Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008674.1 Hibiscus syriacus cultivar Beakdansim tig00111689_pilon, 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: 899125
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:540306 original size:20 final size:21
Alignment explanation
Indices: 540281--540319 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
540271 ATTAATATTT
540281 TAAAAA-TAAATTAAAAAAAG
1 TAAAAAGTAAATTAAAAAAAG
*
540301 TAAAAAGTAATTTAAAAAA
1 TAAAAAGTAAATTAAAAAA
540320 TTAAATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAAAGTAAATTAAAAAAAG
Found at i:540324 original size:20 final size:20
Alignment explanation
Indices: 540280--540324 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
540270 GATTAATATT
540280 TTAAAAATAAATTAAAAAAA
1 TTAAAAATAAATTAAAAAAA
* *
540300 GTAAAAAGT-AATTTAAAAAA
1 TTAAAAA-TAAATTAAAAAAA
540320 TTAAA
1 TTAAA
540325 TAGACGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
TTAAAAATAAATTAAAAAAA
Found at i:542195 original size:29 final size:30
Alignment explanation
Indices: 542150--542217 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
542140 TTAATCAAAA
*
542150 TATTAAT-TATTAAAAT-ATTTAAATATAT-T
1 TATTAATAT-TTAAAATAATAT-AATATATAT
*
542179 TATTAATATTTATAATAATATAATATATAT
1 TATTAATATTTAAAATAATATAATATATAT
542209 T-TTAATATT
1 TATTAATATT
542218 AATATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTAATATTTAAAATAATATAATATATAT
Found at i:542273 original size:29 final size:29
Alignment explanation
Indices: 542178--542282 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 29
542168 TTAAATATAT
*
542178 TTATTAAT-ATTTATA-ATAATATAATATATA
1 TTATTAATAATATATATAT-ATATAATA-A-A
* * *
542208 TT-TTAATATTA-ATATAAAT-TAATCAA
1 TTATTAATAATATATATATATATAATAAA
*
542234 TTATATTATAATATATATATATATAATAAA
1 TTAT-TAATAATATATATATATATAATAAA
* *
542264 TTATTAATAAAATTTATAT
1 TTATTAATAATATATATAT
542283 CATTTATTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
26 3 0.05
27 2 0.03
28 10 0.17
29 29 0.50
30 14 0.24
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TTATTAATAATATATATATATATAATAAA
Found at i:542336 original size:23 final size:23
Alignment explanation
Indices: 542312--542371 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
542302 AATAATATTA
542312 TTAAAT-TATTAATAATGAATATAT
1 TTAAATAT-TTAAT-ATGAATATAT
*
542336 TTAAATATTTAATATTAATATA-
1 TTAAATATTTAATATGAATATAT
*
542358 AT-AATATTTAATAT
1 TTAAATATTTAATAT
542372 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 12 0.36
22 1 0.03
23 8 0.24
24 11 0.33
25 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAAATATTTAATATGAATATAT
Found at i:542345 original size:8 final size:7
Alignment explanation
Indices: 542332--542406 Score: 59
Period size: 7 Copynumber: 10.9 Consensus size: 7
542322 AATAATGAAT
542332 ATATTTAA
1 ATATTT-A
542340 ATATTTA
1 ATATTTA
542347 ATA-TTA
1 ATATTTA
*
542353 ATATAATA
1 ATAT-TTA
542361 ATATTTA
1 ATATTTA
542368 ATATTTTA
1 ATA-TTTA
542376 ATA---A
1 ATATTTA
542380 ATATTTA
1 ATATTTA
* *
542387 AAATATA
1 ATATTTA
*
542394 ATAATTA
1 ATATTTA
542401 ATATTT
1 ATATTT
542407 TTAAAATATA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
4 4 0.08
6 6 0.11
7 24 0.45
8 19 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
ATATTTA
Found at i:542356 original size:21 final size:20
Alignment explanation
Indices: 542336--542406 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
542326 ATGAATATAT
542336 TTAAATATTTAATATTAATA
1 TTAAATATTTAATATTAATA
* *
542356 TAATAATATTTAATATT-TTA
1 TTA-AATATTTAATATTAATA
* *
542376 ATAAATATTTAAAATATAATAA
1 TTAAATATTTAATAT-TAAT-A
542398 TT-AATATTT
1 TTAAATATTT
542407 TTAAAATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 21 0.52
22 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATATTTAATATTAATA
Found at i:542413 original size:23 final size:23
Alignment explanation
Indices: 542304--542419 Score: 74
Period size: 23 Copynumber: 4.9 Consensus size: 23
542294 TTCATAGAAA
* *
542304 TAATATTATTAAATTATTAATAAT
1 TAATATTTTTAAAATA-TAATAAT
* * *
542328 GAATATATTTAAATATTTAAT-AT
1 TAATATTTTTAAA-ATATAATAAT
** * * *
542351 TAATA-TAATAATATTTAATATTT
1 TAATATTTTTAAAATATAATA-AT
*
542374 TAATAAATATTTAAAATATAATAAT
1 TAAT--ATTTTTAAAATATAATAAT
542399 TAATATTTTTAAAATATAATA
1 TAATATTTTTAAAATATAATA
542420 TAACACTATT
Statistics
Matches: 68, Mismatches: 18, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
21 7 0.10
22 3 0.04
23 27 0.40
24 14 0.21
25 7 0.10
26 10 0.15
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
TAATATTTTTAAAATATAATAAT
Found at i:542561 original size:26 final size:27
Alignment explanation
Indices: 542519--542569 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
542509 ATTATAAAAA
*
542519 TAATATTTTAATAATAAATAA-ATTATT
1 TAATATTTTAAAAAT-AATAATATTATT
542546 TAATA-TTTAAAAATAATAATATTA
1 TAATATTTTAAAAATAATAATATTA
542570 AGTTTATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATATTTTAAAAATAATAATATTATT
Found at i:542599 original size:24 final size:23
Alignment explanation
Indices: 542522--542600 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 23
542512 ATAAAAATAA
542522 TATTTTAATAATAAATAA-ATTATT
1 TATTTT-AT-ATAAATAATATTATT
*
542546 TAATATTTA-A-AAATAATAATATT
1 T-AT-TTTATATAAATAATATTATT
* *
542569 AAGTTTATGATAAATAATATTATT
1 TATTTTAT-ATAAATAATATTATT
542593 TATTTTAT
1 TATTTTAT
542601 TTAATATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
21 4 0.09
22 7 0.16
23 7 0.16
24 19 0.44
25 3 0.07
26 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTTTATATAAATAATATTATT
Found at i:559405 original size:23 final size:23
Alignment explanation
Indices: 559379--559435 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
559369 CTAAAAGTCA
*
559379 GCACCGAAAGGTGCAAAATTAAT
1 GCACCGAAAAGTGCAAAATTAAT
559402 GCACCGAAAAGTGCAAAATTAAT
1 GCACCGAAAAGTGCAAAATTAAT
559425 GCACCGAAAAG
1 GCACCGAAAAG
559436 AAGCTGGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (23 bp):
GCACCGAAAAGTGCAAAATTAAT
Found at i:560373 original size:14 final size:14
Alignment explanation
Indices: 560354--560392 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
560344 CTTAGCATAT
560354 AGTGATGGAATGCG
1 AGTGATGGAATGCG
560368 AGTGATGGAATGCG
1 AGTGATGGAATGCG
*
560382 AGTGATTGAAT
1 AGTGATGGAAT
560393 CAGGCAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.38, T:0.26
Consensus pattern (14 bp):
AGTGATGGAATGCG
Found at i:564084 original size:35 final size:35
Alignment explanation
Indices: 564038--564133 Score: 138
Period size: 35 Copynumber: 2.7 Consensus size: 35
564028 AATGGATTAT
*
564038 GAATTTGGGATTGAGCATGTAATTGAAGTATTTTG
1 GAATTTGGGATTGAGAATGTAATTGAAGTATTTTG
* *
564073 GAATTTGGGATTTAGAATGTAATTGAAGTATTTTT
1 GAATTTGGGATTGAGAATGTAATTGAAGTATTTTG
* * *
564108 GAATTTGGGGTTTAGAATATAATTGA
1 GAATTTGGGATTGAGAATGTAATTGA
564134 TGACTGTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.31, C:0.01, G:0.26, T:0.42
Consensus pattern (35 bp):
GAATTTGGGATTGAGAATGTAATTGAAGTATTTTG
Found at i:564768 original size:17 final size:18
Alignment explanation
Indices: 564748--564782 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
564738 AGGTTTTTAA
564748 GATTAACATGCT-TTTCC
1 GATTAACATGCTCTTTCC
564765 GATTAACATGCTCTTTCC
1 GATTAACATGCTCTTTCC
564783 TCTTTGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (18 bp):
GATTAACATGCTCTTTCC
Found at i:565651 original size:96 final size:96
Alignment explanation
Indices: 565526--565708 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
565516 CAATATTAGC
* * * * * *
565526 TTTAAAATATGAGTGTTTCAATTATTTCTAGTTAAATTGGTATT-AAATTCGTTACACTAAATTC
1 TTTAAAATAAGAGTATTTCAATTATTTCTAATTAAATTGAT-TTAAAATCCGTTACACCAAATTC
* *
565590 AATTAAAGATTTAATAACAATATTAGCTGTCT
65 AATTAAACATTTAAGAACAATATTAGCTGTCT
*
565622 TTTAAAATAAGAGTATTTCAATTATTTCTAATTAAATTGATTTAAAATCCGTTACACCAAATTTA
1 TTTAAAATAAGAGTATTTCAATTATTTCTAATTAAATTGATTTAAAATCCGTTACACCAAATTCA
* *
565687 GTTAAACATTTAAGAATAATAT
66 ATTAAACATTTAAGAACAATAT
565709 ACATAATTCT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 2 0.03
96 73 0.97
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (96 bp):
TTTAAAATAAGAGTATTTCAATTATTTCTAATTAAATTGATTTAAAATCCGTTACACCAAATTCA
ATTAAACATTTAAGAACAATATTAGCTGTCT
Found at i:572719 original size:12 final size:12
Alignment explanation
Indices: 572704--572728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
572694 TTATTCTTAC
572704 TGTTTTATTATT
1 TGTTTTATTATT
572716 TGTTTTATTATT
1 TGTTTTATTATT
572728 T
1 T
572729 TATAGTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TGTTTTATTATT
Found at i:572731 original size:20 final size:20
Alignment explanation
Indices: 572638--572741 Score: 61
Period size: 23 Copynumber: 4.8 Consensus size: 20
572628 TAATTTTACC
*
572638 TTTATTATTTTGTCATTATTAT
1 TTTATTA-TTTGT-TTTATTAT
572660 TTTATTATCTT-TTATTATTAT
1 TTTATTAT-TTGTT-TTATTAT
*
572681 TTTCCATT-TCTTGTTATTCTTACTGT
1 TTT--ATTAT-TTGTT-TTATTA---T
572707 TTTATTATTTGTTTTATTAT
1 TTTATTATTTGTTTTATTAT
572727 TTTA-TAGTTTGTTTT
1 TTTATTA-TTTGTTTT
572742 TTCTTTCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 22
0.73 0.03 0.23
Matches are distributed among these distances:
19 2 0.03
20 13 0.19
21 12 0.17
22 13 0.19
23 16 0.23
24 8 0.12
25 1 0.01
26 4 0.06
ACGTcount: A:0.18, C:0.07, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTATTATTTGTTTTATTAT
Found at i:572766 original size:2 final size:2
Alignment explanation
Indices: 572759--572794 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
572749 ATATTTATGT
*
572759 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
572795 TTTTCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:572866 original size:2 final size:2
Alignment explanation
Indices: 572859--572897 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
572849 TCGTTTTATT
572859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
572898 TATTTCTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:572969 original size:14 final size:14
Alignment explanation
Indices: 572935--572972 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
572925 ATTTACATAT
*
572935 ATATTTACTATTTTA
1 ATATTTA-TTTTTTA
572950 AT-TTTATTTTTTA
1 ATATTTATTTTTTA
572963 ATATTTATTT
1 ATATTTATTT
572973 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTATTTTTTA
Found at i:572984 original size:30 final size:33
Alignment explanation
Indices: 572921--572988 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
572911 TTATTATCGA
572921 TATTATTTACATATATATTTACTATTTTAATTT
1 TATTATTTACATATATATTTACTATTTTAATTT
* * * *
572954 TATTTTTTA-ATATTTATTTA-TTTTTTATTTT
1 TATTATTTACATATATATTTACTATTTTAATTT
572985 TATT
1 TATT
572989 CACCTATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 13 0.42
32 10 0.32
33 8 0.26
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (33 bp):
TATTATTTACATATATATTTACTATTTTAATTT
Found at i:577652 original size:235 final size:228
Alignment explanation
Indices: 577209--577672 Score: 833
Period size: 235 Copynumber: 2.0 Consensus size: 228
577199 TTCTAGACAG
577209 AACCAGAGAGAACCAAGAAGAGAAAGGGAAAGGGAACAGTTTGACCCCATTCCCATGACGTACAA
1 AACCAGAGAGAACCAAGAAGAGAAAGGGAAAGGGAACAGTTTGACCCCATTCCCATGACGTACAA
577274 AGAATTATACCAACAGCTCTTCGACTCATGTAGTGTCGCCTTATCCTGAATCCATAAATCCCCCT
66 AGAATTATACCAACAGCTCTTCGACTCATGTAGTGTCGCCTTATCCTGAATCCATAAATCCCCCT
577339 ACCGAATGGTATGAGAGAGCGCTCACTGCGAGTACCATGGTGGTGTGCAGGGGCATTCGATTGAA
131 ACCGAATGGTATGAGAGAGCGCTCACTGCGAGTACCATGGTGGTGTGCAGGGGCATTCGATTGAA
577404 AGTTGTCTCGCATTCAAGAGACTTGTGCAACGA
196 AGTTGTCTCGCATTCAAGAGACTTGTGCAACGA
577437 AACCAGAGAGAACCAAGAAGAGAAAGGGAAAGGGAACAG-TTGACCCCATTCCCATGACGTACAA
1 AACCAGAGAGAACCAAGAAGAGAAAGGGAAAGGGAACAGTTTGACCCCATTCCCATGACGTACAA
577501 AGAATTATACCAACA-CTCTTCGACACTCATGTAGTGTCGCCTTATCCTATGAATCCAATAAATC
66 AGAATTATACCAACAGCTCTTCG--ACTCATGTAGTGTCGCCTTATCC--TGAATCC-ATAAAT-
577565 CCCCCTACCCGAAATGGTATGACGAGAGCGCTCACTGCGAGTACCATGGTGGTGTGCAGGGGCAT
125 CCCCCTA-CCG-AATGGTATGA-GAGAGCGCTCACTGCGAGTACCATGGTGGTGTGCAGGGGCAT
577630 TCGATTGAAAGTTGTCTCGCATTCAAGAGACTTGTGCAACGA
187 TCGATTGAAAGTTGTCTCGCATTCAAGAGACTTGTGCAACGA
577672 A
1 A
577673 TGAGAAACAA
Statistics
Matches: 227, Mismatches: 0, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
226 7 0.03
227 40 0.18
228 62 0.27
230 7 0.03
231 6 0.03
232 7 0.03
233 3 0.01
234 10 0.04
235 85 0.37
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (228 bp):
AACCAGAGAGAACCAAGAAGAGAAAGGGAAAGGGAACAGTTTGACCCCATTCCCATGACGTACAA
AGAATTATACCAACAGCTCTTCGACTCATGTAGTGTCGCCTTATCCTGAATCCATAAATCCCCCT
ACCGAATGGTATGAGAGAGCGCTCACTGCGAGTACCATGGTGGTGTGCAGGGGCATTCGATTGAA
AGTTGTCTCGCATTCAAGAGACTTGTGCAACGA
Found at i:584272 original size:105 final size:105
Alignment explanation
Indices: 584088--584653 Score: 964
Period size: 105 Copynumber: 5.4 Consensus size: 105
584078 AGGTTTTACC
584088 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
584153 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
584193 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
584258 ACGAAGGGAACGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
584298 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
584363 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
584403 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* *
584468 ACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
** * * * *
584508 TGGAGCCAATTTTAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
584573 ACGAAGGGACCGCTGGTTGTCAAC-AA-AGTT-TC-A-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
584608 CAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
584654 GCACAAGCTC
Statistics
Matches: 441, Mismatches: 19, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
100 41 0.09
101 1 0.00
102 1 0.00
103 3 0.01
104 3 0.01
105 392 0.89
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:585166 original size:2 final size:2
Alignment explanation
Indices: 585159--585229 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
585149 ATTTATGTGT
585159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
585201 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
585230 AACATATACA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:586423 original size:12 final size:12
Alignment explanation
Indices: 586408--586432 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
586398 TTATTCTTAC
586408 TGTTTTATTATT
1 TGTTTTATTATT
586420 TGTTTTATTATT
1 TGTTTTATTATT
586432 T
1 T
586433 TATAGTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TGTTTTATTATT
Found at i:586435 original size:20 final size:20
Alignment explanation
Indices: 586341--586445 Score: 63
Period size: 23 Copynumber: 4.8 Consensus size: 20
586331 TAATTTTACC
*
586341 TTTTATTATTTTGTCATTATTA
1 TTTTATTA-TTTGT-TTTATTA
586363 TTTTATTATCTT-TTATTATTA
1 TTTTATTAT-TTGTT-TTATTA
*
586384 TTTTCCATT-TCTTGTTATTCTTA
1 TTTT--ATTAT-TTGTT-TTATTA
586407 CTGTTTTATTATTTGTTTTATTA
1 ---TTTTATTATTTGTTTTATTA
586430 TTTTA-TAGTTTGTTTT
1 TTTTATTA-TTTGTTTT
586446 CTTTCTTTCA
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.03
20 13 0.19
21 12 0.17
22 14 0.20
23 16 0.23
24 8 0.11
25 1 0.01
26 4 0.06
ACGTcount: A:0.18, C:0.07, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTATTATTTGTTTTATTA
Found at i:586472 original size:2 final size:2
Alignment explanation
Indices: 586465--586503 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
586455 ATATTTATGT
* * *
586465 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TT TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
586504 TTTTCTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:586578 original size:2 final size:2
Alignment explanation
Indices: 586571--586650 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
586561 GTTTTATTTA
586571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
586613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
586651 TTCTTTCTTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:586724 original size:14 final size:14
Alignment explanation
Indices: 586690--586727 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
586680 ACATATATAT
*
586690 ATATTTACTATTTTA
1 ATATTTA-TTTTTTA
586705 AT-TTTATTTTTTA
1 ATATTTATTTTTTA
586718 ATATTTATTT
1 ATATTTATTT
586728 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTATTTTTTA
Found at i:589271 original size:18 final size:19
Alignment explanation
Indices: 589229--589272 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
589219 ATTATAAAGT
*
589229 ATTAAATATATAATTATAA
1 ATTAATTATATAATTATAA
589248 ATTAATTATA-AATT-TAA
1 ATTAATTATATAATTATAA
589265 ATGTAATT
1 AT-TAATT
589273 TAATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 9 0.39
19 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTAATTATATAATTATAA
Found at i:595422 original size:34 final size:35
Alignment explanation
Indices: 595346--595428 Score: 116
Period size: 35 Copynumber: 2.4 Consensus size: 35
595336 TATTTTTAAC
* * *
595346 TAAATATTATAATATTATATTTTTATCAAATAAAT
1 TAAATAATATAATATAATATTTTTAACAAATAAAT
*
595381 TAAATAATATAATATAATATTTTTAAC-AATATAT
1 TAAATAATATAATATAATATTTTTAACAAATAAAT
595415 TAAATAATA-AATAT
1 TAAATAATATAATAT
595429 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 5 0.11
34 15 0.34
35 24 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (35 bp):
TAAATAATATAATATAATATTTTTAACAAATAAAT
Found at i:595434 original size:15 final size:16
Alignment explanation
Indices: 595408--595437 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
595398 TATTTTTAAC
595408 AATATATTAAATAATA
1 AATATATTAAATAATA
595424 AATAT-TTAAATAAT
1 AATATATTAAATAAT
595438 TTTATTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATATTAAATAATA
Found at i:598941 original size:34 final size:34
Alignment explanation
Indices: 598902--599008 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
598892 TAAGTTGAAA
* *
598902 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * *
598936 TTTAATTTTAAATTTCAAATAATATTATTTTTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* *
598970 TTTTATTTTAAATTTCGAATAATATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
599004 TTTAA
1 TTTAA
599009 AAAACATTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:599560 original size:21 final size:21
Alignment explanation
Indices: 599530--599617 Score: 124
Period size: 21 Copynumber: 4.2 Consensus size: 21
599520 TATGGTATAA
*
599530 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
599551 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
599572 AACCCTACGAGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
599593 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
599614 AACC
1 AACC
599618 ATATGGAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
20 3 0.05
21 53 0.90
22 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:599653 original size:21 final size:21
Alignment explanation
Indices: 599627--599674 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
599617 CATATGGAGA
*
599627 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
599648 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
599669 GGGCAT
1 TGGCAT
599675 GTATTCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:601441 original size:35 final size:33
Alignment explanation
Indices: 601397--601485 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 33
601387 TAATAATTCT
601397 AAATAAATAATAATTATATAAATATTATTTTAATA-A
1 AAAT-AATAATAATTATATAAATA-TA--TTAATATA
* *
601433 AAATAATAATATTTACATAAATATATTAATATA
1 AAATAATAATAATTATATAAATATATTAATATA
* *
601466 AAAT-ATAATAACTATTTAAA
1 AAATAATAATAATTATATAAA
601486 AAAATACTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
32 18 0.39
33 5 0.11
34 2 0.04
35 17 0.37
36 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (33 bp):
AAATAATAATAATTATATAAATATATTAATATA
Found at i:601452 original size:20 final size:19
Alignment explanation
Indices: 601425--601491 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
601415 TAAATATTAT
601425 TTTAATAAAAATAATAATA
1 TTTAATAAAAATAATAATA
* *
601444 TTTACATAAATATATTAATA
1 TTTA-ATAAAAATAATAATA
*
601464 --T-A-AAATATAATAACTA
1 TTTAATAAAAATAATAA-TA
601480 TTTAA-AAAAATA
1 TTTAATAAAAATA
601492 CTAACATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
18 2 0.05
19 11 0.28
20 13 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAATAAAAATAATAATA
Found at i:601462 original size:32 final size:35
Alignment explanation
Indices: 601397--601476 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
601387 TAATAATTCT
*
601397 AAATAAATAATAATTATATAAATATTATTTTAATA-A
1 AAAT-AATAATAATTACATAAATATTA-TTTAATATA
*
601433 AAATAATAATATTTACATAAATA-TA-TTAATATA
1 AAATAATAATAATTACATAAATATTATTTAATATA
601466 AAAT-ATAATAA
1 AAATAATAATAA
601477 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 12 0.30
33 5 0.12
34 2 0.05
35 17 0.43
36 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (35 bp):
AAATAATAATAATTACATAAATATTATTTAATATA
Found at i:601504 original size:35 final size:35
Alignment explanation
Indices: 601429--601506 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
601419 TATTATTTTA
* * *
601429 ATAAAA-ATAATAATATTTACATAAATATATTAAT
1 ATAAAATATAATAATATTTACATAAAAATACTAAC
601463 ATAAAATATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAATATAATAA-TATTTACATAAAAATACTAAC
601497 ATAAAA-ATAA
1 ATAAAATATAA
601507 ATTTCTTACC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.10
34 21 0.54
35 8 0.21
36 6 0.15
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (35 bp):
ATAAAATATAATAATATTTACATAAAAATACTAAC
Found at i:614419 original size:28 final size:26
Alignment explanation
Indices: 614355--614419 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
614345 TTTTGCCTTC
* * *
614355 TAAAATTTTATAAGTTAATTATTTCC
1 TAAAATATTATAAGTTAATTATTACA
*
614381 TAAAATATTATAAGTTCATCTCATTACA
1 TAAAATATTATAAGTTAAT-T-ATTACA
*
614409 TAAAATCTTAT
1 TAAAATATTAT
614420 GTTTGTTCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 17 0.53
27 1 0.03
28 14 0.44
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (26 bp):
TAAAATATTATAAGTTAATTATTACA
Found at i:615884 original size:15 final size:14
Alignment explanation
Indices: 615850--615884 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
615840 ATATGACTAT
615850 TCATTTATTCTAAA
1 TCATTTATTCTAAA
615864 TCCATTTATTCTAAA
1 T-CATTTATTCTAAA
615879 CTCATT
1 -TCATT
615885 ATTTTCCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 17 0.89
16 1 0.05
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (14 bp):
TCATTTATTCTAAA
Found at i:617249 original size:16 final size:18
Alignment explanation
Indices: 617224--617261 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
617214 AATTTTAATT
617224 TTTTTCTAAAAA-TATTA
1 TTTTTCTAAAAATTATTA
617241 TTTTT-TAAAAATTATTA
1 TTTTTCTAAAAATTATTA
617258 TTTT
1 TTTT
617262 AAAATCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTCTAAAAATTATTA
Found at i:617256 original size:14 final size:16
Alignment explanation
Indices: 617232--617271 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
617222 TTTTTTTCTA
617232 AAAATATTATT-TTTT
1 AAAATATTATTATTTT
617247 AAAA-ATTATTATTTT
1 AAAATATTATTATTTT
617262 AAAATCATTA
1 AAAAT-ATTA
617272 AAAAAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
17 4 0.18
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATATTATTATTTT
Found at i:617468 original size:22 final size:22
Alignment explanation
Indices: 617443--617493 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
617433 TTAGAAGATT
617443 TTTAGGGATTAAATGTTT-GGAA
1 TTTAGGGATTAAA-GTTTAGGAA
* * *
617465 TTTAAGAATTTAAGTTTAGGAA
1 TTTAGGGATTAAAGTTTAGGAA
617487 TTTAGGG
1 TTTAGGG
617494 GTAGTGTGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.41
Consensus pattern (22 bp):
TTTAGGGATTAAAGTTTAGGAA
Found at i:624865 original size:35 final size:36
Alignment explanation
Indices: 624820--624889 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
624810 GAATTCAAAA
624820 TATATAAATAATCATTAAATTATATTAAAA-ATTAAC
1 TATATAAATAATCATTAAATT-TATTAAAATATTAAC
*
624856 TATA-AAATAATTATTAAATTTATTAAAATATTAA
1 TATATAAATAATCATTAAATTTATTAAAATATTAA
624890 AAAACAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 8 0.25
35 20 0.62
36 4 0.12
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (36 bp):
TATATAAATAATCATTAAATTTATTAAAATATTAAC
Found at i:624981 original size:10 final size:11
Alignment explanation
Indices: 624966--625014 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
624956 TTCAATAAGT
624966 TAATTT-ATAA
1 TAATTTGATAA
624976 TAATTTGATAAAA
1 TAATTTGAT--AA
624989 TTAATTT-ATAA
1 -TAATTTGATAA
625000 TAATTTGATAA
1 TAATTTGATAA
625011 -AATT
1 TAATT
625015 AATTTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 16 0.47
11 8 0.24
13 4 0.12
14 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (11 bp):
TAATTTGATAA
Found at i:624992 original size:24 final size:25
Alignment explanation
Indices: 624965--625049 Score: 120
Period size: 24 Copynumber: 3.5 Consensus size: 25
624955 ATTCAATAAG
624965 TTAA-TTTATAATAATTTGATAAAA
1 TTAATTTTATAATAATTTGATAAAA
624989 TTAA-TTTATAATAATTTGATAAAA
1 TTAATTTTATAATAATTTGATAAAA
* * * *
625013 TTAATTTTTTAATTATATGATAAAT
1 TTAATTTTATAATAATTTGATAAAA
625038 TTAATTTTATAA
1 TTAATTTTATAA
625050 GTTTTAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 28 0.51
25 27 0.49
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TTAATTTTATAATAATTTGATAAAA
Found at i:624995 original size:14 final size:14
Alignment explanation
Indices: 624976--625019 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
624966 TAATTTATAA
624976 TAATTTGATAAAAT
1 TAATTTGATAAAAT
624990 TAATTT-AT--AA-
1 TAATTTGATAAAAT
625000 TAATTTGATAAAAT
1 TAATTTGATAAAAT
625014 TAATTT
1 TAATTT
625020 TTTAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 6 0.23
11 4 0.15
13 4 0.15
14 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
TAATTTGATAAAAT
Found at i:625159 original size:7 final size:7
Alignment explanation
Indices: 625147--625171 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
625137 GGACAGAAAC
625147 AAAAGCT
1 AAAAGCT
625154 AAAAGCT
1 AAAAGCT
625161 AAAAGCT
1 AAAAGCT
625168 AAAA
1 AAAA
625172 ACTGGAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAGCT
Found at i:632136 original size:13 final size:13
Alignment explanation
Indices: 632114--632149 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
632104 AAGTTTTGCA
*
632114 ATGTGGAACTGCG
1 ATGTGTAACTGCG
632127 ATGTGTAACTGCG
1 ATGTGTAACTGCG
632140 ATGTGTAACT
1 ATGTGTAACT
632150 ATCAGTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (13 bp):
ATGTGTAACTGCG
Found at i:638274 original size:16 final size:16
Alignment explanation
Indices: 638253--638284 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
638243 CCCCTTACCC
638253 CATACATATGAGAAAA
1 CATACATATGAGAAAA
638269 CATACATATGAGAAAA
1 CATACATATGAGAAAA
638285 AGGGACAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (16 bp):
CATACATATGAGAAAA
Found at i:639188 original size:131 final size:131
Alignment explanation
Indices: 638942--639209 Score: 520
Period size: 131 Copynumber: 2.0 Consensus size: 131
638932 CAAAAGTACC
638942 ATTTTGAGAAAAGAAGAATAAACATAAGCACTAGTCTTTAAATAGAGTATATTTTTGCCAAGTTG
1 ATTTTGAGAAAAGAAGAATAAACATAAGCACTAGTCTTTAAATAGAGTATATTTTTGCCAAGTTG
639007 CCAAATAATGAAGGGAAGAAAAATCCAGTCCTCCCACTAAAACACTGGCAGAATATCTTACTGTA
66 CCAAATAATGAAGGGAAGAAAAATCCAGTCCTCCCACTAAAACACTGGCAGAATATCTTACTGTA
639072 T
131 T
639073 ATTTT-AGAAAAGAAGAATAAACATAAGCACTAGTCTTTAAATAGAGTATATTTTTGCCAAGTTG
1 ATTTTGAGAAAAGAAGAATAAACATAAGCACTAGTCTTTAAATAGAGTATATTTTTGCCAAGTTG
639137 CCAAAATAATGAAGGGAAGAAAAATCCAGTCCTCCCACTAAAACACTGGCAGAATATCTTACTGT
66 CC-AAATAATGAAGGGAAGAAAAATCCAGTCCTCCCACTAAAACACTGGCAGAATATCTTACTGT
639202 AT
130 AT
639204 ATTTTG
1 ATTTTG
639210 CTGAGTTTAA
Statistics
Matches: 135, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
130 61 0.45
131 74 0.55
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (131 bp):
ATTTTGAGAAAAGAAGAATAAACATAAGCACTAGTCTTTAAATAGAGTATATTTTTGCCAAGTTG
CCAAATAATGAAGGGAAGAAAAATCCAGTCCTCCCACTAAAACACTGGCAGAATATCTTACTGTA
T
Found at i:642102 original size:2 final size:2
Alignment explanation
Indices: 642095--642119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
642085 TCATTTGAGT
642095 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 T
642120 TTCTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:643037 original size:16 final size:18
Alignment explanation
Indices: 643016--643055 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
643006 AATTGAATTT
643016 CAATTCC-T-ACAGATTC
1 CAATTCCTTCACAGATTC
*
643032 CAATTCCTTCACAGATTT
1 CAATTCCTTCACAGATTC
643050 CAATTC
1 CAATTC
643056 TCTTGTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (18 bp):
CAATTCCTTCACAGATTC
Found at i:644894 original size:2 final size:2
Alignment explanation
Indices: 644887--644912 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
644877 CCAACTACAG
644887 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
644913 TCCTAGTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:660338 original size:27 final size:27
Alignment explanation
Indices: 660300--660365 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
660290 AAAACAGTGT
* *
660300 TGAATGATTCAGCACAGAAGTATATTC
1 TGAATGATTCAGCACAGAAGTACATTA
*
660327 TGAATGATTCAGCACATAAGTACATTA
1 TGAATGATTCAGCACAGAAGTACATTA
*
660354 TGAATAATTCAG
1 TGAATGATTCAG
660366 AATCATTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (27 bp):
TGAATGATTCAGCACAGAAGTACATTA
Found at i:667738 original size:219 final size:219
Alignment explanation
Indices: 667333--667878 Score: 894
Period size: 219 Copynumber: 2.5 Consensus size: 219
667323 TATTTTGATA
* * * * * *
667333 TGTGCAAGGGTAAGCCTTACAGTTTCCCACAGGTTCCTTTGATGTGTACAAGGGTAAGCCTTACA
1 TGTGCAAGGGCATGCCTTATAGTTT-CCACAGGTTCCCTTGCTGTGTGCAAGGGTAAGCCTTACA
*
667398 GTTTCCCCCAGGTTCTTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGT
65 GTTTCCCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGT
* *
667463 TGTGTGCAAGTGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTTGTGTGCAAGGGTAAGCCTTA
130 TGTGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTA
*
667528 CAGTTTCCCCCAGGTTCCTTTGTTG
195 CAGTTTCCCCCAAGTTCCTTTGTTG
667553 TGTGCAAGGGCATGCCTTATAGTTTCCACAGGTTCCCTTGCTGTGTGCAAGGGTAAGCCTTACAG
1 TGTGCAAGGGCATGCCTTATAGTTTCCACAGGTTCCCTTGCTGTGTGCAAGGGTAAGCCTTACAG
*
667618 TTTCCCCCGGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTT
66 TTTCCCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTT
*
667683 GTGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
131 GTGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTAC
667748 AGTTTCCCCCAAGTTCCTTTGTTG
196 AGTTTCCCCCAAGTTCCTTTGTTG
* ** *
667772 TGTGCAAGGGCATGCCTTATAGTTTCCCCAGGTTCCCTTGCTGTGTGCAAATGTAAGCCTTACAA
1 TGTGCAAGGGCATGCCTTATAGTTTCCACAGGTTCCCTTGCTGTGTGCAAGGGTAAGCCTTACAG
** * *
667837 TTTTTCCCAGGTTCCTTTGCTATGTGCAAGGGTAAGACCTTA
66 TTTCCCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAG-CCTTA
667879 TTGTTTTCTA
Statistics
Matches: 304, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
219 277 0.91
220 27 0.09
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (219 bp):
TGTGCAAGGGCATGCCTTATAGTTTCCACAGGTTCCCTTGCTGTGTGCAAGGGTAAGCCTTACAG
TTTCCCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTT
GTGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTAC
AGTTTCCCCCAAGTTCCTTTGTTG
Found at i:667886 original size:44 final size:44
Alignment explanation
Indices: 667333--667878 Score: 790
Period size: 44 Copynumber: 12.4 Consensus size: 44
667323 TATTTTGATA
* *
667333 TGTGCAAGGGTAAGCCTTACAGTTTCCCACAGGTTCCTTTGATG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
* *
667377 TGTACAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCTTTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
*
667421 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
* *
667465 TGTGCAAGTGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
667509 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
* * * * * *
667553 TGTGCAAGGGCATGCCTTATAGTTT-CCACAGGTTCCCTTGCTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
*
667596 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCGGGTTCCTTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
*
667640 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
* * *
667684 TGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGTTCCTTTGCTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
*
667728 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTTCCTTTGTTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
* * * * *
667772 TGTGCAAGGGCATGCCTTATAGTTT-CCCCAGGTTCCCTTGCTG
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
** * ** * *
667815 TGTGCAAATGTAAGCCTTACAATTTTTCCCAGGTTCCTTTGCTA
1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
667859 TGTGCAAGGGTAAGACCTTA
1 TGTGCAAGGGTAAG-CCTTA
667879 TTGTTTTCTA
Statistics
Matches: 450, Mismatches: 49, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
43 71 0.16
44 374 0.83
45 5 0.01
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (44 bp):
TGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTG
Found at i:667900 original size:87 final size:87
Alignment explanation
Indices: 667326--667959 Score: 571
Period size: 88 Copynumber: 7.2 Consensus size: 87
667316 TACAGTTTAT
* * * * *
667326 TTTGATATGTGCAAGGGTAAGCCTTACAGTTTCCCACAGGTTCCTTTGATGTGTACAAGGGTAAG
1 TTTGCTATGTGCAAGGGTAAGCCTTATAGTTTCCC-CAGCTTCCTTTGCTGTGTGCAAGGGTAAG
** *
667391 CCTTACAGTTTCCCCCAGGTTCT
65 CCTTACAGTTTTTCCCAGGTTCC
* * * * * * *
667414 TTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTTGTGTGCAAGTGTAAG
1 TTTGCTATGTGCAAGGGTAAGCCTTATAGTTT-CCCCAGCTTCCTTTGCTGTGTGCAAGGGTAAG
** *
667479 CCTTACAGTTTCCCCCAGGTTCA
65 CCTTACAGTTTTTCCCAGGTTCC
* * * * * * *
667502 TTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTTCCTTTGTTGTGTGCAAGGGCATG
1 TTTGCTATGTGCAAGGGTAAGCCTTATAGTTT-CCCCAGCTTCCTTTGCTGTGTGCAAGGGTAAG
*
667567 CCTTATAG--TTTCCACAGGTTCC
65 CCTTACAGTTTTTCC-CAGGTTCC
* * * * * *
667589 CTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCGGGTTCCTTTGTTGTGTGCAAGGGTAAG
1 TTTGCTATGTGCAAGGGTAAGCCTTATAGTTT-CCCCAGCTTCCTTTGCTGTGTGCAAGGGTAAG
** *
667654 CCTTACAGTTTCCCCCAGGTTCA
65 CCTTACAGTTTTTCCCAGGTTCC
* * * * * *
667677 TTTGTTGTGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
1 TTTGCTATGTGCAAGGGTAAGCCTTATAGTTT-CCCCAGCTTCCTTTGCTGTGTGCAAGGGTAAG
** *
667742 CCTTACAGTTTCCCCCAAGTTCC
65 CCTTACAGTTTTTCCCAGGTTCC
* * * * * * **
667765 TTTGTTGTGTGCAAGGGCATGCCTTATAGTTTCCCCAGGTTCCCTTGCTGTGTGCAAATGTAAGC
1 TTTGCTATGTGCAAGGGTAAGCCTTATAGTTTCCCCAGCTTCCTTTGCTGTGTGCAAGGGTAAGC
*
667830 CTTACAATTTTTCCCAGGTTCC
66 CTTACAGTTTTTCCCAGGTTCC
* * * * *
667852 TTTGCTATGTGCAAGGGTAAGACCTTATTGTTT-TCTAGACTT-TTTTGCTATGTGCAAGGGTAA
1 TTTGCTATGTGCAAGGGTAAG-CCTTATAGTTTCCCCAG-CTTCCTTTGCTGTGTGCAAGGGTAA
*
667915 GGCCTTATC-GTTTTT-GCAGGCTT-C
64 -GCCTTA-CAGTTTTTCCCAGG-TTCC
*
667939 TTTGCTTTGTGCACAGGGTAA
1 TTTGCTATGTGCA-AGGGTAA
667960 ATATGTTTTA
Statistics
Matches: 476, Mismatches: 60, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
86 3 0.01
87 175 0.37
88 291 0.61
89 7 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (87 bp):
TTTGCTATGTGCAAGGGTAAGCCTTATAGTTTCCCCAGCTTCCTTTGCTGTGTGCAAGGGTAAGC
CTTACAGTTTTTCCCAGGTTCC
Found at i:667909 original size:43 final size:43
Alignment explanation
Indices: 667851--667959 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
667841 TCCCAGGTTC
*
667851 CTTTGCTATGTGCAAGGGTAAGACCTTATTG-TTTTCTAGACTT
1 CTTTGCTATGTGCAAGGGTAAGACCTTATCGTTTTTC-AGACTT
* * *
667894 TTTTGCTATGTGCAAGGGTAAGGCCTTATCGTTTTTGCAGGCTT
1 CTTTGCTATGTGCAAGGGTAAGACCTTATCGTTTTT-CAGACTT
*
667938 CTTTGCTTTGTGCACAGGGTAA
1 CTTTGCTATGTGCA-AGGGTAA
667960 ATATGTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 28 0.49
44 21 0.37
45 8 0.14
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (43 bp):
CTTTGCTATGTGCAAGGGTAAGACCTTATCGTTTTTCAGACTT
Found at i:667944 original size:131 final size:129
Alignment explanation
Indices: 667326--667951 Score: 490
Period size: 131 Copynumber: 4.8 Consensus size: 129
667316 TACAGTTTAT
* ** * * *
667326 TTTGATATGTGCAAGGGTAAGCCTTACAGTTTCCCACAGGTTCCTTTGATGTGTACAAGGGTAA-
1 TTTGCTATGTGCAAGGGTAAGCCTTACAGTTTCCC-CAACTTCCTTTGCTATGTGCAAGGG-AAG
* * ** * *
667390 GCCTTACAGTTTCCCCCAGGTTCTTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGT
64 GCCTTATAGTTT-CCCCAGGTTC-TTTGCTGTGTGCAAATGTAAACCTTACAATTTCCCCCAGGT
*
667455 TCA
127 TCC
* * * ** * * *
667458 TTTGTTGTGTGCAAGTGTAAGCCTTACAGTTTCCCCCAGGTTCATTTGTTGTGTGCAAGGGTAA-
1 TTTGCTATGTGCAAGGGTAAGCCTTACAGTTT-CCCCAACTTCCTTTGCTATGTGCAAGGG-AAG
* * ** * ** * * *
667522 GCCTTACAGTTTCCCCCAGGTTCCTTTGTTGTGTGCAAGGGCATGCCTTATAGTTT-CCACAGGT
64 GCCTTATAGTTT-CCCCAGGTT-CTTTGCTGTGTGCAAATGTAAACCTTACAATTTCCCCCAGGT
667586 TCC
127 TCC
* * *** * *
667589 CTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCGGGTTCCTTTGTTGTGTGCAAGGGTAA-
1 TTTGCTATGTGCAAGGGTAAGCCTTACAGTTT-CCCCAACTTCCTTTGCTATGTGCAAGGG-AAG
* * * *
667653 GCCTTACAGTTTCCCCCAGGTTCATTTGTTGTGTGCAAGTGTAAACCTTACAGTTTCCCCCAGGT
64 GCCTTATAGTTT-CCCCAGGTTC-TTTGCTGTGTGCAAATGTAAACCTTACAATTTCCCCCAGGT
667718 TCC
127 TCC
* * * * * *
667721 TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTTCCTTTGTTGTGTGCAAGGGCATG
1 TTTGCTATGTGCAAGGGTAAGCCTTACAGTTT-CCCCAACTTCCTTTGCTATGTGCAAGGGAAGG
* * **
667786 CCTTATAGTTTCCCCAGGTTCCCTTGCTGTGTGCAAATGTAAGCCTTACAATTTTTCCCAGGTTC
65 CCTTATAGTTTCCCCAGGTT-CTTTGCTGTGTGCAAATGTAAACCTTACAATTTCCCCCAGGTTC
667851 C
129 C
** * * *
667852 TTTGCTATGTGCAAGGGTAAGACCTTATTGTTT-TCTAGACTT-TTTTGCTATGTGCAAGGGTAA
1 TTTGCTATGTGCAAGGGTAAG-CCTTACAGTTTCCCCA-ACTTCCTTTGCTATGTGCAAGGG-AA
* *** *
667915 GGCCTTATCGTTTTTGCAGGCTTCTTTGCTTTGTGCA
63 GGCCTTATAGTTTCCCCAGG-TTCTTTGCTGTGTGCA
667952 CAGGGTAAAT
Statistics
Matches: 433, Mismatches: 51, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
130 18 0.04
131 215 0.50
132 196 0.45
133 4 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (129 bp):
TTTGCTATGTGCAAGGGTAAGCCTTACAGTTTCCCCAACTTCCTTTGCTATGTGCAAGGGAAGGC
CTTATAGTTTCCCCAGGTTCTTTGCTGTGTGCAAATGTAAACCTTACAATTTCCCCCAGGTTCC
Found at i:675087 original size:27 final size:27
Alignment explanation
Indices: 675042--675104 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
675032 AACAGTGTTA
* *
675042 AATGATTCATCACAGAAGTATATTTTG
1 AATGATTCATCACAAAAGTACATTTTG
*
675069 AATGATTCATTACAAAAGTACATTTTG
1 AATGATTCATCACAAAAGTACATTTTG
675096 AATGATTCA
1 AATGATTCA
675105 AAGCCATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (27 bp):
AATGATTCATCACAAAAGTACATTTTG
Found at i:678344 original size:17 final size:18
Alignment explanation
Indices: 678301--678351 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
678291 GGAATGTTTA
* *
678301 TGAAAGAATTGAAATCTG
1 TGAAGGAATTGGAATCTG
678319 TGAAGGAATTGGAATCTG
1 TGAAGGAATTGGAATCTG
* *
678337 T-CAGGAATTTGAATC
1 TGAAGGAATTGGAATC
678352 CAATTCTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (18 bp):
TGAAGGAATTGGAATCTG
Found at i:679271 original size:256 final size:258
Alignment explanation
Indices: 678713--679334 Score: 968
Period size: 256 Copynumber: 2.4 Consensus size: 258
678703 CTCCATCCGA
678713 GACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
*
678778 CCGACCCGAAATAATAAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATTGGAAAAAATA
66 CCGACCCGAAATAAT-AAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAATA
*
678843 TAGAGAGAGAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTTTTTTT
130 TAGAGAGAGAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATA----TTAT
678908 GGTCGGGTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATATCACACTTAAAAA
191 -GTCGGGTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATATCACACTTAAAAA
678973 AACC
255 AACC
* * * *
678977 GACCCGACCCGACCAAAATAAATTTTCACTCAACCCGACCCGAATATATGAATTAGAAATCCGAC
1 GACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
*
679042 CCAACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAA-A-TGACTTAATTGAGAAAAAAA
66 CCGACCCGAAATAATAAAAAAA-TATTTTTATTCAATAAAAACAGTGACTTAATTG-G-AAAAAA
* *
679105 TTATATATA-A-AGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATA-TAT-
128 -TATAGAGAGAGAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTATG
* * * *
679166 TCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACTCGACTCGAATATCACACTTAAAAAAA
192 TCGGGTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATATCACACTTAAAAAAA
679231 CC
257 CC
* *
679233 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCAAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
*
679298 CCGACCTGAAATAATAAAAAAATATTTTTATTCAATA
66 CCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
679335 TATAAATAAA
Statistics
Matches: 334, Mismatches: 20, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
255 15 0.04
256 143 0.43
258 2 0.01
262 11 0.03
263 57 0.17
264 100 0.30
265 6 0.02
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (258 bp):
GACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
CCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAATAT
AGAGAGAGAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTATGTCGG
GTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATATCACACTTAAAAAAACC
Found at i:698005 original size:2 final size:2
Alignment explanation
Indices: 698000--698032 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
697990 TAAAAAAAAG
*
698000 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
698033 TAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:705622 original size:30 final size:30
Alignment explanation
Indices: 705588--705644 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
705578 CATTAAATTT
705588 AAATTAATTAAAT-TATTTATTGAATAACTG
1 AAATT-ATTAAATGTATTTATTGAATAACTG
* *
705618 AAATTATTAAATGTTTTTATTTAATAA
1 AAATTATTAAATGTATTTATTGAATAA
705645 ATATAAAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (30 bp):
AAATTATTAAATGTATTTATTGAATAACTG
Found at i:706902 original size:142 final size:142
Alignment explanation
Indices: 706635--706904 Score: 488
Period size: 142 Copynumber: 1.9 Consensus size: 142
706625 ATTTTCGTTA
706635 GTATAATAACATGACATGTTAGTAATAAAGTTTATTTCTAATTTGACCCTCAAATTTTTATAACT
1 GTATAATAACATGACATGTTAGTAATAAAGTTTATTTCTAATTTGACCCTCAAATTTTTATAACT
*
706700 TTATTTTCACTCTATTAAAAAAAATCTCTTTCAACCCCTCTCTCACGGAGGGGGGGGGGGGGTGG
66 TTATTTTCACTCTATTAAAAAAAATCTCTTTCAACCCCTCTCTCACGGAGGGAGGGGGGGGGTGG
706765 ACTTGAGTTAAC
131 ACTTGAGTTAAC
706777 GTATAATAACATGACATGTTAGTAATAAAGTTTATTTCTAATTTGACCCTCAAATTTTTATAACT
1 GTATAATAACATGACATGTTAGTAATAAAGTTTATTTCTAATTTGACCCTCAAATTTTTATAACT
* *
706842 TTATTTTCACTCTGTTAAAAAAAATTCTCTTTCAACCCCTCTCTCTCGG-GGGAGGTGGGGGGG
66 TTATTTTCACTCTATTAAAAAAAA-TCTCTTTCAACCCCTCTCTCACGGAGGGAGG-GGGGGGG
706905 GGGTGGACTG
Statistics
Matches: 123, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
142 93 0.76
143 30 0.24
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (142 bp):
GTATAATAACATGACATGTTAGTAATAAAGTTTATTTCTAATTTGACCCTCAAATTTTTATAACT
TTATTTTCACTCTATTAAAAAAAATCTCTTTCAACCCCTCTCTCACGGAGGGAGGGGGGGGGTGG
ACTTGAGTTAAC
Found at i:722728 original size:45 final size:45
Alignment explanation
Indices: 722664--722932 Score: 378
Period size: 45 Copynumber: 6.0 Consensus size: 45
722654 GAGTTCCGCA
* * *
722664 GATCCAGGCGCTAGACCTGCTTCCATCGAACCCAATTATAGAGCG
1 GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
722709 GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
1 GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
* * *
722754 GATCCTA-CATCTCGACCTGCGTCCATTGAACCCAATTATAGAGCG
1 GATCCAAGC-TCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
* * *
722799 GATCCAAGCTCTAGAACTGCATCCATTGAACCCAATTATAGAGCG
1 GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
* * *
722844 GATCCAAGCTCTAGACCTGCGTCCATTGAACCTAATTATAGAGTG
1 GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
* * * *
722889 GATCCAAGTTCTAGACCTGCATCTATCAAACCCAATTATAGAGC
1 GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGC
722933 TGCGCCAGAG
Statistics
Matches: 201, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.00
45 199 0.99
46 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
GATCCAAGCTCTAGACCTGCGTCCATCGAACCCAATTATAGAGCG
Found at i:733967 original size:30 final size:31
Alignment explanation
Indices: 733933--734007 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
733923 TTTCTAACGT
733933 TTGTTATT-GTGGGCCTAA-TGTTTTCAATAC
1 TTGTTATTAG-GGGCCTAATTGTTTTCAATAC
* * **
733963 TTGTTATTAGGGGCTTAATTTTTTTCAATGT
1 TTGTTATTAGGGGCCTAATTGTTTTCAATAC
733994 TTGTTATTAGGGGC
1 TTGTTATTAGGGGC
734008 ATATTTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 15 0.38
31 24 0.62
ACGTcount: A:0.19, C:0.09, G:0.23, T:0.49
Consensus pattern (31 bp):
TTGTTATTAGGGGCCTAATTGTTTTCAATAC
Found at i:733991 original size:31 final size:30
Alignment explanation
Indices: 733953--734015 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
733943 GGGCCTAATG
*
733953 TTTTCAATACTTGTTATTAGGGGCTTAATTT
1 TTTTCAATACTTGTTATTAGGGGCAT-ATTT
**
733984 TTTTCAATGTTTGTTATTAGGGGCATATTT
1 TTTTCAATACTTGTTATTAGGGGCATATTT
734014 TT
1 TT
734016 AAAATACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.21, C:0.08, G:0.17, T:0.54
Consensus pattern (30 bp):
TTTTCAATACTTGTTATTAGGGGCATATTT
Found at i:734168 original size:71 final size:72
Alignment explanation
Indices: 734087--734225 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 72
734077 TTATAAGAGG
*
734087 TCTAGTTTTTTAAATA-TTCGTTATTAT-GAGC-ATACTCTTAAAATTTATTTTTTTAATATTTG
1 TCTAGTTTTTTAAATACTT-GTTATTATGGAACTAT-C-CTTAAAATTTATTTTTTTAATATTTG
734149 TTATTAGGGA
63 TTATTAGGGA
*
734159 TCTA-TTTTTTCAATACTTGTTATTATGGAACTATCCTTAAAATTTATTTTTTTAATATTTGTTA
1 TCTAGTTTTTTAAATACTTGTTATTATGGAACTATCCTTAAAATTTATTTTTTTAATATTTGTTA
734223 TTA
66 TTA
734226 AGAACAATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
71 50 0.81
72 10 0.16
73 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (72 bp):
TCTAGTTTTTTAAATACTTGTTATTATGGAACTATCCTTAAAATTTATTTTTTTAATATTTGTTA
TTAGGGA
Found at i:734178 original size:29 final size:29
Alignment explanation
Indices: 734132--734192 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
734122 TCTTAAAATT
* * *
734132 TATTTTTTTAATATTTGTTATTAGGGATC
1 TATTTTTTCAATACTTGTTATTAGGGAAC
*
734161 TATTTTTTCAATACTTGTTATTATGGAAC
1 TATTTTTTCAATACTTGTTATTAGGGAAC
734190 TAT
1 TAT
734193 CCTTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (29 bp):
TATTTTTTCAATACTTGTTATTAGGGAAC
Found at i:734240 original size:42 final size:42
Alignment explanation
Indices: 734161--734242 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
734151 ATTAGGGATC
* * *
734161 TATTTTTTCAATACTTGTTATTATGGAACTATCCTTAAAATT
1 TATTTTTTCAATACTTGTTATTATAGAACAATACTTAAAATT
* *
734203 TATTTTTTTAATATTTGTTATTA-AGAACAATTACTTAAAA
1 TATTTTTTCAATACTTGTTATTATAGAACAA-TACTTAAAA
734243 ACGGTCTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 5 0.15
42 29 0.85
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (42 bp):
TATTTTTTCAATACTTGTTATTATAGAACAATACTTAAAATT
Found at i:741309 original size:18 final size:19
Alignment explanation
Indices: 741254--741310 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
741244 CACGGAATGT
741254 AAGATTACCAGTAGGAATAA
1 AAGATTACCAGT-GGAATAA
*
741274 AAAATTACCAGTGTGAATAA
1 AAGATTACCAGTG-GAATAA
741294 AAGATTACCAG-GGAATA
1 AAGATTACCAGTGGAATA
741311 GGATTACTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.15
19 2 0.06
20 27 0.79
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (19 bp):
AAGATTACCAGTGGAATAA
Found at i:742141 original size:24 final size:25
Alignment explanation
Indices: 742114--742163 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
742104 AATAATCTTT
742114 TTTA-TTCTCCTAAAATTTTAAAAA
1 TTTATTTCTCCTAAAATTTTAAAAA
* *
742138 TTTATTTCTCTTGAAATTTTAAAAA
1 TTTATTTCTCCTAAAATTTTAAAAA
742163 T
1 T
742164 CAATCCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTATTTCTCCTAAAATTTTAAAAA
Found at i:743554 original size:27 final size:27
Alignment explanation
Indices: 743516--743575 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
743506 GTGCTGAATA
*
743516 ATTCAGCACAGAAGTACATTTTAAATG
1 ATTCAGCACAGAAGTACATTCTAAATG
*
743543 ATTCAGCACAGAAGTACATTCTGAATG
1 ATTCAGCACAGAAGTACATTCTAAATG
743570 ATTCAG
1 ATTCAG
743576 AGCCATTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (27 bp):
ATTCAGCACAGAAGTACATTCTAAATG
Found at i:743661 original size:16 final size:15
Alignment explanation
Indices: 743629--743682 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
743619 ATAGCATCTG
**
743629 AATCATTCAGCATTT
1 AATCATTCAGCGCTT
743644 AAATCATTCAGCGCTT
1 -AATCATTCAGCGCTT
* *
743660 AATTATTCAACGCTT
1 AATCATTCAGCGCTT
743675 AATCATTC
1 AATCATTC
743683 TGAAATAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (15 bp):
AATCATTCAGCGCTT
Found at i:744138 original size:17 final size:19
Alignment explanation
Indices: 744116--744151 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
744106 AGGTTATTTT
744116 TATATAT-TTTAAA-AATA
1 TATATATATTTAAATAATA
744133 TATATATATTTAAATAATA
1 TATATATATTTAAATAATA
744152 GATAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 6 0.35
19 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATTTAAATAATA
Found at i:745941 original size:18 final size:18
Alignment explanation
Indices: 745918--745953 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
745908 CAATGTTGAT
745918 CGTTACATGTTGATGTTG
1 CGTTACATGTTGATGTTG
745936 CGTTACATGTTGATGTTG
1 CGTTACATGTTGATGTTG
745954 GGGTTCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.44
Consensus pattern (18 bp):
CGTTACATGTTGATGTTG
Found at i:746762 original size:19 final size:22
Alignment explanation
Indices: 746721--746762 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
746711 ACGTATATGT
*
746721 TACATGAATATATTATGTATAA
1 TACATGAATATATTAAGTATAA
746743 TACATG-ATAT-TTAAGT-TAA
1 TACATGAATATATTAAGTATAA
746762 T
1 T
746763 TTATATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 4 0.21
22 6 0.32
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (22 bp):
TACATGAATATATTAAGTATAA
Found at i:754550 original size:23 final size:25
Alignment explanation
Indices: 754524--754583 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 25
754514 GATTGGGTTA
*
754524 AACATAAAT-GAATGAACATAAA-G
1 AACATAAATCGAACGAACATAAACG
754547 AACAT-AATCGAACGAACATAAACG
1 AACATAAATCGAACGAACATAAACG
754571 AACAT-AATCGAAC
1 AACATAAATCGAAC
754584 ATAACCGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 3 0.09
23 17 0.50
24 14 0.41
ACGTcount: A:0.57, C:0.17, G:0.12, T:0.15
Consensus pattern (25 bp):
AACATAAATCGAACGAACATAAACG
Found at i:754570 original size:10 final size:10
Alignment explanation
Indices: 754557--754593 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
754547 AACATAATCG
754557 AACGAACATA
1 AACGAACATA
754567 AACGAACATA
1 AACGAACATA
*
754577 ATCGAACATA
1 AACGAACATA
*
754587 ACCGAAC
1 AACGAAC
754594 GAATATAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Found at i:754601 original size:14 final size:14
Alignment explanation
Indices: 754579--754608 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
754569 CGAACATAAT
754579 CGAACATAACCGAA
1 CGAACATAACCGAA
*
754593 CGAATATAACCGAA
1 CGAACATAACCGAA
754607 CG
1 CG
754609 TTCACGAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (14 bp):
CGAACATAACCGAA
Found at i:754617 original size:34 final size:34
Alignment explanation
Indices: 754537--754607 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
754527 ATAAATGAAT
* *
754537 GAACATAA-AGAACATAATCGAACGAACATAAAC
1 GAACATAATCGAACATAACCGAACGAACATAAAC
* *
754570 GAACATAATCGAACATAACCGAACGAATATAACC
1 GAACATAATCGAACATAACCGAACGAACATAAAC
754604 GAAC
1 GAAC
754608 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 8 0.24
34 25 0.76
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.13
Consensus pattern (34 bp):
GAACATAATCGAACATAACCGAACGAACATAAAC
Found at i:766565 original size:31 final size:31
Alignment explanation
Indices: 766518--766576 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
766508 ATTTTTTTAT
* *
766518 ATAAAATTAATATTTTCTCACTTTTTCATTG
1 ATAAAATTAATATTTTCCCACCTTTTCATTG
* *
766549 ATAAGATTAATGTTTTCCCACCTTTTCA
1 ATAAAATTAATATTTTCCCACCTTTTCA
766577 AGATGTTGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (31 bp):
ATAAAATTAATATTTTCCCACCTTTTCATTG
Found at i:766920 original size:237 final size:231
Alignment explanation
Indices: 766462--766929 Score: 834
Period size: 237 Copynumber: 2.0 Consensus size: 231
766452 TTGGTGGAAG
766462 ACTTTATATGCAGCATCAACACTTAAATTTTAGAATCTCCTTTTATATTTTTTTATATAAAATTA
1 ACTTTATATGCAGCATCAACACTTAAATTTTAGAATCTCCTTTTATATTTTTTTATATAAAATTA
766527 ATATTTTCTCACTTTTTCATTGATAAGATTAATGTTTTCCCACCTTTTCAAGATGTTGAGTGGGA
66 ATATTTTCTCACTTTTTCATTGATAAGATTAATGTTTTCCCACCTTTTCAAGATGTTGAGTGGGA
766592 TAATCTTCTTATCTCTCTAAAATCTTGCTTTCGAAGTTGTAATTAGGGATAGACATAGAATCTGA
131 TAATCTTCTTATCTCTCTAAAATCTTGCTTTCGAAGTTGTAATTAGGGATAGACATAGAATCTGA
766657 ATTATGCAGGTTTCGATTCGATCCAATCTTATAAAA
196 ATTATGCAGGTTTCGATTCGATCCAATCTTATAAAA
766693 ACTTTATATGCAGCATCAACACTTAAATTTTAGAATCTCC-TTTATATTTTTTTATATAAAAGAT
1 ACTTTATATGCAGCATCAACACTTAAATTTTAGAATCTCCTTTTATATTTTTTTATAT-AAA-AT
766757 TAATATTTTCTCAC-TTTTCATTGATATAAGATTAATGTTTTCCCACCTTTTCAAGATGTTTGAA
64 TAATATTTTCTCACTTTTTCATTG--ATAAGATTAATGTTTTCCCACCTTTTCAAGATG-TTG-A
766821 GTGGGATTAATATCTTCTTATCTCTCTAAAATCTTGCTTTCGAAG-TGTAATTAGGGATAGACAT
125 GTGGGA-T-A-ATCTTCTTATCTCTCTAAAATCTTGCTTTCGAAGTTGTAATTAGGGATAGACAT
766885 AGAATCTGAATTATGCAGGTTTCGATTCGATCCAATCTTATAAAA
187 AGAATCTGAATTATGCAGGTTTCGATTCGATCCAATCTTATAAAA
766930 TGAGATTTTT
Statistics
Matches: 228, Mismatches: 0, Indels: 12
0.95 0.00 0.05
Matches are distributed among these distances:
230 17 0.07
231 52 0.23
232 16 0.07
233 33 0.14
234 3 0.01
235 7 0.03
236 1 0.00
237 65 0.29
238 34 0.15
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (231 bp):
ACTTTATATGCAGCATCAACACTTAAATTTTAGAATCTCCTTTTATATTTTTTTATATAAAATTA
ATATTTTCTCACTTTTTCATTGATAAGATTAATGTTTTCCCACCTTTTCAAGATGTTGAGTGGGA
TAATCTTCTTATCTCTCTAAAATCTTGCTTTCGAAGTTGTAATTAGGGATAGACATAGAATCTGA
ATTATGCAGGTTTCGATTCGATCCAATCTTATAAAA
Found at i:767061 original size:2 final size:2
Alignment explanation
Indices: 767054--767094 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
767044 CTAGGGACAT
767054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
767095 GTTGGCAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:768236 original size:3 final size:3
Alignment explanation
Indices: 768228--768259 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
768218 ATGACATGTC
768228 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
768260 AATAAAATAA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:771175 original size:13 final size:14
Alignment explanation
Indices: 771157--771191 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
771147 AAATTGAATT
*
771157 ATATTTTTTG-AAA
1 ATATTTTATGAAAA
771170 ATATTTTATGAAAA
1 ATATTTTATGAAAA
771184 ATATTTTA
1 ATATTTTA
771192 CTATGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (14 bp):
ATATTTTATGAAAA
Found at i:771555 original size:23 final size:22
Alignment explanation
Indices: 771532--771574 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
771522 ATTAATATTA
771532 AATAA-TAAATAATATTCATTTT
1 AATAATTAAATAATATT-ATTTT
*
771554 AATAATTTAATAATATTATTT
1 AATAATTAAATAATATTATTT
771575 CTATGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAATTAAATAATATTATTTT
Found at i:771703 original size:20 final size:19
Alignment explanation
Indices: 771667--771704 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
771657 TTGATTATTT
771667 TATTATATATTAAAAATAA
1 TATTATATATTAAAAATAA
*
771686 TATTATATTATTAGAAATA
1 TATTATA-TATTAAAAATA
771705 TTAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TATTATATATTAAAAATAA
Found at i:781319 original size:32 final size:34
Alignment explanation
Indices: 781256--781322 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
781246 AATTGTTTTC
781256 AATTTTGGTCATTCAACTATTATTTTAGAAAAAA
1 AATTTTGGTCATTCAACTATTATTTTAGAAAAAA
781290 AATTTTGGTCATTCAACTA-T-TTTTAGAAAAAA
1 AATTTTGGTCATTCAACTATTATTTTAGAAAAAA
781322 A
1 A
781323 TCAACAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.39
33 1 0.03
34 19 0.58
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (34 bp):
AATTTTGGTCATTCAACTATTATTTTAGAAAAAA
Found at i:782937 original size:2 final size:2
Alignment explanation
Indices: 782930--782961 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
782920 TTGCCTTAAA
782930 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
782962 GTGTGTGTGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:782993 original size:14 final size:14
Alignment explanation
Indices: 782974--783001 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
782964 GTGTGTGTAT
782974 ATATATATAAACAC
1 ATATATATAAACAC
782988 ATATATATAAACAC
1 ATATATATAAACAC
783002 CAAGTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATATATAAACAC
Found at i:783799 original size:20 final size:20
Alignment explanation
Indices: 783774--783823 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
783764 CTTAATACTT
783774 AACTTGAAAAGCTCGTGAGC
1 AACTTGAAAAGCTCGTGAGC
783794 AACTTGAAAAGCTCGTGAGC
1 AACTTGAAAAGCTCGTGAGC
783814 AACTTGAAAA
1 AACTTGAAAA
783824 TATAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (20 bp):
AACTTGAAAAGCTCGTGAGC
Found at i:785304 original size:20 final size:21
Alignment explanation
Indices: 785276--785325 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
785266 ACTACTGATT
* *
785276 TTAAACTCACCGTTACAAT-A
1 TTAATCTCACAGTTACAATAA
785296 TTAATCTCACAGTTACAATAA
1 TTAATCTCACAGTTACAATAA
*
785317 CTAATCTCA
1 TTAATCTCA
785326 TCATAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (21 bp):
TTAATCTCACAGTTACAATAA
Found at i:795101 original size:15 final size:15
Alignment explanation
Indices: 795078--795127 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
795068 CGCCCCGCAT
* *
795078 CCGCACCGCATCCAC
1 CCGCCCCGCATCCGC
795093 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCGC
* *
795108 CCTCCCCACATCCGC
1 CCGCCCCGCATCCGC
795123 CCGCC
1 CCGCC
795128 TAACTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.12, C:0.66, G:0.14, T:0.08
Consensus pattern (15 bp):
CCGCCCCGCATCCGC
Found at i:798056 original size:23 final size:23
Alignment explanation
Indices: 798017--798076 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
798007 AGTTTACCTG
*
798017 TAATATAATTTTTTTATTTAATTA
1 TAATACAA-TTTTTTATTTAATTA
*
798041 TAATACACTTTTTTATTTAATTA
1 TAATACAATTTTTTATTTAATTA
798064 TAATACAATTTTT
1 TAATACAATTTTT
798077 AGTAGTACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 27 0.82
24 6 0.18
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
TAATACAATTTTTTATTTAATTA
Found at i:801017 original size:25 final size:25
Alignment explanation
Indices: 800969--801017 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
800959 GTTATATTAG
*
800969 AAATTCAAAAAATATAAAATTAAAA
1 AAATTCAAAAAATATAAAACTAAAA
** *
800994 AAATTCAAAAGGTATGAAACTAAA
1 AAATTCAAAAAATATAAAACTAAA
801018 TCATCGATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (25 bp):
AAATTCAAAAAATATAAAACTAAAA
Found at i:811262 original size:24 final size:22
Alignment explanation
Indices: 811234--811279 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
811224 ATTTTAAAAC
811234 GATTTATTCTATCTATAATTATAA
1 GATTTA-TCTAT-TATAATTATAA
*
811258 GATTTATCTATTATACTTATAA
1 GATTTATCTATTATAATTATAA
811280 TTCTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 5 0.24
24 6 0.29
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (22 bp):
GATTTATCTATTATAATTATAA
Found at i:811705 original size:36 final size:38
Alignment explanation
Indices: 811653--811730 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 38
811643 ATTTGATAAT
*
811653 AAAATTAGATAAATAAAAT-AAA-AATTATAATTTTAA
1 AAAAATAGATAAATAAAATAAAATAATTATAATTTTAA
* *
811689 AAAAATAGATATATAAAATAAAATAATTTTAATTTTAA
1 AAAAATAGATAAATAAAATAAAATAATTATAATTTTAA
811727 AAAA
1 AAAA
811731 TAAATAACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 17 0.46
37 3 0.08
38 17 0.46
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (38 bp):
AAAAATAGATAAATAAAATAAAATAATTATAATTTTAA
Found at i:811711 original size:18 final size:18
Alignment explanation
Indices: 811650--811713 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
811640 TTAATTTGAT
*
811650 AATAAAATTAGATAAATAA
1 AATAAAA-TAGATATATAA
* * *
811669 AATAAAA-ATTATAATTTTA
1 AATAAAATA-GAT-ATATAA
811688 AA-AAAATAGATATATAA
1 AATAAAATAGATATATAA
811705 AATAAAATA
1 AATAAAATA
811714 ATTTTAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 9
0.68 0.14 0.18
Matches are distributed among these distances:
17 7 0.21
18 14 0.41
19 13 0.38
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AATAAAATAGATATATAA
Found at i:819930 original size:5 final size:5
Alignment explanation
Indices: 819920--819946 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
819910 GAATAAGTCT
819920 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
819947 AATCTGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:829171 original size:20 final size:19
Alignment explanation
Indices: 829148--829194 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
829138 CGATATAACA
829148 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
829168 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
829188 GGTAAAA
1 GGTAAAA
829195 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:829196 original size:17 final size:18
Alignment explanation
Indices: 829152--829199 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
829142 ATAACAGGTA
829152 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
829171 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
829191 -AAAATGATA
1 AAAAATGATA
829200 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:831423 original size:21 final size:21
Alignment explanation
Indices: 831376--831440 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
831366 AAGACAATCA
* *
831376 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
831398 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
831418 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
831439 AG
1 AG
831441 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:833335 original size:19 final size:19
Alignment explanation
Indices: 833311--833357 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
833301 AATGTCGAGT
833311 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
833330 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
833349 T--TTTTGTAT
1 TAATTTTGTAT
833358 GTGAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 8 0.30
19 19 0.70
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:834140 original size:198 final size:198
Alignment explanation
Indices: 833476--834832 Score: 2520
Period size: 198 Copynumber: 6.9 Consensus size: 198
833466 CAATATGGCC
* * * * *
833476 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCGAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
833541 CC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGA
833605 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
833670 TTAAA
194 TTAAA
833675 AACAA-GTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
833737 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
833802 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
833867 AAA
196 AAA
833870 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
833935 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
833999 AATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATATTTTTTTCCAGAATGAA
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATAT-TTTTTTTCCAGAATGAA
834062 TTAAA
194 TTAAA
834067 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
834132 CAAAAGTATAATGTAATATGTAA-TTTTCAATTTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
834196 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAAT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAAT
834261 TAAA
195 TAAA
834265 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
834330 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
*
834394 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
834459 AAA
196 AAA
834462 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
834527 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
834592 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
834656 AAA
196 AAA
834659 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
834723 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
834788 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
834833 CTAATTTAAT
Statistics
Matches: 1135, Mismatches: 11, Indels: 27
0.97 0.01 0.02
Matches are distributed among these distances:
195 104 0.09
196 281 0.25
197 331 0.29
198 414 0.36
199 5 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (198 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
AAA
Found at i:834224 original size:394 final size:395
Alignment explanation
Indices: 833476--834832 Score: 2532
Period size: 394 Copynumber: 3.4 Consensus size: 395
833466 CAATATGGCC
* * * * *
833476 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCGAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
833541 CCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
65 CCAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
833606 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
129 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
833671 TAAAAACAA-GTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCG
194 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
833733 AACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGA
259 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGA
833798 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
324 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
833863 AATTAAA
389 AATTAAA
833870 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
833935 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGA
834000 ATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATATTTTTTTCCAGAATGAAT
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATAT-TTTTTTTCCAGAATGAAT
834063 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
194 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
834128 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATTTAACCGTACAATTATACCGGTTTTATGA
259 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGA
834192 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAAT
324 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAAT
834257 GAATTAAA
388 GAATTAAA
834265 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
834330 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGAA
66 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGAA
*
834395 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATTA
131 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTA
834460 AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
196 AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
834525 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGA
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGA
834590 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
326 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
834654 TTAAA
391 TTAAA
834659 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
834723 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
66 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
834788 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
834833 CTAATTTAAT
Statistics
Matches: 945, Mismatches: 9, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
391 17 0.02
392 28 0.03
393 153 0.16
394 375 0.40
395 270 0.29
396 102 0.11
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (395 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTA
AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
TTAAA
Found at i:834604 original size:592 final size:590
Alignment explanation
Indices: 833476--834832 Score: 2512
Period size: 592 Copynumber: 2.3 Consensus size: 590
833466 CAATATGGCC
* * * * *
833476 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCGAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
833541 CC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGA
833605 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
833670 TTAAAAACAAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAA
194 TTAAAAACAAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAA
833735 CCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGA
259 CCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGA
833800 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
324 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
833865 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
389 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
833930 GAACCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
454 GAACCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
833995 AGAGAATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATATTTTTTTCCAGAA
519 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCG--ATATTTTTTTCCAGAA
834058 TGAATTAAA
582 TGAATTAAA
834067 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
834132 CAAAAGTATAATGTAATATGTAA-TTTTCAATTTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
834196 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAAT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAAT
834261 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 TAAAAACAA-GTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCG
*
834326 AACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGA
257 AACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGA
*
834390 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATG
322 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
834455 AATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
387 AATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
834520 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTT
452 TCGAACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
834584 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
516 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
834649 ATGAATTAAA
581 ATGAATTAAA
834659 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
834723 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
834788 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
834833 CTAATTTAAT
Statistics
Matches: 748, Mismatches: 9, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
589 72 0.10
590 45 0.06
591 159 0.21
592 408 0.55
593 51 0.07
594 13 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (590 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
AAAAACAAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACC
CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
AAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
TTAAA
Found at i:836300 original size:12 final size:11
Alignment explanation
Indices: 836283--836343 Score: 58
Period size: 12 Copynumber: 5.6 Consensus size: 11
836273 GGTCGCAGAA
836283 GATGAAGCTGAC
1 GATGAAG-TGAC
836295 GATGAAGATGAC
1 GATGAAG-TGAC
836307 GATG-A-TGAC
1 GATGAAGTGAC
836316 GATG-A-TGAC
1 GATGAAGTGAC
*
836325 GATGAAGCTGGC
1 GATGAAG-TGAC
836337 GATGAAG
1 GATGAAG
836344 ATGATGACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
9 17 0.39
10 1 0.02
11 1 0.02
12 25 0.57
ACGTcount: A:0.34, C:0.11, G:0.36, T:0.18
Consensus pattern (11 bp):
GATGAAGTGAC
Found at i:836304 original size:6 final size:6
Alignment explanation
Indices: 836280--836368 Score: 52
Period size: 6 Copynumber: 14.3 Consensus size: 6
836270 AGCGGTCGCA
* * * * * * *
836280 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAC GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** *
836328 GAAGCT GGCGAT GAAGAT GATGACGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GA
836369 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
6 56 0.90
8 1 0.02
9 5 0.08
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (6 bp):
GAAGAT
Found at i:836315 original size:9 final size:9
Alignment explanation
Indices: 836301--836359 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
836291 TGACGATGAA
836301 GATGACGAT
1 GATGACGAT
836310 GATGACGAT
1 GATGACGAT
836319 GATGACGAT
1 GATGACGAT
* **
836328 GAAG-CTGGC
1 GATGAC-GAT
*
836337 GATGAAGAT
1 GATGACGAT
836346 GATGACGAT
1 GATGACGAT
836355 GATGA
1 GATGA
836360 TGAAGATGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 1 0.03
9 39 0.98
ACGTcount: A:0.34, C:0.10, G:0.36, T:0.20
Consensus pattern (9 bp):
GATGACGAT
Found at i:836358 original size:12 final size:12
Alignment explanation
Indices: 836291--836372 Score: 62
Period size: 12 Copynumber: 7.1 Consensus size: 12
836281 AAGATGAAGC
*
836291 TGACGATGAAGA
1 TGACGATGATGA
836303 TGACGATGATGA
1 TGACGATGATGA
* * *
836315 CGATGATGACGA
1 TGACGATGATGA
* * **
836327 TGAAGCTGGCGA
1 TGACGATGATGA
836339 TGA--A-GATGA
1 TGACGATGATGA
836348 TGACGATGATGA
1 TGACGATGATGA
*
836360 TGAAGATGATGA
1 TGACGATGATGA
836372 T
1 T
836373 CCAAACAAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
9 6 0.11
11 1 0.02
12 48 0.87
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:838164 original size:184 final size:183
Alignment explanation
Indices: 837831--838169 Score: 563
Period size: 183 Copynumber: 1.8 Consensus size: 183
837821 CTTTCAACAT
* *
837831 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
837896 GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
*
837961 ATGTGTCGATACGATTTAAAAAAGTTTCGACATTTTACACATCGGAACCCATA
131 ATGTGTCGATACCATTTAAAAAAGTTTCGACATTTTACACATCGGAACCCATA
** * * *
838014 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AATATACCGGTTTTTATGAGCGAAT
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGG-TCTTATGAGCGAAT
*
838078 AGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAA
65 AGGTCTACAACCTATATCGACACTTT-TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
838143 AAATGTGTCGATACCATTTAAAAAAGT
129 AAATGTGTCGATACCATTTAAAAAAGT
838170 GTCGGTAATT
Statistics
Matches: 144, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
182 10 0.07
183 72 0.50
184 62 0.43
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
ATGTGTCGATACCATTTAAAAAAGTTTCGACATTTTACACATCGGAACCCATA
Found at i:840670 original size:25 final size:25
Alignment explanation
Indices: 840636--840700 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
840626 TTATCATTAA
840636 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
840661 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
840686 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
840701 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:841017 original size:23 final size:23
Alignment explanation
Indices: 840991--841046 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
840981 AACATATGAT
840991 TAATAGGTAGCCCTTATATAATG
1 TAATAGGTAGCCCTTATATAATG
* **
841014 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCCCTTATATAATG
841037 TAATAGGTAG
1 TAATAGGTAG
841047 TGGTTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCCCTTATATAATG
Found at i:841053 original size:23 final size:23
Alignment explanation
Indices: 841004--841055 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
840994 TAGGTAGCCC
*
841004 TTATATAATGTAATAGGTATCGT
1 TTATATAATGTAATAGGTATCGG
841027 TTATATAATGTAATAGGTAGT-GG
1 TTATATAATGTAATAGGTA-TCGG
841050 TTATAT
1 TTATAT
841056 TGTAAAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (23 bp):
TTATATAATGTAATAGGTATCGG
Found at i:841443 original size:23 final size:23
Alignment explanation
Indices: 841412--841475 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
841402 ATAGGTAAAC
*
841412 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
841435 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
841458 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
841476 TGGTTATATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:841482 original size:23 final size:23
Alignment explanation
Indices: 841412--841484 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
841402 ATAGGTAAAC
* **
841412 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
841435 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
841458 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
841481 ATAT
1 ATAT
841485 GTAAAGGTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Done.