
1 CAAATCAAATTAAATAATACAATTT
18589970 CAAATCAA
1 CAAATCAA
18589978 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 2 0.07
25 18 0.62
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (25 bp):
CAAATCAAATTAAATAATACAATTT
Found at i:18591198 original size:2 final size:2
Alignment explanation
Indices: 18591191--18591219 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18591181 CAGAACCTTG
18591191 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 T
18591220 CATTTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18597116 original size:42 final size:43
Alignment explanation
Indices: 18597057--18597170 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
18597047 AAGAGATGAA
*
18597057 GCAAAATGGTTTTCTTTCATCTTCTCATGGGA-GTATATCTAT
1 GCAAAATGGTTTACTTTCATCTTCTCATGGGAGGTATATCTAT
* *
18597099 GCAAAATGGTTTGCTTTCATCTTCTCAT-GGAGGTATATTTAT
1 GCAAAATGGTTTACTTTCATCTTCTCATGGGAGGTATATCTAT
**
18597141 GCAAAATGGTTTACCGTCATCTTCTCATGG
1 GCAAAATGGTTTACTTTCATCTTCTCATGG
18597171 TGGAATAACA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 3 0.05
42 61 0.94
43 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (43 bp):
GCAAAATGGTTTACTTTCATCTTCTCATGGGAGGTATATCTAT
Found at i:18609380 original size:62 final size:60
Alignment explanation
Indices: 18609306--18609440 Score: 184
Period size: 60 Copynumber: 2.2 Consensus size: 60
18609296 ATTTAAGACG
* * *
18609306 TTTTT-GGTAAAAAACGTATTGAATAATTCTCTTAAAAGAAGGAAGGGATTATTCAAGGT-T
1 TTTTTAGGCAAAAAAC--ATTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAAGGTAT
* *
18609366 TTTTCTAGGCAAAAAACCTTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAATGTAT
1 TTTT-TAGGCAAAAAACATTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAAGGTAT
18609427 TTTTTAGGCAAAAA
1 TTTTTAGGCAAAAA
18609441 TGCCTTGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 52 0.78
61 6 0.09
62 9 0.13
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (60 bp):
TTTTTAGGCAAAAAACATTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAAGGTAT
Found at i:18609392 original size:60 final size:61
Alignment explanation
Indices: 18609324--18609453 Score: 201
Period size: 60 Copynumber: 2.1 Consensus size: 61
18609314 AAAAAACGTA
* *
18609324 TTGAATAATTCTCTTAAAAGAAGGAAGGGATTATTCAAGGT-TTTTTCTAGGCAAAAA-ACC
1 TTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAAGGTATTTTT-TAGGCAAAAATACC
* *
18609384 TTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAATGTATTTTTTAGGCAAAAATGCC
1 TTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAAGGTATTTTTTAGGCAAAAATACC
18609445 TTGAATAAT
1 TTGAATAAT
18609454 CTCCATTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
60 48 0.75
61 16 0.25
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (61 bp):
TTGAATAATTCTCTCAAAAAAAGGAAGGGATTATTCAAGGTATTTTTTAGGCAAAAATACC
Found at i:18609491 original size:44 final size:45
Alignment explanation
Indices: 18609413--18609497 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 45
18609403 AAAGGAAGGG
*
18609413 ATTATTCAATGTATTTTTTAGGCAAAAATGCCTTGAATAATCTCC
1 ATTATTCAATGTATTTTTTAGGCAAAAATACCTTGAATAATCTCC
*
18609458 ATTATTCAA-G-ATATTTTT-GGCTAAAAATACCTTGGATAAT
1 ATTATTCAATGTAT-TTTTTAGGC-AAAAATACCTTGAATAAT
18609498 TCCCTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
43 5 0.14
44 22 0.61
45 9 0.25
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (45 bp):
ATTATTCAATGTATTTTTTAGGCAAAAATACCTTGAATAATCTCC
Found at i:18609683 original size:124 final size:123
Alignment explanation
Indices: 18609458--18609685 Score: 266
Period size: 124 Copynumber: 1.8 Consensus size: 123
18609448 AATAATCTCC
* * * *
18609458 ATTATTCAAGATATTTTTGGCTAAAAATACCTTGGATAATTCCCTTAAAAAATTTTAAAGGGATT
1 ATTATTCAAGACATTTTTGGCTAAAAATACATTGAATAATTCCCTCAAAAAATTTTAAAGGGATT
* *
18609523 ATTCAAGGCCTTTTGACCAGAAATGTCTTCAATAATCTCATTCAATTTTTTATAAAGG
66 ATTCAAGGCATTTTGAACAGAAATGTCTTCAATAATCTCATTCAATTTTTTATAAAGG
* * *
18609581 ATTATTCAAGGCATTTTCTGGGC-AAAAATACATTGAATAATTTCGTCATAAAAA-TTT-AAGGG
1 ATTATTCAAGACATTTT-T-GGCTAAAAATACATTGAATAATTCCCTCA-AAAAATTTTAAAGGG
* * * *
18609643 ATTATTGAAGGCATTTTTAACTGAAAATG-CTTTGAATAATCTC
63 ATTATTCAAGGCATTTTGAACAG-AAATGTC-TTCAATAATCTC
18609686 CTCATAAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
123 39 0.45
124 40 0.46
125 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (123 bp):
ATTATTCAAGACATTTTTGGCTAAAAATACATTGAATAATTCCCTCAAAAAATTTTAAAGGGATT
ATTCAAGGCATTTTGAACAGAAATGTCTTCAATAATCTCATTCAATTTTTTATAAAGG
Found at i:18609731 original size:61 final size:60
Alignment explanation
Indices: 18609579--18609738 Score: 194
Period size: 61 Copynumber: 2.6 Consensus size: 60
18609569 TTTTTATAAA
* * * * *
18609579 GGATTATTCAAGGCATTTTCTGGGCAAAAATACATTGAATAATTTCGTCATAAAAATTTAAG
1 GGATTATTGAAGGCATTTT-TGGTC-AAAATACATTGAATAATCTCCTCATAAAAATTGAAG
** * * *
18609641 GGATTATTGAAGGCATTTTTAACTGAAAATGCTTTGAATAATCTCCTCATAAAAATTGAAG
1 GGATTATTGAAGGCATTTTT-GGTCAAAATACATTGAATAATCTCCTCATAAAAATTGAAG
18609702 GAGATTATTGAAGGCATTTTTGGTCAAAATACATTGA
1 G-GATTATTGAAGGCATTTTTGGTCAAAATACATTGA
18609739 CTAACCTCAT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
61 44 0.54
62 37 0.46
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (60 bp):
GGATTATTGAAGGCATTTTTGGTCAAAATACATTGAATAATCTCCTCATAAAAATTGAAG
Found at i:18610670 original size:26 final size:26
Alignment explanation
Indices: 18610634--18610692 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
18610624 AAAGTAAAAA
18610634 AAAAATTTAAGTATTATATATTTTTT
1 AAAAATTTAAGTATTATATATTTTTT
18610660 AAAAATTTAAGTATTATATATTTTTT
1 AAAAATTTAAGTATTATATATTTTTT
*
18610686 AGAAATT
1 AAAAATT
18610693 ATATTTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (26 bp):
AAAAATTTAAGTATTATATATTTTTT
Found at i:18614998 original size:2 final size:2
Alignment explanation
Indices: 18614993--18615034 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18614983 TATAAAGATT
18614993 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18615035 GTTTAAACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18616330 original size:1 final size:1
Alignment explanation
Indices: 18616320--18616381 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
18616310 TATATAAGAT
* * * * ** * *
18616320 AAAAATAAAAAAAATAAAAAAAATAAAAAAATAAAAAACTAAAAAAATAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18616382 TAAATTTTTT
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.02, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:18616338 original size:8 final size:8
Alignment explanation
Indices: 18616320--18616385 Score: 98
Period size: 8 Copynumber: 8.1 Consensus size: 8
18616310 TATATAAGAT
18616320 AAAAATAAA
1 AAAAAT-AA
18616329 AAAAATAAA
1 AAAAAT-AA
18616338 AAAAATAA
1 AAAAATAA
18616346 AAAAATAA
1 AAAAATAA
*
18616354 AAAACTAA
1 AAAAATAA
18616362 AAAAATAA
1 AAAAATAA
18616370 AAAAAT-A
1 AAAAATAA
18616377 AAAAATAA
1 AAAAATAA
18616385 A
1 A
18616386 TTTTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
7 7 0.13
8 32 0.59
9 15 0.28
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:18618124 original size:3 final size:3
Alignment explanation
Indices: 18618116--18618148 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
18618106 AGTAACTTAC
*
18618116 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18618149 TAAATTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18630527 original size:20 final size:20
Alignment explanation
Indices: 18630499--18630536 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18630489 CCGATGCAAT
*
18630499 TGTTGACTTTGCTAATGTAG
1 TGTTAACTTTGCTAATGTAG
*
18630519 TGTTAACTTTGTTAATGT
1 TGTTAACTTTGCTAATGT
18630537 TGGGATGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (20 bp):
TGTTAACTTTGCTAATGTAG
Found at i:18634449 original size:20 final size:19
Alignment explanation
Indices: 18634409--18634461 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
18634399 AAATTTTGTC
*
18634409 AATAAAATTCATCGATCAT
1 AATAAAATTCATCGATAAT
*
18634428 AATAAAATTCCTTCGATAAT
1 AATAAAATT-CATCGATAAT
*
18634448 AATCAAATTTCATC
1 AAT-AAAATTCATC
18634462 AGTAAAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.32
20 14 0.50
21 5 0.18
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (19 bp):
AATAAAATTCATCGATAAT
Found at i:18637242 original size:24 final size:23
Alignment explanation
Indices: 18637187--18637242 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
18637177 AAGCAAACTC
*
18637187 TTGTGTTTCATCATCATCATCATT
1 TTGT-TTTCATCATCATCATCATA
*
18637211 TTCTTTTTCATCATCATCATCATCA
1 TT-GTTTTCATCATCATCATCAT-A
18637236 TTGTTTT
1 TTGTTTT
18637243 GTTCTTCTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.20, C:0.21, G:0.05, T:0.54
Consensus pattern (23 bp):
TTGTTTTCATCATCATCATCATA
Found at i:18638470 original size:17 final size:17
Alignment explanation
Indices: 18638448--18638483 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18638438 TTTTTTCTAA
18638448 AGATGATGAAGAAACCT
1 AGATGATGAAGAAACCT
18638465 AGATGATGAAGAAACCT
1 AGATGATGAAGAAACCT
18638482 AG
1 AG
18638484 TCATCATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (17 bp):
AGATGATGAAGAAACCT
Found at i:18643684 original size:22 final size:20
Alignment explanation
Indices: 18643652--18643695 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
18643642 ACATGTTAAA
18643652 ATTTTGTAATTTATCATATTACT
1 ATTTTGTAA-TTAT-ATA-TACT
18643675 ATTTT-TAATTATATATACT
1 ATTTTGTAATTATATATACT
18643694 AT
1 AT
18643696 ATTGAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.29
20 3 0.14
21 4 0.19
22 3 0.14
23 5 0.24
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTGTAATTATATATACT
Found at i:18649835 original size:3 final size:3
Alignment explanation
Indices: 18649827--18649865 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
18649817 AAGTAACTTG
18649827 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18649866 AAAATTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18650479 original size:13 final size:13
Alignment explanation
Indices: 18650461--18650486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18650451 AAATAACTTG
18650461 ATTTTTATTTTTT
1 ATTTTTATTTTTT
18650474 ATTTTTATTTTTT
1 ATTTTTATTTTTT
18650487 CTATAACCAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:18651275 original size:22 final size:23
Alignment explanation
Indices: 18651229--18651277 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
18651219 TCTAAAAAAG
** *
18651229 TTTTTTAATATTTAAATTTTTTA
1 TTTTTTAATATTTAAAAATTATA
18651252 TTTTTT-ATATTTAAAAATTATA
1 TTTTTTAATATTTAAAAATTATA
18651274 TTTT
1 TTTT
18651278 AAAACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTAATATTTAAAAATTATA
Found at i:18653368 original size:29 final size:29
Alignment explanation
Indices: 18653336--18653397 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
18653326 ATTAAAAATA
* *
18653336 TATTAAAAAAAATTAATATTTTAATATTT
1 TATTAAAAAAAATTAAGATTATAATATTT
* * * *
18653365 TATTATATAAAATTACGATTATAATTTTT
1 TATTAAAAAAAATTAAGATTATAATATTT
18653394 TATT
1 TATT
18653398 TTATTATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TATTAAAAAAAATTAAGATTATAATATTT
Found at i:18655474 original size:3 final size:3
Alignment explanation
Indices: 18655419--18655461 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
18655409 AAGTAACTTG
*
18655419 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18655462 TAAATTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18656073 original size:13 final size:13
Alignment explanation
Indices: 18656055--18656080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18656045 AAATAACTTG
18656055 ATTTTTATTTTTT
1 ATTTTTATTTTTT
18656068 ATTTTTATTTTTT
1 ATTTTTATTTTTT
18656081 CTATAACCAA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:18656877 original size:13 final size:13
Alignment explanation
Indices: 18656861--18656886 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18656851 ATTTTTATTT
18656861 TTATATTTTAAAA
1 TTATATTTTAAAA
18656874 TTATATTTTAAAA
1 TTATATTTTAAAA
18656887 CTTTTTTAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATTTTAAAA
Found at i:18656880 original size:21 final size:23
Alignment explanation
Indices: 18656828--18656882 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
18656818 TTCTAAAATT
18656828 ATTTATATTTTTTAATATTAAAA
1 ATTTATATTTTTTAATATTAAAA
* *
18656851 ATTTTTA-TTTTT-ATATTTTAAA
1 ATTTATATTTTTTAATA-TTAAAA
18656873 A-TTATATTTT
1 ATTTATATTTT
18656883 AAAACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.26
22 14 0.52
23 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTATATTTTTTAATATTAAAA
Found at i:18663825 original size:13 final size:14
Alignment explanation
Indices: 18663809--18663837 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18663799 TCATCGGTAA
18663809 TTATTGATGGA-TT
1 TTATTGATGGAGTT
18663822 TTATTGATGGAGTT
1 TTATTGATGGAGTT
18663836 TT
1 TT
18663838 CCATTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (14 bp):
TTATTGATGGAGTT
Found at i:18664969 original size:158 final size:159
Alignment explanation
Indices: 18664666--18664959 Score: 394
Period size: 162 Copynumber: 1.8 Consensus size: 159
18664656 TATCATTCTA
* * * *
18664666 ACTATATATGTTCAATTCCATTTGCCCTACAATGTTTAGGCTTTCAATTACTACACTATGTATTT
1 ACTATATATGTTCAATACCATTCGCCCTACAATGTTTAGGCTTTCAATTACTACACTATCTACTT
* **
18664731 CATCAACAATCACAATACACAACAAGAATCACAAAGCAAAATATGCAATAGTTTTCACCTTCGTA
66 CATCAACAATCACAATACACAACAAGAATCACAAAGCAAAATAAGCAATAGTTTTCACCTTCACA
18664796 AAGTCATTGCATCTCAATAAGCACAAAAC
131 AAGTCATTGCATCTCAATAAGCACAAAAC
* * * *
18664825 ACTATATA-GTTCAATACCATTCGTCCTGCAATGTTTAGTCTTTCAATTGCTATACTATCTATCT
1 ACTATATATGTTCAATACCATTCGCCCTACAATGTTTAGGCTTTCAATTAC--TAC-A-CTATCT
* * * *
18664889 ACTTCATCAATAATCACAATACATAACCAGAATCACAAAGCAAAATAAGCAATA-TTTTCATCTT
62 ACTTCATCAACAATCACAATACACAACAAGAATCACAAAGCAAAATAAGCAATAGTTTTCA-CCT
18664953 TCACAAA
126 TCACAAA
18664960 TATGATCTCA
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
158 36 0.31
159 8 0.07
160 3 0.03
161 7 0.06
162 61 0.53
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (159 bp):
ACTATATATGTTCAATACCATTCGCCCTACAATGTTTAGGCTTTCAATTACTACACTATCTACTT
CATCAACAATCACAATACACAACAAGAATCACAAAGCAAAATAAGCAATAGTTTTCACCTTCACA
AAGTCATTGCATCTCAATAAGCACAAAAC
Found at i:18665520 original size:7 final size:6
Alignment explanation
Indices: 18665489--18665518 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
18665479 TATCTTTGTC
18665489 ATTTTT ATTTTT ATTTTT ATTTTAT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTT-T ATTTT
18665519 ATGTATATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:18665545 original size:7 final size:7
Alignment explanation
Indices: 18665533--18665616 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
18665523 ATATCCTATG
18665533 TATTTAT
1 TATTTAT
18665540 TATTTAT
1 TATTTAT
18665547 T-TATTAT
1 TAT-TTAT
* *
18665554 TA-CTAA
1 TATTTAT
*
18665560 TATATAT
1 TATTTAT
18665567 T-TTTAT
1 TATTTAT
*
18665573 TATTTTT
1 TATTTAT
*
18665580 TATTTTT
1 TATTTAT
18665587 TATTTTATT
1 TA-TTTA-T
*
18665596 TATTTTT
1 TATTTAT
18665603 GTATTT-T
1 -TATTTAT
18665610 TATTTAT
1 TATTTAT
18665617 CTAATTATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
6 15 0.25
7 32 0.52
8 11 0.18
9 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (7 bp):
TATTTAT
Found at i:18665598 original size:23 final size:22
Alignment explanation
Indices: 18665567--18665614 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
18665557 TAATATATAT
18665567 TTTTATTATTTTT-TATTTTTTA
1 TTTTATTATTTTTGTA-TTTTTA
18665589 TTTTATTTATTTTTGTATTTTTA
1 TTTTA-TTATTTTTGTATTTTTA
18665612 TTT
1 TTT
18665615 ATCTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 17 0.71
24 2 0.08
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTATTATTTTTGTATTTTTA
Found at i:18665615 original size:22 final size:22
Alignment explanation
Indices: 18665531--18665616 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 22
18665521 GTATATCCTA
18665531 TGTATTTATTATTTATTTATTATT
1 TGTATTT-TTATTTATTTATT-TT
** * * *
18665555 ACTAATATATATTTTTATTATTTT
1 TGT-ATTTTTATTTAT-TTATTTT
18665579 T-TATTTTTTATTTTATTTATTTT
1 TGTA-TTTTTA-TTTATTTATTTT
18665602 TGTATTTTTATTTAT
1 TGTATTTTTATTTAT
18665617 CTAATTATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
22 6 0.12
23 19 0.40
24 15 0.31
25 8 0.17
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.72
Consensus pattern (22 bp):
TGTATTTTTATTTATTTATTTT
Found at i:18665650 original size:74 final size:73
Alignment explanation
Indices: 18665496--18665651 Score: 178
Period size: 74 Copynumber: 2.1 Consensus size: 73
18665486 GTCATTTTTA
*
18665496 TTTTTA-TTTTTATTTTATATTTTATGTATATCCTATGTATTTATTATTTATTTATTATTACTAA
1 TTTTTATTTTTTATTTTATATTTTATGTATATCCTATGTATTTATTATTTATTAATTATTACTAA
18665560 TATATATT
66 TATATATT
* * *
18665568 TTTATTATTTTTTATTTTTTATTTTAT-T-TAT-TTTTGTATTT-TTATTTATCTAATTATATAT
1 TTT-TTATTTTTTATTTTATATTTTATGTATATCCTATGTATTTATTATTTAT-TAATTAT-TA-
*
18665629 CTGATATTATTATT
62 CTAATA-TA-TATT
18665643 TTTTTATTT
1 TTTTTATTT
18665652 ATCCTATAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
70 8 0.11
71 14 0.19
72 8 0.11
73 9 0.12
74 26 0.36
75 7 0.10
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (73 bp):
TTTTTATTTTTTATTTTATATTTTATGTATATCCTATGTATTTATTATTTATTAATTATTACTAA
TATATATT
Found at i:18666524 original size:5 final size:5
Alignment explanation
Indices: 18666516--18666656 Score: 53
Period size: 5 Copynumber: 27.8 Consensus size: 5
18666506 TTTTTTGAAT
** **
18666516 TTTTA TTTTA -TTTA -TTTA -TTTA TTTTA -TTTA TTAGA TTAGA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * * * *
18666561 TTTAA TATTT- TTTTA TCCTTA TCTTA TTTTTA TTTTTG TTTTA CTTTTC
1 TTTTA T-TTTA TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA
* *
18666610 TTTATT TTTTA TCTTTA -TTTA TTTTCA CTTTTA TTTTG TTTTA TTTT
1 TTT-TA TTTTA T-TTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTT
18666657 CTTTAAATAA
Statistics
Matches: 108, Mismatches: 15, Indels: 26
0.72 0.10 0.17
Matches are distributed among these distances:
4 25 0.23
5 50 0.46
6 29 0.27
7 4 0.04
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:18666537 original size:17 final size:17
Alignment explanation
Indices: 18666517--18666633 Score: 70
Period size: 17 Copynumber: 6.9 Consensus size: 17
18666507 TTTTTGAATT
18666517 TTTATTTTATTTATTTA
1 TTTATTTTATTTATTTA
18666534 TTTATTTTATTTA-TTA
1 TTTATTTTATTTATTTA
* **
18666550 --GATTAGATTTATTTA
1 TTTATTTTATTTATTTA
*
18666565 -ATATTTT-TTTATCCTTA
1 TTTATTTTATTTAT--TTA
18666582 TCTTATTTTTATTT-TTGT-
1 T-TTA-TTTTATTTATT-TA
*
18666600 TTTACTTTTCTTTATTT-
1 TTTA-TTTTATTTATTTA
18666617 TTTATCTTTATTTATTT
1 TTTAT-TTTATTTATTT
18666634 TCACTTTTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
14 8 0.10
15 8 0.10
16 7 0.09
17 41 0.52
18 4 0.05
19 3 0.04
20 5 0.06
21 3 0.04
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Found at i:18666651 original size:17 final size:16
Alignment explanation
Indices: 18666588--18666656 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
18666578 CTTATCTTAT
18666588 TTTTATTTTTGTTTTAC
1 TTTTA-TTTTGTTTTAC
* *
18666605 TTTTCTTTATTTTTTA-
1 TTTTATTT-TGTTTTAC
*
18666621 TCTTTATTTAT-TTTCAC
1 T-TTTATTT-TGTTTTAC
18666638 TTTTATTTTGTTTTA-
1 TTTTATTTTGTTTTAC
18666653 TTTT
1 TTTT
18666657 CTTTAAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.12
16 19 0.44
17 19 0.44
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATTTTGTTTTAC
Found at i:18666799 original size:120 final size:117
Alignment explanation
Indices: 18666670--18667013 Score: 471
Period size: 120 Copynumber: 2.9 Consensus size: 117
18666660 TAAATAAAAA
*
18666670 TCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAAAAA
1 TCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT--AAAAA
*
18666735 AAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
64 AAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATAAAAGTT
18666790 TCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCCAAAAA
1 TCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT--AAAAA
* * * * *
18666854 AAAAGGTTTTTTTTTAAAGAAAAGTTGAAAGTATCAATTTCCCTCGAAATTAAAGTT
64 AAAAGG---GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATAAAAGTT
* * *
18666911 TCCAAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTT--CA
1 T-C--AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAA
18666974 AAAAA-GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
63 AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
18667014 CTACACAAGA
Statistics
Matches: 201, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
117 30 0.15
119 17 0.08
120 51 0.25
121 17 0.08
122 33 0.16
124 47 0.23
125 6 0.03
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (117 bp):
TCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAAAAA
AAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATAAAAGTT
Found at i:18669953 original size:24 final size:23
Alignment explanation
Indices: 18669926--18669992 Score: 55
Period size: 24 Copynumber: 2.7 Consensus size: 23
18669916 TTAATATAAA
18669926 TTTATATATAATTTTTATTAATAT
1 TTTATATAT-ATTTTTATTAATAT
* * *
18669950 TTTAAATCATATCTTTT-TTTATCT
1 TTTATAT-ATAT-TTTTATTAATAT
18669974 TTTATCATATCATTTTTAT
1 TTTAT-ATAT-ATTTTTAT
18669993 ATCATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
24 23 0.68
25 11 0.32
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATATATATTTTTATTAATAT
Found at i:18670093 original size:14 final size:14
Alignment explanation
Indices: 18670070--18670117 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
18670060 TTAAAGCTTT
*
18670070 GTAAAGGTCATTTA
1 GTAAACGTCATTTA
18670084 GTAAACGTCATTTA
1 GTAAACGTCATTTA
18670098 GTAAACGTCATTTA
1 GTAAACGTCATTTA
*
18670112 GAAAAC
1 GTAAAC
18670118 AAATCTATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (14 bp):
GTAAACGTCATTTA
Found at i:18671406 original size:16 final size:15
Alignment explanation
Indices: 18671385--18671414 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
18671375 TGTCGAGGAT
18671385 AAAAACATAAAAAAAA
1 AAAAACA-AAAAAAAA
18671401 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
18671415 GTCAAACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAACAAAAAAAAA
Found at i:18672726 original size:9 final size:9
Alignment explanation
Indices: 18672707--18672740 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18672697 TATTTTTTCC
18672707 TATTATTTAT
1 TATT-TTTAT
18672717 TATTTTTAT
1 TATTTTTAT
*
18672726 TATTTTTCT
1 TATTTTTAT
18672735 TATTTT
1 TATTTT
18672741 CTTATTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTTAT
Found at i:18672745 original size:29 final size:27
Alignment explanation
Indices: 18672692--18672760 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
18672682 AAAATTGGTA
18672692 TTTTTTA-T-TTTTTCCTATTATTTAT
1 TTTTTTATTATTTTTCCTATTATTTAT
* *
18672717 TATTTTTATTATTTTTCTTATTTTCTTAT
1 T-TTTTTATTATTTTTCCTATTAT-TTAT
*
18672746 TTTGTTATTTATTTT
1 TTTTTTA-TTATTTT
18672761 AATTTATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 1 0.03
26 6 0.17
27 1 0.03
28 16 0.44
29 12 0.33
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (27 bp):
TTTTTTATTATTTTTCCTATTATTTAT
Found at i:18672829 original size:20 final size:20
Alignment explanation
Indices: 18672793--18672830 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18672783 TTTTAAAAAT
*
18672793 AATAATAAAAATGAAAATAA
1 AATAATAAAAATAAAAATAA
*
18672813 AATAATAAAAGTAAAAAT
1 AATAATAAAAATAAAAAT
18672831 TTTGAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
AATAATAAAAATAAAAATAA
Found at i:18674212 original size:15 final size:15
Alignment explanation
Indices: 18674188--18674224 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18674178 CACATTTTGG
18674188 TGAATAGTAAAATTT
1 TGAATAGTAAAATTT
* *
18674203 TGAATGGTAAGATTT
1 TGAATAGTAAAATTT
18674218 TGAATAG
1 TGAATAG
18674225 AGATTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (15 bp):
TGAATAGTAAAATTT
Found at i:18674993 original size:29 final size:29
Alignment explanation
Indices: 18674958--18675025 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
18674948 AGGATGTTAG
18674958 ATTTTAAGCCTAAATTAGCTAGCACCCAA
1 ATTTTAAGCCTAAATTAGCTAGCACCCAA
* * *
18674987 ATTTTAAGTCTAAATTAGCTAGCACCTAG
1 ATTTTAAGCCTAAATTAGCTAGCACCCAA
18675016 ATTTTAAGCC
1 ATTTTAAGCC
18675026 AATTTAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (29 bp):
ATTTTAAGCCTAAATTAGCTAGCACCCAA
Found at i:18675112 original size:29 final size:29
Alignment explanation
Indices: 18675072--18675197 Score: 112
Period size: 29 Copynumber: 4.3 Consensus size: 29
18675062 TCATTAGCCC
*
18675072 TTTAAGCTTAGATTAGTTAGCACCTAAAT
1 TTTAAGCCTAGATTAGTTAGCACCTAAAT
* *
18675101 TTTAAGACTAGATTAGTTGGCAACC-AAAT
1 TTTAAGCCTAGATTAGTTAGC-ACCTAAAT
* * *
18675130 TTTAAGCCTAGTTTAGCTAGCACCGATAAAA
1 TTTAAGCCTAGATTAGTTAGCACC--TAAAT
* ** *
18675161 TTTAAGCCTAGTTTAACTGGCA-CTAAAAT
1 TTTAAGCCTAGATTAGTTAGCACCT-AAAT
18675190 TTTAAGCC
1 TTTAAGCC
18675198 CAATGGTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
28 4 0.05
29 50 0.62
30 4 0.05
31 23 0.28
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (29 bp):
TTTAAGCCTAGATTAGTTAGCACCTAAAT
Found at i:18675423 original size:112 final size:113
Alignment explanation
Indices: 18675260--18675484 Score: 249
Period size: 114 Copynumber: 2.0 Consensus size: 113
18675250 GTGACATCTG
* * * * *
18675260 AGCTTTTTCAAAATCATTTGATGGTGATATTCGAATATTAAAGTTTGAATTT-TATTTTCTCAAT
1 AGCTTTTTCAAAATCACTTGATGGTGATATTCGAATATTAAAATCTAAATTTATATTTTCTCAAA
*
18675324 GGTGATATCTGAA-TCCTTTCATTAAACAATTCTCGATGATGATATTCA
66 GGTGATATCT-AAGTCCTTTCATTAAAAAATTCTCGATGATGATATTCA
* * * * * *
18675372 AGCTTTTTTAAAATTACTTGGTGGTGATA-TCGTAGTATTAAAATCTAAATTTAATTTTTTTTCA
1 AGCTTTTTCAAAATCACTTGATGGTGATATTCG-AATATTAAAATCTAAATTT-ATATTTTCTCA
** * * *
18675436 AAGGTGATATCTAAGTTTTTTCATTAAAAAATTCTTGGTGGTGATATTC
64 AAGGTGATATCTAAGTCCTTTCATTAAAAAATTCTCGATGATGATATTC
18675485 GAGTTCTTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
111 3 0.03
112 40 0.43
113 2 0.02
114 47 0.51
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (113 bp):
AGCTTTTTCAAAATCACTTGATGGTGATATTCGAATATTAAAATCTAAATTTATATTTTCTCAAA
GGTGATATCTAAGTCCTTTCATTAAAAAATTCTCGATGATGATATTCA
Found at i:18675541 original size:59 final size:57
Alignment explanation
Indices: 18675473--18675645 Score: 184
Period size: 59 Copynumber: 2.9 Consensus size: 57
18675463 AAAATTCTTG
* * *
18675473 GTGGTGATATTCGAGTTCTTTTCGAAAGCGATATTCGAAAACATTTACATCTTTTTTCT
1 GTGGTGATATCCGAGTT-TCTTCGATAGCGATATTC-AAAACATTTACATCTTTTTTCT
* * * * * *
18675532 GTGGTGATATCCAAGATTTCTTCGATGGCGATATCTAAAAAGATTTATATCTTTTTTTT
1 GTGGTGATATCCGAG-TTTCTTCGATAGCGATAT-TCAAAACATTTACATCTTTTTTCT
* * *
18675591 GTGGTGATATCCGAGGTTTCTTCGATAGCAATATTCAAAGTCATTTGCATCTTTT
1 GTGGTGATATCCGA-GTTTCTTCGATAGCGATATTCAAA-ACATTTACATCTTTT
18675646 CTTGGTGATG
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
58 4 0.04
59 85 0.91
60 4 0.04
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (57 bp):
GTGGTGATATCCGAGTTTCTTCGATAGCGATATTCAAAACATTTACATCTTTTTTCT
Found at i:18687729 original size:14 final size:14
Alignment explanation
Indices: 18687710--18687747 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18687700 TAATATTCAA
*
18687710 AATAATTAAATAAT
1 AATAATAAAATAAT
18687724 AATAATAAAATAAT
1 AATAATAAAATAAT
18687738 -A-AATAAAATA
1 AATAATAAAATA
18687748 CTATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 13 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:18691251 original size:18 final size:16
Alignment explanation
Indices: 18691224--18691262 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
18691214 AGAAATTGGG
*
18691224 TATTTGTTATTTTCCTAT
1 TATTTATTATTTT--TAT
18691242 TATTTATTATTTTTAT
1 TATTTATTATTTTTAT
18691258 TATTT
1 TATTT
18691263 TTCTCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTTATTATTTTTAT
Found at i:18691287 original size:27 final size:27
Alignment explanation
Indices: 18691226--18691289 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
18691216 AAATTGGGTA
18691226 TTTGTTATTTTCCTATTATTTATTATT
1 TTTGTTATTTTCCTATTATTTATTATT
* * * *
18691253 TTTATTATTTTTCTCTTATTTTCTTA-T
1 TTTGTTATTTTCCTATTA-TTTATTATT
18691280 TTTGTTATTT
1 TTTGTTATTT
18691290 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTGTTATTTTCCTATTATTTATTATT
Found at i:18692744 original size:15 final size:15
Alignment explanation
Indices: 18692720--18692756 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18692710 CACATTTTGG
18692720 TGAATAGTAAAATTT
1 TGAATAGTAAAATTT
* *
18692735 TGAATGGTAAGATTT
1 TGAATAGTAAAATTT
18692750 TGAATAG
1 TGAATAG
18692757 AGATTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (15 bp):
TGAATAGTAAAATTT
Found at i:18693075 original size:20 final size:21
Alignment explanation
Indices: 18693050--18693095 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
18693040 TTTGTTAGGC
* *
18693050 ACATTTGTTTCA-TAGAAAAG
1 ACATTTGTGTCACTACAAAAG
18693070 ACATTTGTGTCACTACAAAAG
1 ACATTTGTGTCACTACAAAAG
18693091 A-ATTT
1 ACATTT
18693096 TGCATTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (21 bp):
ACATTTGTGTCACTACAAAAG
Found at i:18693524 original size:29 final size:29
Alignment explanation
Indices: 18693489--18693556 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
18693479 AGGATGTTAG
18693489 ATTTTAAGCCTAAATTAGCTAGCACCCAA
1 ATTTTAAGCCTAAATTAGCTAGCACCCAA
* * *
18693518 ATTTTAAGTCTAAATTAGCTAGCACCTAG
1 ATTTTAAGCCTAAATTAGCTAGCACCCAA
18693547 ATTTTAAGCC
1 ATTTTAAGCC
18693557 AATTTAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (29 bp):
ATTTTAAGCCTAAATTAGCTAGCACCCAA
Found at i:18693643 original size:29 final size:29
Alignment explanation
Indices: 18693603--18693728 Score: 112
Period size: 29 Copynumber: 4.3 Consensus size: 29
18693593 TCATTAGCCC
*
18693603 TTTAAGCTTAGATTAGTTAGCACCTAAAT
1 TTTAAGCCTAGATTAGTTAGCACCTAAAT
* *
18693632 TTTAAGACTAGATTAGTTGGCAACC-AAAT
1 TTTAAGCCTAGATTAGTTAGC-ACCTAAAT
* * *
18693661 TTTAAGCCTAGTTTAGCTAGCACCGATAAAA
1 TTTAAGCCTAGATTAGTTAGCACC--TAAAT
* ** *
18693692 TTTAAGCCTAGTTTAACTGGCA-CTAAAAT
1 TTTAAGCCTAGATTAGTTAGCACCT-AAAT
18693721 TTTAAGCC
1 TTTAAGCC
18693729 CAATGGTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
28 4 0.05
29 50 0.62
30 4 0.05
31 23 0.28
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (29 bp):
TTTAAGCCTAGATTAGTTAGCACCTAAAT
Found at i:18694073 original size:59 final size:57
Alignment explanation
Indices: 18694005--18694178 Score: 177
Period size: 59 Copynumber: 2.9 Consensus size: 57
18693995 AAAATTCTTG
* * *
18694005 GTGGTGATATTCGAGTTCTTTTCGAAAGCGATATTCGAAAACATTTACATCTTTTTTCT
1 GTGGTGATATCCGAGTT-TCTTCGATAGCGATATTC-AAAACATTTACATCTTTTTTCT
* * * * * *
18694064 GTGGTGATATCCAAGATTTCTTCGATGGCGATATCTAAAAAGATTTATATCTTTTTTTTT
1 GTGGTGATATCCGAG-TTTCTTCGATAGCGATAT-TCAAAACATTTACATC-TTTTTTCT
* * *
18694124 GTGGTGATATCCGAGGTTTCTTCGATAGCAATATTCAAAGTCATTTGCATCTTTT
1 GTGGTGATATCCGA-GTTTCTTCGATAGCGATATTCAAA-ACATTTACATCTTTT
18694179 CTTGGTGATG
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
59 46 0.49
60 46 0.49
61 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (57 bp):
GTGGTGATATCCGAGTTTCTTCGATAGCGATATTCAAAACATTTACATCTTTTTTCT
Found at i:18694176 original size:60 final size:59
Alignment explanation
Indices: 18694005--18694178 Score: 174
Period size: 60 Copynumber: 2.9 Consensus size: 59
18693995 AAAATTCTTG
* * * *
18694005 GTGGTGATATTCGA-GTTCTTTTCGAAAGCGATATTCGAAAACATTTACATC-TTTTTTCT
1 GTGGTGATATCCGAGGTT-TCTTCGATAGCGATATTC-AAAGCATTTACATCTTTTTTTCT
* * * * * *
18694064 GTGGTGATATCCAAGATTTCTTCGATGGCGATATCTAAAAAG-ATTTATATCTTTTTTTTT
1 GTGGTGATATCCGAGGTTTCTTCGATAGCGATAT-T-CAAAGCATTTACATCTTTTTTTCT
* *
18694124 GTGGTGATATCCGAGGTTTCTTCGATAGCAATATTCAAAGTCATTTGCATCTTTT
1 GTGGTGATATCCGAGGTTTCTTCGATAGCGATATTCAAAG-CATTTACATCTTTT
18694179 CTTGGTGATG
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
58 4 0.04
59 34 0.37
60 54 0.59
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (59 bp):
GTGGTGATATCCGAGGTTTCTTCGATAGCGATATTCAAAGCATTTACATCTTTTTTTCT
Found at i:18695801 original size:2 final size:2
Alignment explanation
Indices: 18695758--18695784 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18695748 AGTAGTCGTT
18695758 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
18695785 TTACAGTCAG
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:18706282 original size:14 final size:14
Alignment explanation
Indices: 18706263--18706300 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18706253 TAATATTCAA
*
18706263 AATAATTAAATAAT
1 AATAATAAAATAAT
18706277 AATAATAAAATAAT
1 AATAATAAAATAAT
18706291 -A-AATAAAATA
1 AATAATAAAATA
18706301 CTATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 13 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:18709057 original size:34 final size:35
Alignment explanation
Indices: 18708992--18709058 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
18708982 TTTTTTCTTT
* *
18708992 TTCTTTTCTTATTTATTAAATTAATATTTTTTAAG
1 TTCTTTTCATATTTATTAAATTAATAGTTTTTAAG
* * *
18709027 TTCTTTTCAT-TTTATTTATTTATTAGTTTTTA
1 TTCTTTTCATATTTATTAAATTAATAGTTTTTA
18709059 TTTTCAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (35 bp):
TTCTTTTCATATTTATTAAATTAATAGTTTTTAAG
Found at i:18709532 original size:112 final size:112
Alignment explanation
Indices: 18709298--18709667 Score: 328
Period size: 112 Copynumber: 3.3 Consensus size: 112
18709288 AGTAATTTTT
* * * * *
18709298 TTTTTGAAGAAAAAGTTAAAGTATCAAATTTTTC-TTAAACCAAAAATAATTTC-AAAAATTAG-
1 TTTTTG-A-AAAAAGTTGAAGTAT-AAATTTTTCTTTAAA-TAAAAAAAATGTCAAAAAATTTGA
* * *
18709360 GAAAAAA-TAG-AATTATCAAA-TTTCTTTAAAC-AAGAATAATTTTAAAA
62 GAAAAAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
* * * *
18709407 TTTTGAGGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAATATTTTAAAAATTTTG-G
1 TTTT--TGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAA-ATGTCAAAAAATTTGAG
** * * * *
18709471 GGAAAATTTTAAAATATCAAATTTTCATTGAACAAAAAATAATTTTAAAA
63 AAAAAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
* *
18709521 TTTTTGAAAAAAAG-TGAAGCATCAAATTTTTC-TTAAATAAAAATAATGTCAAAAAATTTGAGA
1 TTTTTG-AAAAAAGTTGAAGTAT-AAATTTTTCTTTAAATAAAAAAAATGTCAAAAAATTTGAGA
* * * *
18709584 AAAAAGTTGGAAGTATCAATTTTTCTTTAAACAAAAAATAATTTAAAAA
64 AAAAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
* * *
18709633 TTTTTAAGGAAAAAGTTGATGTATCAATTTTTCTT
1 TTTTT--GAAAAAAGTTGAAGTATAAATTTTTCTT
18709668 GAATTTAAAT
Statistics
Matches: 210, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
108 15 0.07
109 27 0.13
110 13 0.06
111 14 0.07
112 75 0.36
113 39 0.19
114 27 0.13
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (112 bp):
TTTTTGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAAATGTCAAAAAATTTGAGAAA
AAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
Found at i:18709620 original size:57 final size:56
Alignment explanation
Indices: 18709299--18709667 Score: 319
Period size: 57 Copynumber: 6.6 Consensus size: 56
18709289 GTAATTTTTT
* *
18709299 TTTTGA-AGAAAAAGTTAAAGTATCAAATTTTTC-TTAAACCAAAAATAATTTCAAAAA
1 TTTTGAGA-AAAAAGTTGAAGTATC-AATTTTTCTTTAAA-CAAAAATAATTTTAAAAA
* * * * *
18709356 -TTAG-GAAAAAA-TAGAATTATCAA-ATTTCTTTAAACAAGAATAATTTT-AAAA
1 TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTTTAAACAAAAATAATTTTAAAAA
* * *
18709407 TTTTGAGGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAATATTTTAAAAA
1 TTTTGA-GAAAAAAGTTGAAGTATCAATTTTTCTTTAAACAAAAATA-ATTTTAAAAA
* * ** * * * * * *
18709465 TTTTGGGGAAAATTTTAAAATATCAAATTTTCATTGAACAAAAAATAATTTTAAAAT
1 TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTTTAAAC-AAAAATAATTTTAAAAA
* * * *
18709522 TTTTGA-AAAAAAG-TGAAGCATCAAATTTTTC-TTAAATAAAAATAATGTCAAAAA
1 TTTTGAGAAAAAAGTTGAAGTATC-AATTTTTCTTTAAACAAAAATAATTTTAAAAA
*
18709576 ATTTGAGAAAAAAGTTGGAAGTATCAATTTTTCTTTAAACAAAAAATAA-TTTAAAAA
1 TTTTGAGAAAAAAGTT-GAAGTATCAATTTTTCTTTAAAC-AAAAATAATTTTAAAAA
* * *
18709633 TTTTTAAGGAAAAAGTTGATGTATCAATTTTTCTT
1 -TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTT
18709668 GAATTTAAAT
Statistics
Matches: 245, Mismatches: 50, Indels: 34
0.74 0.15 0.10
Matches are distributed among these distances:
51 4 0.02
52 18 0.07
53 7 0.03
54 33 0.13
55 31 0.13
56 39 0.16
57 77 0.31
58 36 0.15
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (56 bp):
TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTTTAAACAAAAATAATTTTAAAAA
Found at i:18710701 original size:20 final size:21
Alignment explanation
Indices: 18710671--18710737 Score: 84
Period size: 20 Copynumber: 3.3 Consensus size: 21
18710661 CTTGTATATT
18710671 CATAAACATGCATATATACTA
1 CATAAACATGCATATATACTA
* * *
18710692 CATAAA-ATGCTTGTATA-TT
1 CATAAACATGCATATATACTA
*
18710711 CATAAACATGCATATGTACTA
1 CATAAACATGCATATATACTA
18710732 CATAAA
1 CATAAA
18710738 AGCTTTCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 7 0.19
20 17 0.46
21 13 0.35
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.31
Consensus pattern (21 bp):
CATAAACATGCATATATACTA
Found at i:18710714 original size:40 final size:40
Alignment explanation
Indices: 18710659--18710742 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
18710649 GCAATTTCAT
18710659 TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
1 TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
*
18710699 TGCTTGTATATTCATAAACATGCATATGTACTACATAAAA
1 TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
18710739 -GCTT
1 TGCTT
18710743 TCATAAAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (40 bp):
TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
Found at i:18710728 original size:22 final size:22
Alignment explanation
Indices: 18710663--18710728 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 22
18710653 TTTCATTGCT
18710663 TGTATATTCATAAACATGCATA
1 TGTATATTCATAAACATGCATA
*
18710685 --TATACTACATAAA-ATGC-T-
1 TGTATA-TTCATAAACATGCATA
18710703 TGTATATTCATAAACATGCATA
1 TGTATATTCATAAACATGCATA
18710725 TGTA
1 TGTA
18710729 CTACATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
19 8 0.22
20 16 0.44
21 8 0.22
22 4 0.11
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
TGTATATTCATAAACATGCATA
Found at i:18715245 original size:3 final size:3
Alignment explanation
Indices: 18715237--18715269 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18715227 AGATGTTTAA
18715237 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18715270 TTAAAAAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18721583 original size:34 final size:35
Alignment explanation
Indices: 18721518--18721584 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
18721508 TTTTTTCTTT
* *
18721518 TTCTTTTCTTATTTATTAAATTAATATTTTTTAAG
1 TTCTTTTCATATTTATTAAATTAATAGTTTTTAAG
* * *
18721553 TTCTTTTCAT-TTTATTTATTTATTAGTTTTTA
1 TTCTTTTCATATTTATTAAATTAATAGTTTTTA
18721585 TTTTCAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (35 bp):
TTCTTTTCATATTTATTAAATTAATAGTTTTTAAG
Found at i:18722054 original size:112 final size:112
Alignment explanation
Indices: 18721822--18722190 Score: 319
Period size: 112 Copynumber: 3.3 Consensus size: 112
18721812 AAGTAATTTT
* * * * *
18721822 TTTTTGAAGAAAAAGTTAAAGTATCAAA-TTTTC-TTAAACCAAAAATAATTTC-AAAAATTAG-
1 TTTTTG-A-AAAAAGTTGAAGTAT-AAATTTTTCTTTAAA-TAAAAAAAATGTCAAAAAATTTGA
* * *
18721883 GAAAAAA-TAG-AATTATCAAA-TTTCTTTAAAC-AAGAATAATTTTAAAA
62 GAAAAAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
* * * *
18721930 TTTTGAGGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAATATTTTAAAAATTTTG-G
1 TTTT--TGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAA-ATGTCAAAAAATTTGAG
** * * * *
18721994 GGAAAATTTTAAAATATCAAATTTTCATTGAACAAAAAATAATTTTAAAA
63 AAAAAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
* *
18722044 TTTTTGAAAAAAAG-TGAAGCATCAAATTTTTC-TTAAATAAAAATAATGTCAAAAAATTTGAGA
1 TTTTTG-AAAAAAGTTGAAGTAT-AAATTTTTCTTTAAATAAAAAAAATGTCAAAAAATTTGAGA
* * * *
18722107 AAAAAGTTGGAAGTATCAATTTTTCTTTAAACAAAAAATAATTTAAAAA
64 AAAAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
* * *
18722156 TTTTTAAGGAAAAAGTTGATGTATCAATTTTTCTT
1 TTTTT--GAAAAAAGTTGAAGTATAAATTTTTCTT
18722191 GAATTTAAAT
Statistics
Matches: 209, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
107 3 0.01
108 29 0.14
109 10 0.05
110 13 0.06
111 13 0.06
112 75 0.36
113 39 0.19
114 27 0.13
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (112 bp):
TTTTTGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAAATGTCAAAAAATTTGAGAAA
AAAGTTGAAAATATCAAATTTTCTTTAAACAAAAAATAATTTTAAAA
Found at i:18722143 original size:57 final size:56
Alignment explanation
Indices: 18721823--18722190 Score: 317
Period size: 57 Copynumber: 6.6 Consensus size: 56
18721813 AGTAATTTTT
* * *
18721823 TTTTGA-AGAAAAAGTTAAAGTATCAAATTTTC-TTAAACCAAAAATAATTTCAAAAA
1 TTTTGAGA-AAAAAGTTGAAGTATCAATTTTTCTTTAAA-CAAAAATAATTTTAAAAA
* * * * *
18721879 -TTAG-GAAAAAA-TAGAATTATCAA-ATTTCTTTAAACAAGAATAATTTT-AAAA
1 TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTTTAAACAAAAATAATTTTAAAAA
* * *
18721930 TTTTGAGGAAAAAAGTTGAAGTATAAATTTTTCTTTAAATAAAAAAATATTTTAAAAA
1 TTTTGA-GAAAAAAGTTGAAGTATCAATTTTTCTTTAAACAAAAATA-ATTTTAAAAA
* * ** * * * * * *
18721988 TTTTGGGGAAAATTTTAAAATATCAAATTTTCATTGAACAAAAAATAATTTTAAAAT
1 TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTTTAAAC-AAAAATAATTTTAAAAA
* * * *
18722045 TTTTGA-AAAAAAG-TGAAGCATCAAATTTTTC-TTAAATAAAAATAATGTCAAAAA
1 TTTTGAGAAAAAAGTTGAAGTATC-AATTTTTCTTTAAACAAAAATAATTTTAAAAA
*
18722099 ATTTGAGAAAAAAGTTGGAAGTATCAATTTTTCTTTAAACAAAAAATAA-TTTAAAAA
1 TTTTGAGAAAAAAGTT-GAAGTATCAATTTTTCTTTAAAC-AAAAATAATTTTAAAAA
* * *
18722156 TTTTTAAGGAAAAAGTTGATGTATCAATTTTTCTT
1 -TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTT
18722191 GAATTTAAAT
Statistics
Matches: 245, Mismatches: 50, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
51 4 0.02
52 18 0.07
53 14 0.06
54 31 0.13
55 30 0.12
56 35 0.14
57 77 0.31
58 36 0.15
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (56 bp):
TTTTGAGAAAAAAGTTGAAGTATCAATTTTTCTTTAAACAAAAATAATTTTAAAAA
Found at i:18723224 original size:20 final size:21
Alignment explanation
Indices: 18723194--18723260 Score: 84
Period size: 20 Copynumber: 3.3 Consensus size: 21
18723184 CTTGTATATT
18723194 CATAAACATGCATATATACTA
1 CATAAACATGCATATATACTA
* * *
18723215 CATAAA-ATGCTTGTATA-TT
1 CATAAACATGCATATATACTA
*
18723234 CATAAACATGCATATGTACTA
1 CATAAACATGCATATATACTA
18723255 CATAAA
1 CATAAA
18723261 GCTTTCATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 7 0.19
20 17 0.46
21 13 0.35
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.31
Consensus pattern (21 bp):
CATAAACATGCATATATACTA
Found at i:18723237 original size:40 final size:40
Alignment explanation
Indices: 18723182--18723260 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
18723172 GCAATTTCAT
18723182 TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
1 TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
*
18723222 TGCTTGTATATTCATAAACATGCATATGTACTACATAAA
1 TGCTTGTATATTCATAAACATGCATATATACTACATAAA
18723261 GCTTTCATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (40 bp):
TGCTTGTATATTCATAAACATGCATATATACTACATAAAA
Found at i:18723251 original size:22 final size:22
Alignment explanation
Indices: 18723186--18723251 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 22
18723176 TTTCATTGCT
18723186 TGTATATTCATAAACATGCATA
1 TGTATATTCATAAACATGCATA
*
18723208 --TATACTACATAAA-ATGC-T-
1 TGTATA-TTCATAAACATGCATA
18723226 TGTATATTCATAAACATGCATA
1 TGTATATTCATAAACATGCATA
18723248 TGTA
1 TGTA
18723252 CTACATAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
19 8 0.22
20 16 0.44
21 8 0.22
22 4 0.11
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
TGTATATTCATAAACATGCATA
Found at i:18724532 original size:12 final size:12
Alignment explanation
Indices: 18724497--18724535 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
18724487 AGTTAAAGAA
*
18724497 AAATCAAAATAA
1 AAATCAAAATAG
18724509 AAATCAAAATAG
1 AAATCAAAATAG
*
18724521 AAATCAGAATAG
1 AAATCAAAATAG
18724533 AAA
1 AAA
18724536 GGAAGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATCAAAATAG
Found at i:18724690 original size:58 final size:58
Alignment explanation
Indices: 18724565--18724967 Score: 563
Period size: 57 Copynumber: 6.9 Consensus size: 58
18724555 TTTTGTGTAG
*
18724565 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
18724622 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
* * *
18724680 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTTGGAAATTTATTCTTAA
*
18724741 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATT-TCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCT-TAA
*
18724798 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATATTTTTTTGAAACTTTGA-TCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATAT-TTTTTTGGAAA-TTT-ATTCTTAA
18724858 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTGGAAAATTTATT-TCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTGG-AAATTTATTCT-TAA
*
18724917 GGAAAATTGATACTTTCAACTTTTTCCT-AAAATATTTTTTTGGAAAATTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGG-AAATTTA
18724968 ATTTTTATTT
Statistics
Matches: 316, Mismatches: 11, Indels: 37
0.87 0.03 0.10
Matches are distributed among these distances:
56 3 0.01
57 87 0.28
58 83 0.26
59 44 0.14
60 38 0.12
61 57 0.18
62 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
Found at i:18724773 original size:119 final size:118
Alignment explanation
Indices: 18724565--18724970 Score: 596
Period size: 119 Copynumber: 3.5 Consensus size: 118
18724555 TTTTGTGTAG
* * *
18724565 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAATTT-ATTCTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTAATTCTTAAGGAAA
*
18724627 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTA-TTCTTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTC-TAA
*
18724680 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTT-ATTTTTAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TTTTTTTTTTGAAAATTTAATTCTTAAGGA
18724744 AAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
64 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
* * *
18724798 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGA-TCTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTGAAAATTTAATTCTTAAGGAA
*
18724862 AATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAAATTTATTTCTAA
65 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGG-AAATTTATTTCTAA
* *
18724917 GGAAAATTGATACTTTCAACTTTTTCCT--AAAATATTTTTTTGGAAAATTTAATT
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTTTGAAAATTTAATT
18724971 TTTATTTAAA
Statistics
Matches: 266, Mismatches: 14, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
115 32 0.12
116 1 0.00
117 68 0.26
118 66 0.25
119 92 0.35
120 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTAATTCTTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:18724899 original size:176 final size:175
Alignment explanation
Indices: 18724565--18724967 Score: 629
Period size: 176 Copynumber: 2.3 Consensus size: 175
18724555 TTTTGTGTAG
18724565 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
18724630 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTT
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTT
* * *
18724695 TCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTATTTTTAA
131 TCAACTTTTCCTCAAAAA-CTATTTTTTTGGAAAATTTATTTCTAA
18724741 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATT-TCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTCT-TAAGGAAAAT
*
18724805 TGATACTTTCAACTTTT-CCTCAAAAATATATTTTTTTGAAACTTTGA-TCTTAAGGAAAATTGA
65 TGATACTTTCAACTTTTCCCT-AAAAATAT-TTTTTTGGAAA-TTT-ATTCTTAAGGAAAATTGA
18724868 TACTTTCAACTTTTTCC-CAAAAA-TATTTTTTTGGAAAATTTATTTCTAA
126 TACTTTCAAC-TTTTCCTCAAAAACTATTTTTTTGGAAAATTTATTTCTAA
* *
18724917 GGAAAATTGATACTTTCAACTTTT-TCCTAAAATATTTTTTTGGAAAATTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGG-AAATTTA
18724968 ATTTTTATTT
Statistics
Matches: 213, Mismatches: 6, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
175 12 0.06
176 142 0.67
177 17 0.08
178 35 0.16
179 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (175 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTT
TCAACTTTTCCTCAAAAACTATTTTTTTGGAAAATTTATTTCTAA
Found at i:18725029 original size:6 final size:6
Alignment explanation
Indices: 18725020--18725063 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
18725010 AAGTGAAAAT
*
18725020 AAATAA AAATAA AAA-ACA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAA
18725064 GAATATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 6 0.18
6 26 0.79
7 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:18725051 original size:11 final size:11
Alignment explanation
Indices: 18725015--18725062 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
18725005 AATGAAAGTG
*
18725015 AAAATAAATA-
1 AAAATAAAAAT
*
18725025 AAAATAAAAAAC
1 AAAAT-AAAAAT
18725037 AAAATAAAAAT
1 AAAATAAAAAT
*
18725048 AAAATAAAGAT
1 AAAATAAAAAT
18725059 AAAA
1 AAAA
18725063 AGAATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 5 0.15
11 23 0.70
12 5 0.15
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:18731992 original size:3 final size:3
Alignment explanation
Indices: 18731984--18732055 Score: 101
Period size: 3 Copynumber: 23.3 Consensus size: 3
18731974 GAGAACTATG
18731984 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -ATA TAA TAA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA -TAA
*
18732030 TAA TAA TAA TAA TAA TTAA TGA TAA T
1 TAA TAA TAA TAA TAA -TAA TAA TAA T
18732056 TAAAATATGA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
2 1 0.02
3 55 0.87
4 7 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18733445 original size:22 final size:23
Alignment explanation
Indices: 18733399--18733447 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
18733389 TAAAAAAGTT
** *
18733399 TTTTTTAATATTTAAATTTTTTA
1 TTTTTTAATATTTAAAAATTATA
18733422 TTTTTT-ATATTTAAAAATTATA
1 TTTTTTAATATTTAAAAATTATA
18733444 TTTT
1 TTTT
18733448 AAAACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTAATATTTAAAAATTATA
Found at i:18734594 original size:22 final size:22
Alignment explanation
Indices: 18734568--18734611 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18734558 CTATATATTT
*
18734568 ATATTTGTATTTTTAGAATTAA
1 ATATTTGTATTCTTAGAATTAA
18734590 ATATTTGTATTCTTAGAATTAA
1 ATATTTGTATTCTTAGAATTAA
18734612 GGACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
ATATTTGTATTCTTAGAATTAA
Found at i:18734778 original size:26 final size:26
Alignment explanation
Indices: 18734749--18734805 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
18734739 TTTTTCAATA
18734749 TACATTCAGTTTTA-CTCTTAGTTTTT
1 TACATT-AGTTTTATCTCTTAGTTTTT
*
18734775 TACA-TAGTTTTATTTCTTAGTTTTT
1 TACATTAGTTTTATCTCTTAGTTTTT
18734800 TCACAT
1 T-ACAT
18734806 GGTATTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 7 0.26
25 13 0.48
26 7 0.26
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (26 bp):
TACATTAGTTTTATCTCTTAGTTTTT
Found at i:18734784 original size:24 final size:26
Alignment explanation
Indices: 18734756--18734805 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
18734746 ATATACATTC
18734756 AGTTTTA-CTCTTAGTTTTTT-ACAT
1 AGTTTTATCTCTTAGTTTTTTCACAT
*
18734780 AGTTTTATTTCTTAGTTTTTTCACAT
1 AGTTTTATCTCTTAGTTTTTTCACAT
18734806 GGTATTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 12 0.52
26 4 0.17
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (26 bp):
AGTTTTATCTCTTAGTTTTTTCACAT
Found at i:18747506 original size:31 final size:31
Alignment explanation
Indices: 18747440--18747530 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
18747430 GGTTTGGGGC
*
18747440 TTTGAATTTTATGGGGTTTGGATTTAAGGGAT
1 TTTGAATTTTA-GGGGTTTGAATTTAAGGGAT
* **
18747472 TTTGAATTTTAAGGGTTTCGAATTTTTGGG-T
1 TTTGAATTTTAGGGGTTT-GAATTTAAGGGAT
* *
18747503 TTTGGATTTTAGGGGTTTAGATTTTAAG
1 TTTGAATTTTAGGGGTTT-GAATTTAAG
18747531 AAAATGTGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 29 0.60
32 19 0.40
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (31 bp):
TTTGAATTTTAGGGGTTTGAATTTAAGGGAT
Found at i:18747511 original size:15 final size:15
Alignment explanation
Indices: 18747391--18747516 Score: 74
Period size: 16 Copynumber: 8.1 Consensus size: 15
18747381 TTTGGTTTGA
*
18747391 GTTTTGAGAGTTTTAAG
1 GTTTTGA-A-TTTTAGG
*
18747408 G-TTTGAATTTTATG
1 GTTTTGAATTTTAGG
* * * *
18747422 GTATGGAAGGTTTGGG
1 GTTTTGAA-TTTTAGG
*
18747438 GCTTTGAATTTTATGG
1 GTTTTGAATTTTA-GG
* * *
18747454 GGTTTGGATTTAAGG
1 GTTTTGAATTTTAGG
18747469 GATTTTGAATTTTAAGG
1 G-TTTTGAATTTT-AGG
* *
18747486 GTTTCGAATTTTTGG
1 GTTTTGAATTTTAGG
*
18747501 GTTTTGGATTTTAGG
1 GTTTTGAATTTTAGG
18747516 G
1 G
18747517 GTTTAGATTT
Statistics
Matches: 82, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
14 7 0.09
15 26 0.32
16 44 0.54
17 5 0.06
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (15 bp):
GTTTTGAATTTTAGG
Found at i:18747525 original size:15 final size:15
Alignment explanation
Indices: 18747435--18747528 Score: 71
Period size: 16 Copynumber: 6.0 Consensus size: 15
18747425 TGGAAGGTTT
*
18747435 GGGGCTTTGAATTTTA
1 GGGG-TTTGGATTTTA
*
18747451 TGGGGTTTGGATTTAA
1 -GGGGTTTGGATTTTA
* *
18747467 GGGATTTTGAATTTTA
1 GGG-GTTTGGATTTTA
* * *
18747483 AGGGTTTCGAATTTTT
1 GGGGTTT-GGATTTTA
*
18747499 GGGTTTTGGATTTTA
1 GGGGTTTGGATTTTA
*
18747514 GGGGTTTAGATTTTA
1 GGGGTTTGGATTTTA
18747529 AGAAAATGTG
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
15 25 0.41
16 32 0.52
17 4 0.07
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:18748899 original size:8 final size:8
Alignment explanation
Indices: 18748886--18748932 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
18748876 TTTGTTTTAA
18748886 TTAATATT
1 TTAATATT
18748894 TTAATAATT
1 TTAAT-ATT
*
18748903 TTGAT-TT
1 TTAATATT
*
18748910 TTAATTTT
1 TTAATATT
18748918 TTAAT-TT
1 TTAATATT
18748925 TTAATATT
1 TTAATATT
18748933 ATTATTGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 13 0.38
8 14 0.41
9 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TTAATATT
Found at i:18748919 original size:15 final size:15
Alignment explanation
Indices: 18748886--18748929 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
18748876 TTTGTTTTAA
*
18748886 TTAATATTTTAATAATT
1 TTAAT-TTTTAAT-TTT
*
18748903 TTGATTTTTAATTTT
1 TTAATTTTTAATTTT
18748918 TTAATTTTTAAT
1 TTAATTTTTAAT
18748930 ATTATTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 7 0.29
17 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAATTTTTAATTTT
Found at i:18748945 original size:12 final size:12
Alignment explanation
Indices: 18748925--18748969 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
18748915 TTTTTAATTT
18748925 TTAATATTATTA
1 TTAATATTATTA
*
18748937 TTGATATTATTA
1 TTAATATTATTA
*
18748949 TTAAAATTATTA
1 TTAATATTATTA
*
18748961 TTAAAATTA
1 TTAATATTA
18748970 AACTAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:18750354 original size:3 final size:3
Alignment explanation
Indices: 18750346--18750395 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
18750336 TCCTAATTTG
18750346 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18750394 AT
1 AT
18750396 GATGATGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18750400 original size:3 final size:3
Alignment explanation
Indices: 18750394--18750419 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18750384 AATAATAATA
18750394 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
18750420 AATTTCATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:18750571 original size:19 final size:19
Alignment explanation
Indices: 18750547--18750600 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
18750537 AAAATCTCTT
18750547 TAATAAAAAAAT-AAATAGA
1 TAATAAAAAAATAAAAT-GA
**
18750566 TAATAAAATTATAAAATGA
1 TAATAAAAAAATAAAATGA
18750585 TAA-AAAAAAATAAAAT
1 TAATAAAAAAATAAAAT
18750601 ACTTGATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.37
19 15 0.50
20 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
TAATAAAAAAATAAAATGA
Found at i:18751172 original size:60 final size:61
Alignment explanation
Indices: 18751108--18751235 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 61
18751098 TATAAAAAGT
** *
18751108 AAAATATTATTTAAACAAGATCATTTTAGGATCTTATAAAATTAATTGGTATCGTCTTT-A
1 AAAATATTATTTAAACAAGATCATTTTAAAATCTTATAAAATTAATTGATATCGTCTTTGA
* * *
18751168 AAAATATTATTTAAATAAGATTATTTTAAAATTTTATAAAATTAATTGATATCGTCTTTGA
1 AAAATATTATTTAAACAAGATCATTTTAAAATCTTATAAAATTAATTGATATCGTCTTTGA
18751229 AAGAATA
1 AA-AATA
18751236 ATATGAAGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 53 0.88
61 3 0.05
62 4 0.07
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (61 bp):
AAAATATTATTTAAACAAGATCATTTTAAAATCTTATAAAATTAATTGATATCGTCTTTGA
Done.