Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold79
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: 4189514
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 5041 characters in sequence are not A, C, G, or T
File 5 of 26
Found at i:628833 original size:3 final size:3
Alignment explanation
Indices: 628827--628856 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
628817 CAACAACAAC
628827 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
628857 CCATTCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:631449 original size:23 final size:21
Alignment explanation
Indices: 631422--631472 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
631412 TGTAAAATTT
631422 AAATTTAAATTAAAATAAGTAAA
1 AAATTTAAA-TAAAATAA-TAAA
*
631445 TAATTTTTAAATAAAATAATAAA
1 -AA-ATTTAAATAAAATAATAAA
631468 AAATT
1 AAATT
631473 ATAGTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 4 0.17
24 10 0.42
25 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTAAATAAAATAATAAA
Found at i:631462 original size:24 final size:24
Alignment explanation
Indices: 631425--631472 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
631415 AAAATTTAAA
*
631425 TTTAAATTAAAATAAGTAAATAATT
1 TTTAAATTAAAATAA-TAAAAAATT
631450 TTTAAA-TAAAATAATAAAAAATT
1 TTTAAATTAAAATAATAAAAAATT
631473 ATAGTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 8 0.36
25 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTTAAATTAAAATAATAAAAAATT
Found at i:632805 original size:20 final size:19
Alignment explanation
Indices: 632777--632846 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
632767 TATATGTTTT
*
632777 TCTAAAAATTTATATATGA
1 TCTAGAAATTTATATATGA
632796 TCTAGCAAA-TTA-AGTA-GAA
1 TCTAG-AAATTTATA-TATG-A
632815 T-TAGAAATTTATATATGA
1 TCTAGAAATTTATATATGA
*
632833 TCTATTAAATTTAT
1 TCTA-GAAATTTAT
632847 TTTAGGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
17 3 0.07
18 12 0.29
19 15 0.37
20 11 0.27
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAGAAATTTATATATGA
Found at i:634749 original size:282 final size:282
Alignment explanation
Indices: 634238--634801 Score: 1065
Period size: 282 Copynumber: 2.0 Consensus size: 282
634228 ATTAATTTTA
634238 GGCCAAAATCAAGTTTATATGTTTGGATTTATGGCTTAATGAGCTAAATAAATTTACTTTTCAGC
1 GGCCAAAATCAAGTTTATATGTTTGGATTTATGGCTTAATGAGCTAAATAAATTTACTTTTCAGC
634303 TTTTAAAAATTTTCTGTTTACAATATATTTGATTATATGCCTTATATTGAACCCTGTATTATGAC
66 TTTTAAAAATTTTCTGTTTACAATATATTTGATTATATGCCTTATATTGAACCCTGTATTATGAC
* *
634368 TTAATGGCATAGGTAACAGATCGTCCACTTGCCCAATTCTTTGGGACTTTGGATGAATTCGTGAT
131 TTAATGGCATAGGTAACAGATCATCCACTTGCCCAATTCCTTGGGACTTTGGATGAATTCGTGAT
634433 TTCACTATCATAGACTTAATTGTCAAACATTTGTATCTCTGACACCATGATATATGTCTAAAAGA
196 TTCACTATCATAGACTTAATTGTCAAACATTTGTATCTCTGACACCATGATATATGTCTAAAAGA
634498 ACCCAAATTCAAAAACTTATTG
261 ACCCAAATTCAAAAACTTATTG
*
634520 GGCCAAAATCAAGTTTATATGTTTGGATTTATGGTTTAATGAGCTAAATAAATTTACTTTTCAGC
1 GGCCAAAATCAAGTTTATATGTTTGGATTTATGGCTTAATGAGCTAAATAAATTTACTTTTCAGC
*
634585 TTTTAAAAATTTTTTGTTTACAATATATTTGATTATATGCCTTATATTGAACCCTGTATTATGAC
66 TTTTAAAAATTTTCTGTTTACAATATATTTGATTATATGCCTTATATTGAACCCTGTATTATGAC
*
634650 TTAATGGCATAGGTAACAGATCATCTACTTGCCCAATTCCTTGGGACTTTGGATGAATTCGTGAT
131 TTAATGGCATAGGTAACAGATCATCCACTTGCCCAATTCCTTGGGACTTTGGATGAATTCGTGAT
* *
634715 TTCACTATCATAGACTTAATTGTCAAATATTTGTATCTCTGACACCATGATATATGTTTAAAAGA
196 TTCACTATCATAGACTTAATTGTCAAACATTTGTATCTCTGACACCATGATATATGTCTAAAAGA
634780 ACCCAAATTCAAAAACTTATTG
261 ACCCAAATTCAAAAACTTATTG
634802 TTTCGATACT
Statistics
Matches: 275, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
282 275 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (282 bp):
GGCCAAAATCAAGTTTATATGTTTGGATTTATGGCTTAATGAGCTAAATAAATTTACTTTTCAGC
TTTTAAAAATTTTCTGTTTACAATATATTTGATTATATGCCTTATATTGAACCCTGTATTATGAC
TTAATGGCATAGGTAACAGATCATCCACTTGCCCAATTCCTTGGGACTTTGGATGAATTCGTGAT
TTCACTATCATAGACTTAATTGTCAAACATTTGTATCTCTGACACCATGATATATGTCTAAAAGA
ACCCAAATTCAAAAACTTATTG
Found at i:639600 original size:17 final size:15
Alignment explanation
Indices: 639580--639614 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
639570 TTTAATCCAT
639580 AAAAATGAAGAATTATA
1 AAAAATGAA-AATTA-A
639597 AAAAATGAAAATTAA
1 AAAAATGAAAATTAA
639612 AAA
1 AAA
639615 TCATTTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AAAAATGAAAATTAA
Found at i:640229 original size:28 final size:27
Alignment explanation
Indices: 640198--640283 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
640188 ATTTTAACCC
640198 ATTTTCTTAACTTATATTATTTATTTTT
1 ATTTTCTTAA-TTATATTATTTATTTTT
* **
640226 ATTTT-TTAAATTTTTAGAATTT-TTTTT
1 ATTTTCTT-AA-TTATATTATTTATTTTT
640253 ATTTTTCTTAATTAT-TT-TTTATTTTT
1 A-TTTTCTTAATTATATTATTTATTTTT
640279 ATTTT
1 ATTTT
640284 TTATATTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
25 7 0.15
26 6 0.13
27 11 0.23
28 21 0.45
29 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (27 bp):
ATTTTCTTAATTATATTATTTATTTTT
Found at i:640256 original size:9 final size:9
Alignment explanation
Indices: 640214--640292 Score: 52
Period size: 9 Copynumber: 8.8 Consensus size: 9
640204 TTAACTTATA
640214 TTATTTATTT
1 TTATTT-TTT
640224 TTATTTTTT
1 TTATTTTTT
** *
640233 AAATTTTTA
1 TTATTTTTT
**
640242 GAATTTTTT
1 TTATTTTTT
*
640251 TTATTTTTC
1 TTATTTTTT
* *
640260 TTAATTATT
1 TTATTTTTT
*
640269 TT-TTATTT
1 TTATTTTTT
640277 TTATTTTTT
1 TTATTTTTT
*
640286 ATATTTT
1 TTATTTT
640293 GTGATAGTTG
Statistics
Matches: 52, Mismatches: 16, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
8 5 0.10
9 41 0.79
10 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (9 bp):
TTATTTTTT
Found at i:640287 original size:20 final size:20
Alignment explanation
Indices: 640224--640281 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
640214 TTATTTATTT
*
640224 TTATTTTTTAAATTTTTA-GAA
1 TTATTTTTT--ATTTTTATTAA
*
640245 TT-TTTTTTATTTTTCTTAA
1 TTATTTTTTATTTTTATTAA
640264 TTATTTTTTATTTTTATT
1 TTATTTTTTATTTTTATT
640282 TTTTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.19
19 4 0.12
20 20 0.62
21 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTATTTTTTATTTTTATTAA
Found at i:640292 original size:20 final size:20
Alignment explanation
Indices: 640249--640292 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
640239 TTAGAATTTT
* *
640249 TTTTATTTTTCTTAATTATT
1 TTTTATTTTTATTAATTATA
**
640269 TTTTATTTTTATTTTTTATA
1 TTTTATTTTTATTAATTATA
640289 TTTT
1 TTTT
640293 GTGATAGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTATTAATTATA
Found at i:640916 original size:2 final size:2
Alignment explanation
Indices: 640909--640934 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
640899 ATATTTATGC
640909 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
640935 GAATAAAGAC
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:641254 original size:2 final size:2
Alignment explanation
Indices: 641247--641271 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
641237 AAACAAACAA
641247 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
641272 TATATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:642418 original size:2 final size:2
Alignment explanation
Indices: 642413--642441 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
642403 AATATATACA
642413 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
642442 CATTTGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:642801 original size:110 final size:110
Alignment explanation
Indices: 642608--642825 Score: 409
Period size: 110 Copynumber: 2.0 Consensus size: 110
642598 AGTCAGGCTC
642608 ACGTGTTCATCACAAATCAAAAGGTAGATAGCCAACATGTGACAATCAATATACTAAAATATGGC
1 ACGTGTTCATCACAAATCAAAAGGTAGATAGCCAACATGTGACAATCAATATACTAAAATATGGC
642673 AGAAAACTTCAAAACTATATCTTATTGTTTAAAATTTTTGCAAAA
66 AGAAAACTTCAAAACTATATCTTATTGTTTAAAATTTTTGCAAAA
* *
642718 ACGTGTTTATCACAAATCAAAAGGTAGATAGCCAACATGTGACAATCAATATACTAAACTATGGC
1 ACGTGTTCATCACAAATCAAAAGGTAGATAGCCAACATGTGACAATCAATATACTAAAATATGGC
*
642783 AGAAAACTTCAAAACTATATCTTCTTGTTTAAAATTTTTGCAA
66 AGAAAACTTCAAAACTATATCTTATTGTTTAAAATTTTTGCAA
642826 CAATAACAGT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (110 bp):
ACGTGTTCATCACAAATCAAAAGGTAGATAGCCAACATGTGACAATCAATATACTAAAATATGGC
AGAAAACTTCAAAACTATATCTTATTGTTTAAAATTTTTGCAAAA
Found at i:647533 original size:12 final size:13
Alignment explanation
Indices: 647501--647542 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
647491 TACAATTTTT
*
647501 TTAAATAAAAATA
1 TTAATTAAAAATA
**
647514 TTTTTTAAAAA-A
1 TTAATTAAAAATA
647526 TTAATTAAAAATA
1 TTAATTAAAAATA
647539 TTAA
1 TTAA
647543 ATTTTATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATTAAAAATA
Found at i:647569 original size:22 final size:21
Alignment explanation
Indices: 647529--647588 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
647519 TAAAAAATTA
* *
647529 ATTAA-AAATATTAAATTTTAT
1 ATTAATAAATATT-TATTTTTT
647550 ATTAATAAATATTTATTTTTT
1 ATTAATAAATATTTATTTTTT
* *
647571 ATTTCATAAATTTTTATT
1 A-TTAATAAATATTTATT
647589 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTAATAAATATTTATTTTTT
Found at i:647853 original size:34 final size:35
Alignment explanation
Indices: 647788--647856 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
647778 TGGGACTAAA
*
647788 TTGGAACTTGACTGTTGAAAAAGCTGATCGATGTG
1 TTGGAACTTGACGGTTGAAAAAGCTGATCGATGTG
* *
647823 TTGGTACTTGACGGTTG-AAAGGCTGATCGATGTG
1 TTGGAACTTGACGGTTGAAAAAGCTGATCGATGTG
647857 CTGTGCCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.32
Consensus pattern (35 bp):
TTGGAACTTGACGGTTGAAAAAGCTGATCGATGTG
Found at i:648274 original size:19 final size:19
Alignment explanation
Indices: 648250--648291 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
648240 TTTTTTTTCA
* *
648250 TAAATTTTAAAATGTTTTT
1 TAAATTATAAAATATTTTT
648269 TAAATTATAAAATATTTTT
1 TAAATTATAAAATATTTTT
648288 TAAA
1 TAAA
648292 AATAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAAATTATAAAATATTTTT
Found at i:648296 original size:18 final size:19
Alignment explanation
Indices: 648257--648303 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
648247 TCATAAATTT
* *
648257 TAAAATGTTTTTTAAATTA
1 TAAAATATTTTTTAAATAA
648276 TAAAATATTTTTTAAA-AA
1 TAAAATATTTTTTAAATAA
*
648294 TAAATTATTT
1 TAAAATATTT
648304 GAAATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAAAATATTTTTTAAATAA
Found at i:656973 original size:17 final size:18
Alignment explanation
Indices: 656951--656986 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
656941 ATAATTATAA
*
656951 TATTT-AATTTTTAATAT
1 TATTTAAATTTATAATAT
656968 TATTTAAATTTATAATAT
1 TATTTAAATTTATAATAT
656986 T
1 T
656987 TATATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTAAATTTATAATAT
Found at i:656988 original size:15 final size:15
Alignment explanation
Indices: 656945--656996 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
656935 TAAATAATAA
*
656945 TTATAATATTTAATTT
1 TTATAATATTTAA-AT
*
656961 TTAATATTATTTAAAT
1 TT-ATAATATTTAAAT
*
656977 TTATAATATTTATAT
1 TTATAATATTTAAAT
656992 TTATA
1 TTATA
656997 TAAAATAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 16 0.52
16 5 0.16
17 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATAATATTTAAAT
Found at i:658264 original size:2 final size:2
Alignment explanation
Indices: 658218--658247 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
658208 ACTATCCAAC
658218 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
658248 AAAGGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:659020 original size:10 final size:10
Alignment explanation
Indices: 659007--659046 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
658997 TTAAATTTAA
659007 TTATAAATAT
1 TTATAAATAT
659017 TTATAAATAT
1 TTATAAATAT
659027 TTATAAATAT
1 TTATAAATAT
* *
659037 ATATATATAT
1 TTATAAATAT
659047 ATAACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTATAAATAT
Found at i:659252 original size:13 final size:13
Alignment explanation
Indices: 659234--659258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
659224 TTAAAGAAGC
659234 AAAAATAAAAAAT
1 AAAAATAAAAAAT
659247 AAAAATAAAAAA
1 AAAAATAAAAAA
659259 GCAAAACAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:661398 original size:2 final size:2
Alignment explanation
Indices: 661391--661423 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
661381 AGATACAATA
661391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
661424 GACATGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:661755 original size:30 final size:30
Alignment explanation
Indices: 661688--661755 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
661678 AAATTTTTTA
*
661688 TAGATTA-TAAACTTTTAATTTTATTAAAT
1 TAGATTATTAAACTTTTAATTTTAATAAAT
* * *
661717 TATATTATTAAATTTTTATTTTTAATAAAT
1 TAGATTATTAAACTTTTAATTTTAATAAAT
*
661747 TAGGTTATT
1 TAGATTATT
661756 TATGTTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 6 0.19
30 26 0.81
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (30 bp):
TAGATTATTAAACTTTTAATTTTAATAAAT
Found at i:662366 original size:13 final size:13
Alignment explanation
Indices: 662335--662379 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
662325 TTTTTCATTT
662335 AAAAAAAAGCAAAG
1 AAAAAAAAG-AAAG
*
662349 AAAAAAAAAGAGAG
1 -AAAAAAAAGAAAG
662363 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
662376 AAAA
1 AAAA
662380 GTTAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 3 0.11
15 9 0.32
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:663011 original size:15 final size:15
Alignment explanation
Indices: 662988--663033 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
662978 AGTCAGATTG
*
662988 ATTTTAAGTTAAATT
1 ATTTGAAGTTAAATT
663003 ATTTGAAGTTTAAATT
1 ATTTGAAG-TTAAATT
663019 -TTTG-AGTTCAAATT
1 ATTTGAAGTT-AAATT
663033 A
1 A
663034 CTTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 11 0.41
16 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (15 bp):
ATTTGAAGTTAAATT
Found at i:663015 original size:16 final size:15
Alignment explanation
Indices: 662996--663033 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
662986 TGATTTTAAG
662996 TTAAATTATTTGAAGT
1 TTAAATTATTTG-AGT
663012 TTAAATT-TTTGAGT
1 TTAAATTATTTGAGT
*
663026 TCAAATTA
1 TTAAATTA
663034 CTTTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (15 bp):
TTAAATTATTTGAGT
Found at i:663083 original size:16 final size:16
Alignment explanation
Indices: 663064--663102 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
663054 GATTTCGAAG
663064 TATTTTAAGTTCAAGT
1 TATTTTAAGTTCAAGT
*
663080 TATTTTAAGTTTAAGT
1 TATTTTAAGTTCAAGT
663096 TATTTTA
1 TATTTTA
663103 GATGAGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (16 bp):
TATTTTAAGTTCAAGT
Found at i:668764 original size:18 final size:20
Alignment explanation
Indices: 668724--668766 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
668714 AATAATCCTC
*
668724 ATTTTATATTTTTTATTATT
1 ATTTTATATTTTTTATTAAT
668744 ATTTTA-ATTTTTTA-TAAT
1 ATTTTATATTTTTTATTAAT
668762 ATTTT
1 ATTTT
668767 TGATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTATATTTTTTATTAAT
Found at i:668767 original size:19 final size:20
Alignment explanation
Indices: 668724--668766 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
668714 AATAATCCTC
*
668724 ATTTTATATTTTTTATTATT
1 ATTTTATATTTTTTATAATT
668744 ATTTTA-ATTTTTTATAA-T
1 ATTTTATATTTTTTATAATT
668762 ATTTT
1 ATTTT
668767 TGATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTATATTTTTTATAATT
Found at i:669003 original size:33 final size:33
Alignment explanation
Indices: 668960--669054 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 33
668950 ATTGGTTAAG
* * *
668960 TATAAGTATAAATA-AATGTATTAAAGATTACGA
1 TATAATTAT-AATACAATATATTAAAGATTACAA
** *
668993 TATAATTATAATATGATATATTAATA-ATTATAA
1 TATAATTATAATACAATATATTAA-AGATTACAA
*
669026 TATAATCATAATACAATATATTAAAGATT
1 TATAATTATAATACAATATATTAAAGATT
669055 GTTATATGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
32 5 0.10
33 45 0.88
34 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (33 bp):
TATAATTATAATACAATATATTAAAGATTACAA
Found at i:669006 original size:11 final size:11
Alignment explanation
Indices: 668992--669038 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
668982 AAAGATTACG
668992 ATATAATTATA
1 ATATAATTATA
*
669003 ATATGA-TATA
1 ATATAATTATA
*
669013 TTAATAATTATA
1 AT-ATAATTATA
*
669025 ATATAATCATA
1 ATATAATTATA
669036 ATA
1 ATA
669039 CAATATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
10 5 0.17
11 19 0.66
12 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (11 bp):
ATATAATTATA
Found at i:670023 original size:2 final size:2
Alignment explanation
Indices: 670016--670062 Score: 78
Period size: 2 Copynumber: 23.5 Consensus size: 2
670006 TAGGTTTTTC
670016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT 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
670058 AT AT A
1 AT AT A
670063 GAAGTAAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 41 0.95
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:670435 original size:29 final size:29
Alignment explanation
Indices: 670390--670493 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
670380 TATTTTACTT
670390 AATAAAT-TGTTAACTTTTAATTTATATCCA
1 AATAAATCT-TTAACTTTTAATTTATAT-CA
*
670420 AATAAATC-TTAACTTTTAATATATATCA
1 AATAAATCTTTAACTTTTAATTTATATCA
* * * *
670448 AACT-AAGCTTTTATTTTTAATTTATATATA
1 AA-TAAATCTTTAACTTTTAATTTATAT-CA
670478 AATAAATCTTTAACTT
1 AATAAATCTTTAACTT
670494 AAATCAATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 7 0.12
29 34 0.57
30 19 0.32
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (29 bp):
AATAAATCTTTAACTTTTAATTTATATCA
Found at i:671189 original size:17 final size:17
Alignment explanation
Indices: 671167--671225 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
671157 TGTAAAAAAT
671167 TATTAAAATTATATTTA
1 TATTAAAATTATATTTA
* *
671184 TATT-AAATAATAATATA
1 TATTAAAATTAT-ATTTA
*
671201 TATTAAAAATTATGTTTA
1 TATT-AAAATTATATTTA
*
671219 CATTAAA
1 TATTAAA
671226 TAATAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.18
17 15 0.45
18 6 0.18
19 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
TATTAAAATTATATTTA
Found at i:671190 original size:28 final size:27
Alignment explanation
Indices: 671114--671186 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
671104 AAAATATTAA
*
671114 ATTAAAATGTATA--TATATAATAAATT
1 ATTAAAAT-TATATTTATATAAAAAATT
*
671140 ATTAAAAATTATATTTATGTAAAAAATT
1 ATT-AAAATTATATTTATATAAAAAATT
671168 ATTAAAATTATATTTATAT
1 ATTAAAATTATATTTATAT
671187 TAAATAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.17
27 20 0.49
28 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATTAAAATTATATTTATATAAAAAATT
Found at i:671213 original size:35 final size:36
Alignment explanation
Indices: 671167--671241 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
671157 TGTAAAAAAT
*
671167 TATT-AAAATTATATTTATATTAAATAATAATAT-A
1 TATTAAAAATTATATTTACATTAAATAATAATATAA
* *
671201 TATTAAAAATTATGTTTACATTAAATAATAATTTAA
1 TATTAAAAATTATATTTACATTAAATAATAATATAA
671237 TATTA
1 TATTA
671242 TTTATTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 4 0.11
35 26 0.72
36 6 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
TATTAAAAATTATATTTACATTAAATAATAATATAA
Found at i:671241 original size:29 final size:26
Alignment explanation
Indices: 671215--671267 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
671205 AAAAATTATG
671215 TTTACATTAAATAATAATTTAATATTA
1 TTTACATTAAA-AATAATTTAATATTA
**
671242 TTTATTTTAAAAATAATTTAATATTA
1 TTTACATTAAAAATAATTTAATATTA
671268 AATAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTACATTAAAAATAATTTAATATTA
Found at i:671651 original size:14 final size:14
Alignment explanation
Indices: 671615--671662 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
671605 CCGAACCTTA
*
671615 AATATGATATAATT
1 AATATAATATAATT
*
671629 -ATTTAAATATAATT
1 AATAT-AATATAATT
*
671643 AATATAATATATTT
1 AATATAATATAATT
671657 AATATA
1 AATATA
671663 TATTTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 3 0.11
14 22 0.79
15 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
AATATAATATAATT
Found at i:671659 original size:9 final size:9
Alignment explanation
Indices: 671647--671719 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 9
671637 ATAATTAATA
671647 TAATATATT
1 TAATATATT
671656 TAATATATATT
1 T-A-ATATATT
671667 TAA-A-ATT
1 TAATATATT
671674 TAAATATATT
1 T-AATATATT
671684 TAATA-ATT
1 TAATATATT
671692 T-ATATTATT
1 TAATA-TATT
*
671701 T-TTATATT
1 TAATATATT
*
671709 T-ATATAAT
1 TAATATATT
671717 TAA
1 TAA
671720 AAAACATGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
7 7 0.13
8 18 0.34
9 14 0.26
10 6 0.11
11 8 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATATATT
Found at i:671665 original size:11 final size:10
Alignment explanation
Indices: 671628--671686 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
671618 ATGATATAAT
671628 TATTTAAATA
1 TATTTAAATA
671638 TAATTAATATAATA
1 T-ATT--TA-AATA
671652 TATTTAATATA
1 TATTTAA-ATA
671663 TATTT-AA-A
1 TATTTAAATA
671671 -ATTTAAATA
1 TATTTAAATA
671680 TATTTAA
1 TATTTAA
671687 TAATTTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
7 4 0.10
8 3 0.07
9 2 0.05
10 9 0.22
11 13 0.32
13 5 0.12
14 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATTTAAATA
Found at i:671682 original size:17 final size:19
Alignment explanation
Indices: 671647--671701 Score: 73
Period size: 17 Copynumber: 3.1 Consensus size: 19
671637 ATAATTAATA
671647 TAATATATTTAATATATATT
1 TAATA-ATTTAATATATATT
671667 TAA-AATTTAA-ATATATT
1 TAATAATTTAATATATATT
671684 TAATAATTT-ATAT-TATT
1 TAATAATTTAATATATATT
671701 T
1 T
671702 TTATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 16 0.48
18 13 0.39
19 1 0.03
20 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATAATTTAATATATATT
Found at i:673814 original size:46 final size:46
Alignment explanation
Indices: 673763--673875 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
673753 TATTAAATTT
* * * *
673763 AATGAATAAGATAAAATTATTTGGTAATAACATTTATATTGTGAATC
1 AATGAATGAGATAAAATTAATTGCTAATAACATTTATATTATGAA-C
* **
673810 -ATGAATGAGAGAAAATTAATTGCTAATAATTTTTATATTATGAAC
1 AATGAATGAGATAAAATTAATTGCTAATAACATTTATATTATGAAC
*
673855 AATGAATGAGATAAAGTTAAT
1 AATGAATGAGATAAAATTAAT
673876 ATATTTATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
45 1 0.02
46 55 0.98
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (46 bp):
AATGAATGAGATAAAATTAATTGCTAATAACATTTATATTATGAAC
Found at i:675021 original size:12 final size:12
Alignment explanation
Indices: 674999--675063 Score: 71
Period size: 12 Copynumber: 5.3 Consensus size: 12
674989 GTTTTCAACT
674999 AAAAAGTAGAAAA
1 AAAAAG-AGAAAA
675012 AAAAAGAGAAAA
1 AAAAAGAGAAAA
675024 CAAAAA-A-AAAA
1 -AAAAAGAGAAAA
675035 AGAAAAGAGAAAA
1 A-AAAAGAGAAAA
* *
675048 AGATAGAGAAAA
1 AAAAAGAGAAAA
675060 AAAA
1 AAAA
675064 GGTTTCTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 1 0.02
11 8 0.18
12 19 0.43
13 16 0.36
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:675057 original size:19 final size:18
Alignment explanation
Indices: 675009--675059 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
674999 AAAAAGTAGA
*
675009 AAAAAAAAGAGAAAACA-
1 AAAAAAAAGAGAAAAGAG
*
675026 AAAAAAAAAAGAAAAGAG
1 AAAAAAAAGAGAAAAGAG
*
675044 AAAAAGATAGAGAAAA
1 AAAAA-AAAGAGAAAA
675060 AAAAGGTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.54
18 5 0.18
19 8 0.29
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAGAAAAGAG
Found at i:675834 original size:114 final size:114
Alignment explanation
Indices: 675710--675952 Score: 477
Period size: 114 Copynumber: 2.1 Consensus size: 114
675700 TAAAGATTAC
675710 TTTGTCATTTCATGCAGTTAAGTATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCAT
1 TTTGTCATTTCATGCAGTTAAGTATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCAT
*
675775 TTTATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTT
66 TTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTT
675824 TTTGTCATTTCATGCAGTTAAGTATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCAT
1 TTTGTCATTTCATGCAGTTAAGTATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCAT
675889 TTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTT
66 TTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTT
675938 TTTGTCATTTCATGC
1 TTTGTCATTTCATGC
675953 GTTTTAAGGA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 128 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (114 bp):
TTTGTCATTTCATGCAGTTAAGTATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCAT
TTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTT
Found at i:675920 original size:58 final size:58
Alignment explanation
Indices: 675733--675920 Score: 213
Period size: 58 Copynumber: 3.3 Consensus size: 58
675723 GCAGTTAAGT
* * *
675733 ATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCATTTTATACATTTTAAAG
1 ATATTGAAGTCATTTTTTATTATTAACAACTTACTATATCATTTCATACATTTTAAAG
* * ** * * * *
675791 ATATTGAAGTCATTTTCTATGATTTAA-AA-TTTTTTTGTCATTTCATGCA-GTT-AAG
1 ATATTGAAGTCATTTTTTATTA-TTAACAACTTACTATATCATTTCATACATTTTAAAG
* *
675846 TATATTTAAGTTATTTTTTATTATTAACAACTTACTATATCATTTCATACATTTTAAAG
1 -ATATTGAAGTCATTTTTTATTATTAACAACTTACTATATCATTTCATACATTTTAAAG
675905 ATATTGAAGTCATTTT
1 ATATTGAAGTCATTTT
675921 CTATGATTTA
Statistics
Matches: 101, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
55 7 0.07
56 22 0.22
57 29 0.29
58 36 0.36
59 7 0.07
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.51
Consensus pattern (58 bp):
ATATTGAAGTCATTTTTTATTATTAACAACTTACTATATCATTTCATACATTTTAAAG
Found at i:675948 original size:57 final size:57
Alignment explanation
Indices: 675771--675959 Score: 213
Period size: 57 Copynumber: 3.3 Consensus size: 57
675761 ACTTACTATA
*
675771 TCATTTTATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTTTTTG
1 TCATTTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTTTTTG
* * * * * * ** * *
675828 TCATTTCATGCA-GTT-AAGTATATTTAAGTTATTTTTTATTA-TTAACAACTTACTATA
1 TCATTTCATACATTTTAAAG-ATATTGAAGTCATTTTCTATGATTTAA-AA-TTTTTTTG
675885 TCATTTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTTTTTG
1 TCATTTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTTTTTG
* *
675942 TCATTTCATGCGTTTTAA
1 TCATTTCATACATTTTAA
675960 GGACTTTTAT
Statistics
Matches: 103, Mismatches: 23, Indels: 12
0.75 0.17 0.09
Matches are distributed among these distances:
55 7 0.07
56 22 0.21
57 45 0.44
58 22 0.21
59 7 0.07
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (57 bp):
TCATTTCATACATTTTAAAGATATTGAAGTCATTTTCTATGATTTAAAATTTTTTTG
Found at i:676215 original size:58 final size:57
Alignment explanation
Indices: 676150--676293 Score: 155
Period size: 58 Copynumber: 2.5 Consensus size: 57
676140 ATCATGCAAA
* * *
676150 TTCATACACTTTCACGTCATTTTAGTCA-TTTTCAATGACTTAAAGATTTTTATGTCAT
1 TTCATACACTTTAACGT-ATTTTAGTAATTTTTC-ATGACTTAAAGACTTTTATGTCAT
* * * * *
676208 TTTATACAATTTAATGGTATTTTAGTAATTTTTCATGATTTAATGACTTTTATGTCAT
1 TTCATACACTTTAA-CGTATTTTAGTAATTTTTCATGACTTAAAGACTTTTATGTCAT
* *
676266 TTCATGCACTTTAATGTTATTTTAGTAA
1 TTCATACACTTTAACG-TATTTTAGTAA
676294 GTTTGCAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 1 0.01
58 63 0.89
59 7 0.10
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (57 bp):
TTCATACACTTTAACGTATTTTAGTAATTTTTCATGACTTAAAGACTTTTATGTCAT
Found at i:676248 original size:29 final size:28
Alignment explanation
Indices: 676216--676293 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 28
676206 ATTTTATACA
676216 ATTTAATGGTATTTTAGTAATTTTTCATG-
1 ATTTAATGGTATTTTAGTAA--TTTCATGC
*
676245 ATTTAAT-G-ACTTTTATGTCATTTCATGC
1 ATTTAATGGTA-TTTTA-GTAATTTCATGC
*
676273 ACTTTAATGTTATTTTAGTAA
1 A-TTTAATGGTATTTTAGTAA
676294 GTTTGCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
27 8 0.20
28 7 0.17
29 19 0.47
30 5 0.12
31 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.53
Consensus pattern (28 bp):
ATTTAATGGTATTTTAGTAATTTCATGC
Found at i:676267 original size:19 final size:20
Alignment explanation
Indices: 676245--676287 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
676235 ATTTTTCATG
*
676245 ATTTAATG-ACTTTTATGTC
1 ATTTAATGCACTTTAATGTC
* *
676264 ATTTCATGCACTTTAATGTT
1 ATTTAATGCACTTTAATGTC
676284 ATTT
1 ATTT
676288 TAGTAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTAATGCACTTTAATGTC
Found at i:676307 original size:58 final size:57
Alignment explanation
Indices: 676197--676358 Score: 157
Period size: 58 Copynumber: 2.8 Consensus size: 57
676187 ACTTAAAGAT
* * * * **
676197 TTTTATGTCATTTTATACAATTTAATGGTATTTTAGTAATTTTTCATGATTTAATGA-C
1 TTTTATGTCATTTCATGCAATTTAATGTTATTTTAGTAA-TTTGCAAAATTTAA-GACC
*
676255 TTTTATGTCATTTCATGCACTTTAATGTTATTTTAGTAAGTTTGCAAAATTTAAGACC
1 TTTTATGTCATTTCATGCAATTTAATGTTATTTTAGTAA-TTTGCAAAATTTAAGACC
* * * * * *
676313 ATTTATG-CATTCTCATGTATTTTAAAGTCATTTTCGTAATTTGCAA
1 TTTTATGTCATT-TCATGCAATTTAATGTTATTTTAGTAATTTGCAA
676359 GTTAAGACTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 13 0.15
58 75 0.85
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (57 bp):
TTTTATGTCATTTCATGCAATTTAATGTTATTTTAGTAATTTGCAAAATTTAAGACC
Found at i:679724 original size:1 final size:1
Alignment explanation
Indices: 679718--679770 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
679708 AAATCTTCAC
* * * * *
679718 TTTTTTTTTGTTTTCTTTTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
679771 ACAATTGCCA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:679741 original size:18 final size:17
Alignment explanation
Indices: 679718--679770 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
679708 AAATCTTCAC
*
679718 TTTTTTTTTGTTTTCTT
1 TTTTTTTTTGTTTTTTT
679735 TTTTTTTTTGTTTTTTT
1 TTTTTTTTTGTTTTTTT
679752 TTTGTTTTTTGTTTTTTT
1 TTT-TTTTTTGTTTTTTT
679770 T
1 T
679771 ACAATTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTTT
Found at i:679742 original size:11 final size:12
Alignment explanation
Indices: 679721--679770 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
679711 TCTTCACTTT
*
679721 TTTTTTGTTTTC
1 TTTTTTGTTTTG
*
679733 TTTTTTTTTTTG
1 TTTTTTGTTTTG
679745 TTTTTT-TTTTG
1 TTTTTTGTTTTG
679756 TTTTTTGTTTT-
1 TTTTTTGTTTTG
679767 TTTT
1 TTTT
679771 ACAATTGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
11 15 0.43
12 20 0.57
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (12 bp):
TTTTTTGTTTTG
Found at i:679757 original size:28 final size:27
Alignment explanation
Indices: 679718--679770 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
679708 AAATCTTCAC
*
679718 TTTTTTTTTGTTTTCTTTTTTTTTTTGT
1 TTTTTTTTTGTTTT-TTGTTTTTTTTGT
679746 TTTTTTTTTGTTTTTTGTTTTTTTT
1 TTTTTTTTTGTTTTTTGTTTTTTTT
679771 ACAATTGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (27 bp):
TTTTTTTTTGTTTTTTGTTTTTTTTGT
Found at i:688977 original size:17 final size:17
Alignment explanation
Indices: 688942--688973 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
688932 CTTTCTTACC
688942 AATTTCATTTCTATTTT
1 AATTTCATTTCTATTTT
688959 AATTT-ATTTCT-TTTT
1 AATTTCATTTCTATTTT
688974 TTAAGTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 6 0.40
17 5 0.33
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTCATTTCTATTTT
Found at i:689035 original size:29 final size:27
Alignment explanation
Indices: 689000--689095 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 27
688990 TTTTTCTTTA
689000 ATAATTAATTATATAAAATAAATTTAAAT
1 ATAATTAATTATATAAAATAAA--TAAAT
*
689029 ATAATTAATTATGTAAAAATAAATAAAT
1 ATAATTAATTATAT-AAAATAAATAAAT
*
689057 A-AATATAAATATA-AAAATAACAT--AT
1 ATAAT-TAATTATATAAAATAA-ATAAAT
689082 ATAATTAATTATAT
1 ATAATTAATTATAT
689096 GATAATTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
25 10 0.17
26 10 0.17
27 5 0.09
28 12 0.21
29 13 0.22
30 8 0.14
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (27 bp):
ATAATTAATTATATAAAATAAATAAAT
Found at i:689214 original size:16 final size:16
Alignment explanation
Indices: 689179--689228 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
689169 TAATAAATAA
*
689179 ATAAATATTATTTTAT
1 ATAAATATTAATTTAT
*
689195 -TAAATTTTAATTTAT
1 ATAAATATTAATTTAT
*
689210 ATAAATATATAATTAAT
1 ATAAATAT-TAATTTAT
689227 AT
1 AT
689229 TATATATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.46
16 6 0.21
17 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAAATATTAATTTAT
Found at i:689251 original size:26 final size:23
Alignment explanation
Indices: 689200--689269 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 23
689190 TTTATTAAAT
689200 TTTAAT-TTATATAAATATATAA
1 TTTAATATTATATAAATATATAA
*
689222 -TTAATATTATATATACATATTTTAA
1 TTTAATATTATATA-A-ATA-TATAA
689247 TTTAATA-TATA-AAATA-ATAA
1 TTTAATATTATATAAATATATAA
689267 TTT
1 TTT
689270 TCTATTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
20 6 0.15
21 5 0.12
22 10 0.24
23 2 0.05
24 4 0.10
25 8 0.20
26 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAATATTATATAAATATATAA
Found at i:690755 original size:17 final size:19
Alignment explanation
Indices: 690719--690755 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
690709 ATTTAAATAT
*
690719 TCATAATTTTATTTTATTA
1 TCATAATTTAATTTTATTA
690738 TCATAA-TTAATTTT-TTA
1 TCATAATTTAATTTTATTA
690755 T
1 T
690756 ACTTAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TCATAATTTAATTTTATTA
Found at i:691013 original size:2 final size:2
Alignment explanation
Indices: 691008--691045 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
690998 TATTTTTTGA
691008 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
691046 GTAGATAGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:691487 original size:22 final size:22
Alignment explanation
Indices: 691462--691503 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
691452 TTAAAAATAA
* *
691462 TTTATATTTATATTTATATATT
1 TTTATAATTAAATTTATATATT
691484 TTTATAATTAAATTTATATA
1 TTTATAATTAAATTTATATA
691504 ATAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATAATTAAATTTATATATT
Found at i:691791 original size:26 final size:26
Alignment explanation
Indices: 691762--691837 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
691752 TTTGAATCAT
691762 AATTTATTTAATAAAAAATTATTTAA
1 AATTTATTTAATAAAAAATTATTTAA
* * *
691788 AATTTAATTAA-AAAGTATATT-CTTAA
1 AATTTATTTAATAAA--AAATTATTTAA
*
691814 AATATATTTAAAATAAAAAATTAT
1 AATTTATTT--AATAAAAAATTAT
691838 CTTATACACT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
25 3 0.08
26 21 0.57
27 8 0.22
28 2 0.05
29 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (26 bp):
AATTTATTTAATAAAAAATTATTTAA
Found at i:692387 original size:16 final size:16
Alignment explanation
Indices: 692351--692395 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
692341 TTTAAAATTT
*
692351 TTATAAATTTTAA-AA
1 TTATAAATATTAATAA
692366 TT-TAAATATTAATAA
1 TTATAAATATTAATAA
692381 TTATAAATATTAATA
1 TTATAAATATTAATA
692396 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 6 0.22
16 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATAAATATTAATAA
Found at i:695549 original size:49 final size:50
Alignment explanation
Indices: 695467--695561 Score: 124
Period size: 49 Copynumber: 1.9 Consensus size: 50
695457 GGCCCTTGTT
695467 GAGCTACAAGTGAGGGGGATCTTAAGCGCTGTTA-TCTTACATCTATTATC
1 GAGCTACAAGTGAGGGGGATCTTAAGCGCTGTTATTC-TACATCTATTATC
* * *
695517 GAGCTACAAG-GTA-GGGGATGTTAAGTGGTGTTATTCTACATCTAT
1 GAGCTACAAGTG-AGGGGGATCTTAAGCGCTGTTATTCTACATCTAT
695562 CAAGTATTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
49 27 0.68
50 13 0.32
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (50 bp):
GAGCTACAAGTGAGGGGGATCTTAAGCGCTGTTATTCTACATCTATTATC
Found at i:696136 original size:2 final size:2
Alignment explanation
Indices: 696129--696155 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
696119 TATAGTGGAT
696129 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
696156 TATTGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:697741 original size:15 final size:16
Alignment explanation
Indices: 697723--697759 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
697713 TAAATACACG
697723 TTTTTC-AACCCAAGC
1 TTTTTCTAACCCAAGC
*
697738 TTTTTCTAACTCAAGC
1 TTTTTCTAACCCAAGC
697754 TTTTTC
1 TTTTTC
697760 CAGAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.46
Consensus pattern (16 bp):
TTTTTCTAACCCAAGC
Found at i:698684 original size:1 final size:1
Alignment explanation
Indices: 698680--698709 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
698670 TACTGCCCTC
*
698680 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
698710 CAGTTCACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:703111 original size:90 final size:90
Alignment explanation
Indices: 702981--703163 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 90
702971 TTGGTAGGTC
* * * *
702981 TTGCTCAAAATTATGAGGTTTAGATTGCGGTATAAACATGAAATTTGGTTTAAGATTTGTTAACT
1 TTGCTCAAAATTATGAGGCTTAGATTGCAGTATAAACATGAAATTTGGTTCAAGAGTTGTTAACT
* * *
703046 CATTTCTAGGACTCAGTTCAGTGGA
66 CATTTCCAAGACTCAGTTCAGTGAA
* * *
703071 TTGCTCAGAATTATGAGGCTTAGATTGCAGTATAGACATGAAATTTGGTTCAAGAGTTGTTACCT
1 TTGCTCAAAATTATGAGGCTTAGATTGCAGTATAAACATGAAATTTGGTTCAAGAGTTGTTAACT
703136 CATTTCCAAGACTCAGTTCAGTGAA
66 CATTTCCAAGACTCAGTTCAGTGAA
703161 TTG
1 TTG
703164 TTATTGCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (90 bp):
TTGCTCAAAATTATGAGGCTTAGATTGCAGTATAAACATGAAATTTGGTTCAAGAGTTGTTAACT
CATTTCCAAGACTCAGTTCAGTGAA
Found at i:703336 original size:20 final size:21
Alignment explanation
Indices: 703311--703351 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
703301 GATCAAAAGA
* *
703311 TTTT-GGTGGCTTTGATGATG
1 TTTTGGGTGACTTGGATGATG
703331 TTTTGGGTGACTTGGATGATG
1 TTTTGGGTGACTTGGATGATG
703352 GTATGTCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.05, G:0.37, T:0.46
Consensus pattern (21 bp):
TTTTGGGTGACTTGGATGATG
Found at i:712778 original size:2 final size:2
Alignment explanation
Indices: 712771--712804 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
712761 ATTGTAATTA
712771 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
712805 GTAACTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:732213 original size:84 final size:84
Alignment explanation
Indices: 732021--732274 Score: 328
Period size: 84 Copynumber: 3.0 Consensus size: 84
732011 ACCATATGAA
* * * * * *
732021 TTTTCTTACCTTTCAGTCTGCCTATCGGCTTTGACATTAAAGACTGCCTCATCTCAAGTCTGTTT
1 TTTT-TTACCCTTCAGTCTGCCTGTTGGCTTTGACACTAGAGACTGCCTCATCTCAAGTCTGCTT
*
732086 GTCAGCTTTGATCTTGGAGAC
65 -TCAGCTTTGACCTTGGAGAC
* *
732107 TTTTTTACCCTTCAATCTGCCTGTTGGCTTTAACACTAGAGACTGCCTCATCTCAAGTCTGCTTT
1 TTTTTTACCCTTCAGTCTGCCTGTTGGCTTTGACACTAGAGACTGCCTCATCTCAAGTCTGCTTT
*
732172 CGGCTTTGACCTTGGAGAC
66 CAGCTTTGACCTTGGAGAC
* * * * * * *
732191 TTTTTTACCCTTCAGTCTGCCTGTTGGCTTTGACCCTAGTGATTACCTCACCTAAAGTCTGCATG
1 TTTTTTACCCTTCAGTCTGCCTGTTGGCTTTGACACTAGAGACTGCCTCATCTCAAGTCTGC-TT
732256 TCAGCTTTGACCTTGGAGA
65 TCAGCTTTGACCTTGGAGA
732275 TTGCCTCACC
Statistics
Matches: 147, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 72 0.49
85 71 0.48
86 4 0.03
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (84 bp):
TTTTTTACCCTTCAGTCTGCCTGTTGGCTTTGACACTAGAGACTGCCTCATCTCAAGTCTGCTTT
CAGCTTTGACCTTGGAGAC
Found at i:732263 original size:126 final size:126
Alignment explanation
Indices: 732133--732376 Score: 285
Period size: 126 Copynumber: 1.9 Consensus size: 126
732123 CTGCCTGTTG
* * * * * * * *
732133 GCTTTAACAC-TAGAGACTGCCTCATCTCAAGTCTG-CTTTCGGCTTTGACCTTGGAGACTTTTT
1 GCTTTAAC-CTTAGAGACTGCCTCACCTAAAGTCCGCCTATCCGCTTTGACCCTCGAAACTTTTT
** * *
732196 TACCCTTCAGTCTGCCTGTTGGCTTTGACCCTAGTGATTACCTCACCTAAAGTCTGCATGTCA
65 TA-CCTTCAGTCTGCCTGTTAACTTTGACCCTAGAGACTACCTCACCTAAAGTCTGCATGTCA
* * * *
732259 GCTTTGACCTTGGAGATTGCCTCACCTAAAGTCCGCCTATCCGTTTTGACCCTCGAAACTTTTTT
1 GCTTTAACCTTAGAGACTGCCTCACCTAAAGTCCGCCTATCCGCTTTGACCCTCGAAACTTTTTT
* * *
732324 ACCTTCAGTCTGCCTGTTAACTTTGACCCTGGAGACTACCTTACCTCAAGTCT
66 ACCTTCAGTCTGCCTGTTAACTTTGACCCTAGAGACTACCTCACCTAAAGTCT
732377 ACCTGTCATT
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
125 1 0.01
126 72 0.74
127 24 0.25
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.34
Consensus pattern (126 bp):
GCTTTAACCTTAGAGACTGCCTCACCTAAAGTCCGCCTATCCGCTTTGACCCTCGAAACTTTTTT
ACCTTCAGTCTGCCTGTTAACTTTGACCCTAGAGACTACCTCACCTAAAGTCTGCATGTCA
Found at i:732486 original size:42 final size:42
Alignment explanation
Indices: 732022--733591 Score: 213
Period size: 42 Copynumber: 37.5 Consensus size: 42
732012 CCATATGAAT
* * * * *
732022 TTTCTTACCTTTCAGTCTGCCTATCGGCTTTGACATTAAAGAC
1 TTTCTTA-CTCTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * ** * * * *
732065 TGCCTCA-TCTCAAGTCTGTTTGTCAGCTTTGATCTTGGAGAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * *
732107 TTTTTTACCCTTCAATCTGCCTGTTGGCTTTAACAC-TAGAGAC
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGAC-CTTAGAGAC
** * * * *
732150 TGCCTCA-TCTCAAGTCTG-CTTTCGGCTTTGACCTTGGAGAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * *
732191 TTTTTTACCCTTCAGTCTGCCTGTTGGCTTTGACCCTAGTGA-
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * * *
732233 TTACCTCAC-CTAAAGTCTGCATGTCAGCTTTGACCTTGGAGA-
1 TT-TCTTACTCT-CAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * * * * *
732275 TTGCCTCAC-CTAAAGTCCGCCTATCCGTTTTGACCCTCGAAAC
1 TT-TCTTACTCT-CAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* **** * *
732318 TTTTTTAC-CTTCAGTCTGCCTGTTAACTTTGACCCTGGAGAC
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * ** * *
732360 TACCTTAC-CTCAAGTCTACCTGTCATTTTTGACCTTGGAGGC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * *
732402 TTTCTTACTTTCAGTCTGCCTGTCGGCTTT-AACTTTGTAGAC
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCTTAG-AGAC
* *
732444 TTTTTTA-TCCTCAGTCTGTCTGTCGGTTTTGACCTTAGAGAC
1 TTTCTTACT-CTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * *** * * *
732486 -TGCTTCAC-CTCAAGTCTGCTTATCAACTTTAACCCTAAAGAC
1 TTTCTT-ACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * *
732528 TTTCTTAC-CTTAGTTTGCCTGTCGGCTTTGA-CTCTAGAGAC
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCT-TAGAGAC
* * * * * ** *
732569 -TGCATCAC-CTCAAGTTTGTCTATCGACTTTGACCTTGGAGAC
1 TTTC-TTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * *
732611 TTTTTTACACTCAATCTGCCTATCGGCTTTGA-CTATGGAGA-
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCT-TAGAGAC
* * * * * * * *
732652 TTGCATCAC-CTCAAGTTTGCTTGTCGGCTTTAACCAT-GAAAAC
1 TTTC-TTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAG-AGAC
** * * * *
732695 TGCCTCACT-TCAAGTCTGCCTATCGGCTTTGACCTTGGAGAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * *
732737 TTTCTTAC-CTACAATTTGCCTGTCGGCTTTGACCCTAGAGAC
1 TTTCTTACTCT-CAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * * * * * ** * *
732779 TGCCTCACTTTAAGTTTGCCTATCGACTTTGACCTTGGAGAT
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * * *
732821 TTTTTTAC-CTTTAGTCTACCTATCAGCTTTGACCTTGGAGAC
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * * * * *
732863 TGCCTAACT-TCAAGTTTGCCTGTCAGCTTTGACCTTGGAGAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * *
732905 TTTTTTACCCTCAATCTACCTGTCGGCTTTGACCCT-GAAGAC
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCTTAG-AGAC
* * * * * * * *
732947 TTTCATAC-CTTTAGTTTACTTATCGGTTTTGACCTTGGAGAG
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * * *** * *
732989 TGCCTTAC-CTCAAGTTTGTCTGTCAACTTTGACCCTGGAGAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * *
733031 -TGCTTAGC-CTCAAGT-TAGCTTGTCGGCTTTGACCCTGGAGAC
1 TTTCTTA-CTCTC-AGTCT-GCCTGTCGGTTTTGACCTTAGAGAC
* * * * * * * *
733073 TTTTTTGCCCTCAGTCTGCTTGTCAGCTTTGATCTTACAGA-
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * *
733114 ---C-TGCTC-AAGTCTGCCTGTTGGCTTTGACCTT-GAAGAC
1 TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCTTAG-AGAC
* * * * * *
733151 TTCCTTAC-CTTCAGTTTGCTTGTCAGCTTTGACCTTGGAGAC
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * *
733193 -TGCCTA-TCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGAT
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * *
733234 TTTTTTAC-CTTCAGTCTACCTATCGGTTTTAACCTTGGAGAC
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * * ** *
733276 TGCCTCAC-CTCAAGTCTGCTTGTCGACTTTGACCCT-GAAGAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAG-AGAC
* * *
733318 TTTCTTACCTTTTAGTCTGCCTGTCGGTTTTGACCCTAGAGA-
1 TTTCTTA-CTCTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * *
733360 TTGCCT-CATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC
1 TTTCTTAC-TCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * * * * *
733403 TTTTTTACCCTTTAGTCTGCCTATC-GTCTTTGACTTTGGAGA-
1 TTTCTTACTC-TCAGTCTGCCTGTCGGT-TTTGACCTTAGAGAC
* * * * * * *
733445 TTGCCT-CATCTCAGGTCTACCTGTCAGCTTTGATCTTGGAGAC
1 TTTCTTAC-TCTCA-GTCTGCCTGTCGGTTTTGACCTTAGAGAC
* * ** * *
733488 TTTCCTAC-CTTCAGTCTGCCTATCGGCATTGACCCTGGAGAC
1 TTTCTTACTC-TCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
** * * * * *
733530 TGCCTTA-TCTCAAGTTTACCTGTCGGCTTTGACCCTAGAAAC
1 TTTCTTACTCTC-AGTCTGCCTGTCGGTTTTGACCTTAGAGAC
*
733572 TATCTTA-TCCTCAAGTCTGC
1 TTTCTTACT-CTC-AGTCTGC
733592 TTATCGGCTT
Statistics
Matches: 1106, Mismatches: 335, Indels: 172
0.69 0.21 0.11
Matches are distributed among these distances:
36 23 0.02
37 4 0.00
40 9 0.01
41 123 0.11
42 779 0.70
43 160 0.14
44 8 0.01
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (42 bp):
TTTCTTACTCTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAC
Found at i:732569 original size:83 final size:83
Alignment explanation
Indices: 732440--732673 Score: 265
Period size: 83 Copynumber: 2.8 Consensus size: 83
732430 TTAACTTTGT
* * * *
732440 AGACTTTTTTATCCTCAGTCTGTCTGTCGGTTTTGAC-CTTAGAGACTGCTTCACCTCAAGTCTG
1 AGACTTTTTTA-CCTCAGTCTGCCTGTCGGCTTTGACTC-TAGAGACTGCATCACCTCAAGTTTG
732504 CTTATCAACTTTAACCCTAA
64 CTTATCAACTTTAACCCTAA
* * *
732524 AGACTTTCTTACCTTAGTTTGCCTGTCGGCTTTGACTCTAGAGACTGCATCACCTCAAGTTTG-T
1 AGACTTTTTTACCTCAGTCTGCCTGTCGGCTTTGACTCTAGAGACTGCATCACCTCAAGTTTGCT
* * * **
732588 CTATCGACTTTGACCTTGG
66 -TATCAACTTTAACCCTAA
* * * * *
732607 AGACTTTTTTACACTCAATCTGCCTATCGGCTTTGACTATGGAGATTGCATCACCTCAAGTTTGC
1 AGACTTTTTTAC-CTCAGTCTGCCTGTCGGCTTTGACTCTAGAGACTGCATCACCTCAAGTTTGC
732672 TT
65 TT
732674 GTCGGCTTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
82 1 0.01
83 68 0.54
84 56 0.44
85 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (83 bp):
AGACTTTTTTACCTCAGTCTGCCTGTCGGCTTTGACTCTAGAGACTGCATCACCTCAAGTTTGCT
TATCAACTTTAACCCTAA
Found at i:732829 original size:84 final size:83
Alignment explanation
Indices: 732246--733609 Score: 695
Period size: 84 Copynumber: 16.3 Consensus size: 83
732236 CCTCACCTAA
* * * * * * * * * * *
732246 AGTCTGCATGTCAGCTTTGACCTTGGAGATTGCCTCACCTAAAGTCCGCCTATCCGTTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
* *
732311 TCGAAACTTTTTTACCTTC
66 TGGAGACTTTTTTACC-TC
*** * * * * ***
732330 AGTCTGCCTGTTAACTTTGACCCTGGAGACTACCTTACCTCAAGTCTACCTGTCATTTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
* * *
732395 TGGAGGCTTTCTTACTTTC
66 TGGAGACTTTTTTAC-CTC
* ** * *** * * * *
732414 AGTCTGCCTGTCGGCTTTAACTTTGTAGACTTTTTTATCCTC-AGTCTGTCTGTCGGTTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTCGGCTTTGACC
* ** *
732478 TTAGAGACTGCTTCACCTC
65 TTGGAGACTTTTTTACCTC
* * ** * ** ** * *
732497 AAGTCTGCTTATCAACTTTAACCCTAAAGACTTTCTTACCTT--AGTTTGCCTGTCGGCTTTGA-
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTCGGCTTTGAC
* *** *
732559 CTCTAGAGACTGCATCACCTC
64 CT-TGGAGACTTTTTTACCTC
* * * * * *** *
732580 AAGTTTGTCTATCGACTTTGACCTTGGAGACTTTTTTACAC-TCAA-TCTGCCTATCGGCTTTGA
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCT-CACTTCAAGTCTGCCTGTCGGCTTTGA
** *
732643 -CTATGGAGA-TTGCATCACCTC
63 CCT-TGGAGACTT-TTTTACCTC
* * * * * * *
732664 AAGTTTGCTTGTCGGCTTTAACCATGAAAACTGCCTCACTTCAAGTCTGCCTATCGGCTTTGACC
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACC
*
732729 TTGGAGACTTTCTTACCTAC
65 TTGGAGACTTTTTTACCT-C
* * * * * * *
732749 AATTTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCACTTTAAGTTTGCCTATCGACTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
* *
732814 TGGAGATTTTTTTACCTTT
66 TGGAGACTTTTTTACC-TC
* * * * * * *
732833 AGTCTACCTATCAGCTTTGACCTTGGAGACTGCCTAACTTCAAGTTTGCCTGTCAGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
732898 TGGAGACTTTTTTACCCTC
66 TGGAGACTTTTTTA-CCTC
* * * * * * * * * * *
732917 AATCTACCTGTCGGCTTTGACCCTGAAGACTTTCAT-ACCTT-TAGTTTACTTATCGGTTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTCA-CTTCAAGTCTGCCTGTCGGCTTTGAC
* ***
732980 CTTGGAGAGTGCCTTACCTC
64 CTTGGAGACTTTTTTACCTC
* * ** * * *
733000 AAGTTTGTCTGTCAACTTTGACCCTGGAGACTG-CTTAGCCTCAAGT-TAGCTTGTCGGCTTTGA
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CTTCAAGTCT-GCCTGTCGGCTTTGA
* *
733063 CCCTGGAGACTTTTTTGCCCTC
63 CCTTGGAGACTTTTTT-ACCTC
* * * * ** *
733085 AGTCTGCTTGTCAGCTTTGATCTTACAGACTG-----C-TCAAGTCTGCCTGTTGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
* **
733144 TGAAGACTTCCTTACCTTC
66 TGGAGACTTTTTTACC-TC
* * * *
733163 AGTTTGCTTGTCAGCTTTGACCTTGGAGACTGCCT-A-TCTCAAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACT-TCAAGTCTGCCTGTCGGCTTTGACC
* * *
733226 CTAGAGATTTTTTTACCTTC
65 TTGGAGACTTTTTTACC-TC
* * * * * * * * *
733246 AGTCTACCTATCGGTTTTAACCTTGGAGACTGCCTCACCTCAAGTCTGCTTGTCGACTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
* * *
733311 TGAAGACTTTCTTACCTTTT
66 TGGAGACTTTTTTACC--TC
* * *
733331 AGTCTGCCTGTCGGTTTTGACCCTAGAGATTGCCTCA-TCTCAAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACT-TCAAGTCTGCCTGTCGGCTTTGACC
*
733395 TTGGAGACTTTTTTACCCTTT
65 TTGGAGACTTTTTTA-CC-TC
* * ** * * * * *
733416 AGTCTGCCTATCGTCTTTGACTTTGGAGATTGCCTCA-TCTCAGGTCTACCTGTCAGCTTTGATC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACT-TCAAGTCTGCCTGTCGGCTTTGACC
**
733480 TTGGAGACTTTCCTACCTTC
65 TTGGAGACTTTTTTACC-TC
* * * * *
733500 AGTCTGCCTATCGGCATTGACCCTGGAGACTGCCTTA-TCTCAAGTTTACCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACT-TCAAGTCTGCCTGTCGGCTTTGACC
* * * * *
733564 CTAGAAACTATCTTATCCTC
65 TTGGAGACTTTTTTA-CCTC
* * *
733584 AAGTCTGCTTATCGGCTTTAACCCTG
1 -AGTCTGCCTGTCGGCTTTGACCCTG
733610 AAAACATTTC
Statistics
Matches: 1009, Mismatches: 233, Indels: 75
0.77 0.18 0.06
Matches are distributed among these distances:
77 2 0.00
78 61 0.06
79 2 0.00
82 6 0.01
83 142 0.14
84 608 0.60
85 186 0.18
86 2 0.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (83 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACTTCAAGTCTGCCTGTCGGCTTTGACCT
TGGAGACTTTTTTACCTC
Found at i:733104 original size:126 final size:125
Alignment explanation
Indices: 732171--733104 Score: 427
Period size: 126 Copynumber: 7.4 Consensus size: 125
732161 AAGTCTGCTT
* * * * * ** * * * * *
732171 TCGGCTTTGACCTTGGAGACTTTTTTACCCTTCAGTCTGCCTGTTGGCTTTGACCCTAGTGATTA
1 TCGGCTTTGACCCTGGAGACTTTTTTA-CCTTTAGTCTACTTATCAGCTTTGACCTTGGAGACTG
* * * * * * * * ** *
732236 CCTCACCTAAAGTCTGCATGTCAGCTTTGACCTTGGAGATTGCCTCACCTAAAGTCCGCCTA
65 CCTTACCTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGACTG-CTTACCTCAAGTTAGCCTG
* * * * * * * * * * * *
732298 TCCGTTTTGACCCTCGAAACTTTTTTACCTTCAGTCTGCCTGTTAACTTTGACCCTGGAGACTAC
1 TCGGCTTTGACCCTGGAGACTTTTTTACCTTTAGTCTACTTATCAGCTTTGACCTTGGAGACTGC
* * ** * * * *
732363 CTTACCTCAAGTCTACCTGTCATTTTTGACCTTGGAGGCTTTCTTACTTTC-AGTCT-GCCTG
66 CTTACCTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGAC-TGCTTAC-CTCAAGT-TAGCCTG
* ** * * * * * * *
732424 TCGGCTTTAACTTTGTAGACTTTTTTATCC-TCAGTCT-GTCTGTCGGTTTTGACCTTAGAGACT
1 TCGGCTTTGACCCTGGAGACTTTTTTA-CCTTTAGTCTACT-TATCAGCTTTGACCTTGGAGACT
* * * * * ** * * *
732487 G-CTTCACCTCAAGTCTGCTTATCAACTTTAACCCTAAAGACTTTCTTACCT-TAGTTTGCCTG
64 GCCTT-ACCTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGAC-TGCTTACCTCAAGTTAGCCTG
* * *** * ** **
732549 TCGGCTTTGACTCTAGAGACTGCATCACCTCAAGT-TTGTCTATC-GACTTTGACCTTGGAGACT
1 TCGGCTTTGACCCTGGAGACTTTTTTACCTTTAGTCTACT-TATCAG-CTTTGACCTTGGAGACT
*** * * * ** * * * *
732612 TTTTTACACTCAA-TCTGCCTATCGGCTTTGACTATGGAGATTGCATCACCTCAAGTTTGCTTG
64 GCCTTAC-CTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGACTGC-TTACCTCAAGTTAGCCTG
* * * * *** * * * * * *
732675 TCGGCTTTAACCATGAAAACTGCCTCA-CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTT
1 TCGGCTTTGACCCTGGAGACTTTTTTACCTT-TAGTCTACTTATCAGCTTTGACCTTGGAGACTG
* * * * * * * *
732739 TCTTACCTACAA-TTTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCACTTTAAGTTTGCCTA
65 CCTTACCT-CAAGTTTGCCTGTCAGCTTTGACCCTGGAGACTG-CTTACCTCAAGTTAGCCTG
* * * *
732801 TCGACTTTGACCTTGGAGATTTTTTTACCTTTAGTCTACCTATCAGCTTTGACCTTGGAGACTGC
1 TCGGCTTTGACCCTGGAGACTTTTTTACCTTTAGTCTACTTATCAGCTTTGACCTTGGAGACTGC
* * * **
732866 CTAACTTCAAGTTTGCCTGTCAGCTTTGACCTTGGAGACTTTTTTACCCTCAA-TCTA-CCTG
66 CTTACCTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGAC-TGCTTA-CCTCAAGT-TAGCCTG
* ** * * * *
732927 TCGGCTTTGACCCTGAAGACTTTCATACCTTTAGTTTACTTATCGGTTTTGACCTTGGAGAGTGC
1 TCGGCTTTGACCCTGGAGACTTTTTTACCTTTAGTCTACTTATCAGCTTTGACCTTGGAGACTGC
* * *
732992 CTTACCTCAAGTTTGTCTGTCAACTTTGACCCTGGAGACTGCTTAGCCTCAAGTTAGCTTG
66 CTTACCTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGACTGCTTA-CCTCAAGTTAGCCTG
* * * * *
733053 TCGGCTTTGACCCTGGAGACTTTTTTGCCCTCAGTCTGCTTGTCAGCTTTGA
1 TCGGCTTTGACCCTGGAGACTTTTTTACCTTTAGTCTACTTATCAGCTTTGA
733105 TCTTACAGAC
Statistics
Matches: 620, Mismatches: 160, Indels: 55
0.74 0.19 0.07
Matches are distributed among these distances:
124 7 0.01
125 100 0.16
126 475 0.77
127 38 0.06
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (125 bp):
TCGGCTTTGACCCTGGAGACTTTTTTACCTTTAGTCTACTTATCAGCTTTGACCTTGGAGACTGC
CTTACCTCAAGTTTGCCTGTCAGCTTTGACCCTGGAGACTGCTTACCTCAAGTTAGCCTG
Found at i:733165 original size:78 final size:79
Alignment explanation
Indices: 733037--733422 Score: 229
Period size: 85 Copynumber: 4.7 Consensus size: 79
733027 AGACTGCTTA
* * ** *
733037 GCCTCAAGT-TAGCTTGTCGGCTTTGACCCTGGAGACTTTTTTGCCCTCAGTCTGCTTGTCAGCT
1 GCCTCAAGTCT-GCCTGTCGGCTTTGACCCTGAAGACTTCCTTACCCTCAGTCTGCTTGTCAGCT
*
733101 TTGATCTTACAGACT
65 TTGACCTTACAGACT
* * * *
733116 G-CTCAAGTCTGCCTGTTGGCTTTGACCTTGAAGACTTCCTTACCTTCAGTTTGCTTGTCAGCTT
1 GCCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTCCTTACCCTCAGTCTGCTTGTCAGCTT
**
733180 TGACCTTGGAGACT
66 TGACCTTACAGACT
* ** * * * *
733194 GCCTATCTCAAGTCTGCCTGTCGGCTTTGACCCT-AGAGATTTTTTTACCTTCAGTCTACCTATC
1 G-C---CTCAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTTCCTTACCCTCAGTCTGCTTGTC
* * * **
733258 GGTTTTAACCTTGGAGACT
61 AGCTTTGACCTTACAGACT
* * * * * *
733277 GCCTCACCTCAAGTCTGCTTGTCGACTTTGACCCTGAAGACTTTCTTACCTTTTAGTCTGCCTGT
1 G-----CCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTCCTTACC-CTCAGTCTGCTTGT
* * * * *
733342 CGGTTTTGACCCTAGAGATT
60 CAGCTTTGACCTTACAGACT
* * ** *
733362 GCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTACCCTTTAGTCTGC
1 G---C--CTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTCCTTACCC-TCAGTCTGC
733423 CTATCGTCTT
Statistics
Matches: 247, Mismatches: 44, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
78 64 0.26
79 2 0.01
82 1 0.00
83 66 0.27
84 37 0.15
85 76 0.31
87 1 0.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (79 bp):
GCCTCAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTCCTTACCCTCAGTCTGCTTGTCAGCTT
TGACCTTACAGACT
Found at i:733468 original size:127 final size:123
Alignment explanation
Indices: 733121--733563 Score: 359
Period size: 127 Copynumber: 3.5 Consensus size: 123
733111 AGACTGCTCA
* * * * *
733121 AGTCTGCCTGTTGGCTTTGACCTTGAAGACTTCCTTACCTTCAGTTTGCTTGTCAGCTTTGACCT
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTCCTTACCTTAAGTCTGCTTGTC-GCTTTGACCT
* **
733186 TGGAGACTGCCT-ATCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGATTTTTTTACCTTC
65 TGGAGATTGCCTCATCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTTCCTACCTTC
* * * * * * *
733246 AGTCTACCTATCGGTTTTAACCTTGGAGACTGCCTCACCTCAAGTCTGCTTGTCGACTTTGACCC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTCCTTACCTTAAGTCTGCTTGTCG-CTTTGACCT
* * * * * * * * *
733311 TGAAGACTTTCTTACCTTTTAGTCTGCCTGTCGGTTTTGACCCTAGAGATTGCCT-CATCTC
65 TGGAGA-TTGCCT-CATCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTTCCTACCT-TC
* ** * * *
733372 AAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTACCCTTTAGTCTGCCTATCGTCTTTGAC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTCCTTA-CCTTAAGTCTGCTTGTCG-CTTTGAC
* * * * * *
733437 TTTGGAGATTGCCTCATCTCAGGTCTACCTGTCAGCTTTGATCTTGGAGACTTTCCTACCTTC
63 CTTGGAGATTGCCTCATCTCA-GTCTGCCTGTCGGCTTTGACCCTAGAGA-TTTCCTACCTTC
* * * * * * * *
733500 AGTCTGCCTATCGGCATTGACCCTGGAGACTGCCTTATCTCAAGTTTACCTGTCGGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTCCTTACCTTAAGTCTGCTTGTC-GCTTTGACC
733564 CTAGAAACTA
Statistics
Matches: 241, Mismatches: 66, Indels: 21
0.73 0.20 0.06
Matches are distributed among these distances:
124 1 0.00
125 58 0.24
126 30 0.12
127 115 0.48
128 35 0.15
129 2 0.01
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.37
Consensus pattern (123 bp):
AGTCTGCCTATCGGCTTTGACCTTGGAGACTTCCTTACCTTAAGTCTGCTTGTCGCTTTGACCTT
GGAGATTGCCTCATCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTTCCTACCTTC
Found at i:734181 original size:3 final size:3
Alignment explanation
Indices: 734166--734229 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
734156 ATTTAACATG
* *
734166 AAT AAT AAA AAT AAT AAT AAT AAAT AA- AAT AAT AAT AAA AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
*
734210 AAT AAT AA- AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
734230 GAATTAATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:734183 original size:12 final size:12
Alignment explanation
Indices: 734166--734228 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 12
734156 ATTTAACATG
734166 AATAATAAAAAT
1 AATAATAAAAAT
734178 AATAATAATAAAT
1 AATAATAA-AAAT
734191 AA-AAT---AAT
1 AATAATAAAAAT
*
734199 AATAA-AAATAT
1 AATAATAAAAAT
734210 AATAAT-AAAAT
1 AATAATAAAAAT
*
734221 AGTAATAA
1 AATAATAA
734229 TGAATTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
11 16 0.39
12 12 0.29
13 6 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:734213 original size:14 final size:14
Alignment explanation
Indices: 734166--734229 Score: 85
Period size: 15 Copynumber: 4.4 Consensus size: 14
734156 ATTTAACATG
734166 AATAATAAAAATAAT
1 AATAATAAAAAT-AT
*
734181 AATAATAAATAAAAT
1 AATAATAAA-AATAT
734196 AATAATAAAAATAT
1 AATAATAAAAATAT
734210 AATAAT-AAAATAGT
1 AATAATAAAAATA-T
734224 AATAAT
1 AATAAT
734230 GAATTAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
13 6 0.13
14 17 0.38
15 20 0.44
16 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAATAAAAATAT
Found at i:734568 original size:12 final size:12
Alignment explanation
Indices: 734545--734578 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
734535 CATTGCATTT
734545 CATGCATTTCATG
1 CATGC-TTTCATG
734558 CATGCTTTCATG
1 CATGCTTTCATG
734570 CATG-TTTCA
1 CATGCTTTCA
734579 CACATGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 11 0.52
13 5 0.24
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (12 bp):
CATGCTTTCATG
Found at i:734695 original size:15 final size:15
Alignment explanation
Indices: 734675--734705 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
734665 CAGTTGAAAT
734675 AAAGCAAGGAAAAGA
1 AAAGCAAGGAAAAGA
734690 AAAGCAAGGAAAAGA
1 AAAGCAAGGAAAAGA
734705 A
1 A
734706 GAAATGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGCAAGGAAAAGA
Found at i:740295 original size:28 final size:28
Alignment explanation
Indices: 740236--740833 Score: 570
Period size: 28 Copynumber: 21.5 Consensus size: 28
740226 AGTGGCATTT
* * *
740236 CTTTTCAAGGTCCACAACTTCGTGGCA-T
1 CTTTT-AAAGTCCACAACTCCGTGGCACC
*
740264 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
** *
740292 CTTTTAAAGTCCACAACTCCACGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
740320 CTTTT-AAGTCCACAACTCTC-TAGCACC
1 CTTTTAAAGTCCACAACTC-CGTGGCACC
*
740347 C-TTTAAAGTCCATAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* *
740374 CTTTTAAAGTCCACCACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
740402 CTTTT-AAGTCCACAACTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
740429 C-TTTAAAGTCCACAACTTCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
740456 C-TTTAAAGTTCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
740483 TTTTTTAAGTCCACCACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
740511 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * *
740538 CTTTTAAAATCTACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* *
740566 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * *
740594 CTTTTAAAGTCTACAACTTCGTGGCACT
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * *
740622 CTTTTAAAGTCCACCACTCTGTGGTACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* ** *
740650 CTTTT-AAGTCTACAACTATGTGGCA-T
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * *
740676 CTTTTTAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* *
740704 CTTTT-AAGTCCACGACTCCATGGCAGCAC
1 CTTTTAAAGTCCACAACTCCGTGGCA-C-C
* * ** *
740733 CATTTTAAAGCCCACAAGTTAGTGGCATC
1 C-TTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
740762 ATTTTAAAGCCCACAAGTCAGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * **
740790 CTTTTAAAGCCCACAAGTTAGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
740818 CTTTTCAAAGCCCACA
1 CTTTT-AAAGTCCACA
740834 TAAGTCGGTG
Statistics
Matches: 485, Mismatches: 70, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
26 12 0.02
27 196 0.40
28 246 0.51
29 13 0.03
30 4 0.01
31 14 0.03
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:740352 original size:82 final size:82
Alignment explanation
Indices: 740212--740805 Score: 595
Period size: 82 Copynumber: 7.1 Consensus size: 82
740202 TGACCTCTTC
* * * * * *
740212 AAAGTCCACGATTCAGTGGCATTTCTTTTCAAGGTCCACAACT-TCGTGGCATCTTTTAAAGTCC
1 AAAGTCCACAACTCCGTGGCA-TCCTTTT-AA-GTCCACAACTCT-GTGGCACCCTTTAAAGTCC
*
740276 ACAACTCCATGGCACCCTTTT
62 ACAACTCCGTGGCACCCTTTT
** * * *
740297 AAAGTCCACAACTCCACGGCATCCTTTTAAGTCCACAACTCTCTAGCACCCTTTAAAGTCCATAA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAA
740362 CTCCGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTT
*
740379 AAAGTCCACCACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAA
*
740444 CTTCGTGGCACCC-TTT
66 CTCCGTGGCACCCTTTT
* * * *
740460 AAAGTTCACAACTCCGTGGCA-CCTTTTTTAAGTCCACCACTCTGTGGCATCCTTTTAAGTCCAC
1 AAAGTCCACAACTCCGTGGCATCC--TTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCAC
*
740524 AACTCCGTGGCATCCTTTT
64 AACTCCGTGGCACCCTTTT
* * * *
740543 AAAATCTACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCTAC
1 AAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCA-CCCTTTAAAGTCCAC
* *
740608 AACTTCGTGGCACTCTTTT
64 AACTCCGTGGCACCCTTTT
* * * * * * * * *
740627 AAAGTCCACCACTCTGTGGTACCCTTTTAAGTCTACAACTATGTGGCATCTTTTTAAGTCCACAA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAA
* *
740692 CTCTGTGGCATCCTTTT
66 CTCCGTGGCACCCTTTT
* * * * * ** *
740709 -AAGTCCACGACTCCATGGCAGCACCATTTTAAAGCCCACAAGT-TAGTGGCATCATTTTAAAGC
1 AAAGTCCACAACTCCGTGGCA--TCC-TTTT-AAGTCCACAACTCT-GTGGCA-CCCTTTAAAGT
* * *
740772 CCACAAGTCAGTGGCATCCTTTT
60 CCACAACTCCGTGGCACCCTTTT
*
740795 AAAGCCCACAA
1 AAAGTCCACAA
740806 GTTAGTGGCA
Statistics
Matches: 427, Mismatches: 68, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.00
81 38 0.09
82 195 0.46
83 63 0.15
84 62 0.15
85 31 0.07
86 28 0.07
87 8 0.02
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (82 bp):
AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAA
CTCCGTGGCACCCTTTT
Found at i:740807 original size:56 final size:56
Alignment explanation
Indices: 740224--741145 Score: 391
Period size: 56 Copynumber: 16.2 Consensus size: 56
740214 AGTCCACGAT
* * * * * * *
740224 TCAGTGGCATTTCTTTTCAAGGTCCACAACTTCGTGGCAT-CTTTTAAAGTCCACAAC
1 TCAGTGGCA-TCCTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAG
* * * * * * *
740281 TCCA-TGGCACCCTTTTAAAGTCCACAACTCCA-CGGCATCCTTTT-AAGTCCACAAC
1 T-CAGTGGCATCCTTTTAAAGCCCACAAGT-TAGTGGCATCCTTTTAAAGCCCACAAG
** * * * * * ** * * * *
740336 TCTCTAGCA-CCCTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACCAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAG
* * * * * *
740391 TCCGTGGCATCCTTTT-AAGTCCACAACTCT-GTGGCA-CCCTTTAAAGTCCACAACT
1 TCAGTGGCATCCTTTTAAAGCCCACAAGT-TAGTGGCATCCTTTTAAAGCCCACAA-G
* ** * ** * * * *
740446 TC-GTGGCA-CCCTTTAAAGTTCACAACTCCGTGGCA-CCTTTTTTAAGTCCACCAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCC-TTTTAAAGCCCACAAG
* * * ** ** * *
740500 TCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAATCTACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAG
* * * * * *
740555 TCCGTGGCATCCTTTTAAAGTCCACAACTCT-GTGGCATCCTTTTAAAGTCTACAACT
1 TCAGTGGCATCCTTTTAAAGCCCACAAGT-TAGTGGCATCCTTTTAAAGCCCACAA-G
* * * * * * * *
740612 TC-GTGGCA-CTCTTTTAAAGTCCACCACTCT-GTGGTACCCTTTT-AAGTCTACAAC
1 TCAGTGGCATC-CTTTTAAAGCCCACAAGT-TAGTGGCATCCTTTTAAAGCCCACAAG
* * * * * *
740666 T-ATGTGGCAT-CTTTTTAAGTCCACAACTCT-GTGGCATCCTTTT-AAGTCCACGAC
1 TCA-GTGGCATCCTTTTAAAGCCCACAAGT-TAGTGGCATCCTTTTAAAGCCCACAAG
* *
740720 TCCA-TGGCAGCACCATTTTAAAGCCCACAAGTTAGTGGCATCATTTTAAAGCCCACAAG
1 T-CAGTGGCA--TCC-TTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAG
*
740779 TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACATAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCTTTT-AAAGCCCAC--AAG
* * * * * *
740838 TCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAG
1 TCAGTGGC-A-TCCTTTTAAAG-CC-CACAAGTTAGTGGC-ATCC-TTTTAAAG-CC-CACAAG
** * * * * *
740902 TTGGTGGCAACCCATTTCAAAGCCTACACAAGTTGGTGGTAACCCATTTTAAAGCCCACACAAG
1 TCAGTGGC-ATCC-TTTTAAAGCC--CACAAGTTAGTGG-CATCC-TTTTAAAG-CC-CACAAG
* * * * * *
740966 TCGGTGGCAACCCATTTCAAAGCCTATAAGTTAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGC-ATCC-TTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAG
* * * * *
741024 TCAGTGGCACCCTTTTAAAGCCTACTAGTCAGTGTCA-CTCTTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATC-CTTTT-AAAGCCCACAAG
*
741081 TCAGTGGCAT-CTTTTCAAAGCCCACAAGTTAGTGACA-CCTTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTT-AAAGCCCACAAG
741137 TCAGTGGCA
1 TCAGTGGCA
741146 CTCTTTTCAA
Statistics
Matches: 726, Mismatches: 91, Indels: 97
0.79 0.10 0.11
Matches are distributed among these distances:
53 6 0.01
54 115 0.16
55 150 0.21
56 180 0.25
57 64 0.09
58 43 0.06
59 26 0.04
60 8 0.01
61 12 0.02
62 12 0.02
63 16 0.02
64 86 0.12
65 5 0.01
66 3 0.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (56 bp):
TCAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAG
Found at i:740862 original size:32 final size:32
Alignment explanation
Indices: 740801--741021 Score: 272
Period size: 32 Copynumber: 7.1 Consensus size: 32
740791 TTTTAAAGCC
* *
740801 CACAAGTTAGTGGC-ACCCTTTTCAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
* * * *
740832 CATAAGTCGGTGGCAACTCATTTGAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
*
740864 CACAAGTTGGTGGCAACCCATTTGAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
*
740896 CACAAGTTGGTGGCAACCCATTTCAAAGCCTA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
* *
740928 CACAAGTTGGTGGTAACCCATTTTAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
*
740960 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
* * * *
740990 TATAAGTTAGTGGC-ATCC-TTTCAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
741020 CA
1 CA
741022 AGTCAGTGGC
Statistics
Matches: 164, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
28 8 0.05
29 5 0.03
30 11 0.07
31 13 0.08
32 127 0.77
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (32 bp):
CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
Found at i:740908 original size:64 final size:64
Alignment explanation
Indices: 740732--741045 Score: 288
Period size: 64 Copynumber: 5.2 Consensus size: 64
740722 CATGGCAGCA
* * * * * *
740732 CCATTTTAAAG-CC-CACAAGTTAGTGGC-A-TCATTTTAAAG-CC-CACAAGTCAGTGGC-AT
1 CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
740789 CC-TTTTAAAG-CC-CACAAGTTAGTGGC-ACCCTTTTCAAAGCCCACATAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
740849 TCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
740913 CCATTTCAAAGCCTACACAAGTTGGTGGTAACCCATTTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
740977 CCATTTCAAAG-CC-TATAAGTTAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
1 CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
741034 CC-TTTTAAAGCC
1 CCATTTCAAAGCC
741046 TACTAGTCAG
Statistics
Matches: 220, Mismatches: 28, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
56 32 0.15
57 15 0.07
58 15 0.07
59 14 0.06
60 9 0.04
61 10 0.05
62 12 0.05
63 14 0.06
64 99 0.45
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (64 bp):
CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:740950 original size:96 final size:95
Alignment explanation
Indices: 740761--741045 Score: 299
Period size: 96 Copynumber: 3.1 Consensus size: 95
740751 TTAGTGGCAT
* * * * *
740761 CATTTTAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTTAAAG-CC-CACAAGTTAGTGGCACCCT
1 CATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTAGTGGCACCCA
* *
740820 TTTCAAAGCCCACATAAGTCGGTGGCAACT
66 TTTCAAAGCCCACACAAGTCGGTGGCAACC
* * *
740850 CATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCC
1 CATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTAGTGGC-ACCC
* * *
740915 ATTTCAAAGCCTACACAAGTTGGTGGTAACC
65 ATTTCAAAGCCCACACAAGTCGGTGGCAACC
* * * *
740946 CATTTTAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-TATAAGTTAGTGGCATCC-
1 CATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTAGTGGCACCCA
*
741008 TTTCAAAG-CC-CACAAGTCAGTGGC-ACC
66 TTTCAAAGCCCACACAAGTCGGTGGCAACC
*
741035 C-TTTTAAAGCC
1 CATTTGAAAGCC
741046 TACTAGTCAG
Statistics
Matches: 166, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
88 10 0.06
89 13 0.08
90 13 0.08
91 13 0.08
92 11 0.07
93 10 0.06
94 13 0.08
95 15 0.09
96 68 0.41
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (95 bp):
CATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTAGTGGCACCCA
TTTCAAAGCCCACACAAGTCGGTGGCAACC
Found at i:741013 original size:28 final size:28
Alignment explanation
Indices: 740739--741156 Score: 289
Period size: 28 Copynumber: 14.1 Consensus size: 28
740729 GCACCATTTT
* * *
740739 AAAGCCCACAAGTTAGTGGCATCATTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
740767 AAAGCCCACAAGTCAGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
740795 AAAGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * *
740824 AAAGCCCACATAAGTCGGTGGCAACTCATTTG
1 AAAGCCCAC--AAGTCAGTGGC-A-TCCTTTC
** * *
740856 AAAGCCCACACAAGTTGGTGGCAACCCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
** *
740888 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
** * * *
740920 AAAGCCTACACAAGTTGGTGGTAACCCATTTT
1 AAAGCC--CACAAGTCAGTGG-CATCC-TTTC
* *
740952 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
* * *
740984 AAAGCCTATAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
741012 AAAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
741040 AAAGCCTACTAGTCAGTGTCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCCTTTC
*
741069 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
741097 AAAGCCCACAAGTTAGTGACA-CCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
*
741125 AAAGCCCACAAGTCAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCCTTTC
741154 AAA
1 AAA
741157 AGCTCTTTTC
Statistics
Matches: 330, Mismatches: 44, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.00
28 142 0.43
29 44 0.13
30 11 0.03
31 14 0.04
32 110 0.33
33 5 0.02
34 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:742119 original size:20 final size:20
Alignment explanation
Indices: 742077--742130 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
742067 AAGTACTCAG
* * *
742077 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATGTATCA
*
742097 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
*
742117 ATGCATCGATACAT
1 ATGTATCGATACAT
742131 TCTGTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:752566 original size:20 final size:20
Alignment explanation
Indices: 752543--752598 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
752533 AAAGTACCCA
* *
752543 GATGTATCGATACATTTTTT
1 GATGTATCGATACATTGTAT
752563 GATGTATCGATACA-TGTAT
1 GATGTATCGATACATTGTAT
752582 GAATGTATCGATACATT
1 G-ATGTATCGATACATT
752599 CTGTCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 4 0.12
20 27 0.84
21 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (20 bp):
GATGTATCGATACATTGTAT
Found at i:754941 original size:97 final size:97
Alignment explanation
Indices: 754775--755023 Score: 399
Period size: 97 Copynumber: 2.6 Consensus size: 97
754765 AAATTTTTAT
* * * *
754775 TCATCGGGGATACTCCAACCCCATTCCTCCGAGGAGATACTCCAACCCCGCTTTTAAACTTGTCA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTTGTAA
*
754840 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
66 AGATTCAAATCTTATTCTCGCTTAAATTATCA
* *
754872 TCATCGGGGACACTCTAACCCCATTCCTCCAAGGGGATACTCCAACCTCGCTTTTAAACTTGTAA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTTGTAA
754937 AGATTCAAATCTTATTCTCGCTTAAATTATCA
66 AGATTCAAATCTTATTCTCGCTTAAATTATCA
* * * *
754969 TCATCGAGGACACTCCAACCTCATTCCTCTGAGGGGATACTCCAACCTCGTTTTT
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTT
755024 TTCAATAAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 139 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (97 bp):
TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTTGTAA
AGATTCAAATCTTATTCTCGCTTAAATTATCA
Found at i:765064 original size:26 final size:23
Alignment explanation
Indices: 765005--765065 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
764995 TAATTTTTAT
765005 ATAA-TAATTTTTAAAAAAATTA
1 ATAACTAATTTTTAAAAAAATTA
* **
765027 ATCACTTTTTTTTAAAAAAACTACTA
1 ATAACTAATTTTTAAAAAAA-T--TA
765053 ATAACTAATTTTT
1 ATAACTAATTTTT
765066 CTTCAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 3 0.10
23 13 0.45
24 1 0.03
26 12 0.41
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAACTAATTTTTAAAAAAATTA
Found at i:769821 original size:13 final size:13
Alignment explanation
Indices: 769803--769827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
769793 CATAAAGTGT
769803 TGTATCGATACAA
1 TGTATCGATACAA
769816 TGTATCGATACA
1 TGTATCGATACA
769828 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:769825 original size:33 final size:33
Alignment explanation
Indices: 769783--769849 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
769773 TTCAACGATT
769783 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
769816 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
769849 T
1 T
769850 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:769908 original size:13 final size:13
Alignment explanation
Indices: 769890--769914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
769880 ATCACTTAAA
769890 TGTATCGATACAT
1 TGTATCGATACAT
769903 TGTATCGATACA
1 TGTATCGATACA
769915 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:769979 original size:52 final size:52
Alignment explanation
Indices: 769923--770047 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
769913 CACTGATCTT
*
769923 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
769975 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
770027 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
770048 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:773270 original size:59 final size:57
Alignment explanation
Indices: 773114--773302 Score: 191
Period size: 59 Copynumber: 3.2 Consensus size: 57
773104 TTACGACAGA
* *
773114 TGGCGATCTAAGTTTAAGTGACTTGGCATCACTTAGTGTTTAAGTTTGGATCGCCTTGG
1 TGGCGATCTGAGTTTAAGTGACTTGGCGTCACTTAGTGTTTAA-TTTGG-TCGCCTTGG
* * * * * *
773173 CGGCAATCTGAGTTTTAGTGAC-TGAACGTTACTTAGTGTTTGAATTTCGGTCGCCTTAG
1 TGGCGATCTGAGTTTAAGTGACTTG-GCGTCACTTAGTGTTT-AATTT-GGTCGCCTTGG
* * * * *
773232 TGGCGACCTGAGTTTGAGTGACTTGGCGTCACTAAGTGTTTCACTTAGGGTCGCCTTGG
1 TGGCGATCTGAGTTTAAGTGACTTGGCGTCACTTAGTGTTT-AATT-TGGTCGCCTTGG
773291 TGGCGATCTGAG
1 TGGCGATCTGAG
773303 GGGAGTCGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
58 2 0.02
59 97 0.92
60 6 0.06
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (57 bp):
TGGCGATCTGAGTTTAAGTGACTTGGCGTCACTTAGTGTTTAATTTGGTCGCCTTGG
Found at i:780095 original size:23 final size:23
Alignment explanation
Indices: 780063--780110 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
780053 AAATATGATT
*
780063 AAAAATATATG-ATACAAAAAATA
1 AAAAAAATATGAATA-AAAAAATA
780086 AAAAAAATATGACATAAAAAAATA
1 AAAAAAATATGA-ATAAAAAAATA
780110 A
1 A
780111 TGACCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 9 0.41
25 3 0.14
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAAAATATGAATAAAAAAATA
Found at i:780102 original size:16 final size:17
Alignment explanation
Indices: 780083--780120 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
780073 GATACAAAAA
780083 ATAAAAAAAAT-ATGAC
1 ATAAAAAAAATAATGAC
780099 AT-AAAAAAATAATGAC
1 ATAAAAAAAATAATGAC
*
780115 CTAAAA
1 ATAAAA
780121 TATTACTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 8 0.42
17 3 0.16
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (17 bp):
ATAAAAAAAATAATGAC
Found at i:780106 original size:15 final size:16
Alignment explanation
Indices: 780086--780120 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
780076 ACAAAAAATA
780086 AAAAAAAT-ATGACAT
1 AAAAAAATAATGACAT
*
780101 AAAAAAATAATGACCT
1 AAAAAAATAATGACAT
780117 AAAA
1 AAAA
780121 TATTACTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAAAATAATGACAT
Found at i:780651 original size:36 final size:36
Alignment explanation
Indices: 780611--780689 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
780601 GTGTTATTTT
780611 TTGTGTTGTATAATATTTTAGGTCATATTTTTTGTG
1 TTGTGTTGTATAATATTTTAGGTCATATTTTTTGTG
*
780647 TTGTGTTGTATAGTATTTTAGGTCATATTTTTTGTG
1 TTGTGTTGTATAATATTTTAGGTCATATTTTTTGTG
780683 TTGTGTT
1 TTGTGTT
780690 CTTTCTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.16, C:0.03, G:0.22, T:0.59
Consensus pattern (36 bp):
TTGTGTTGTATAATATTTTAGGTCATATTTTTTGTG
Found at i:783230 original size:60 final size:60
Alignment explanation
Indices: 783166--783592 Score: 276
Period size: 60 Copynumber: 7.1 Consensus size: 60
783156 TCTCAGCACC
* * * *
783166 AAATATCATCTCAAACTCTCCTTAAGCTAGTAGAACAATCCTTAACTGTACTTTAGCCTA
1 AAATATCATCTCAAACTCTACTTGAGCTAGTAGAACAATCCTGAACTCTACTTTAGCCTA
* * * * * * *
783226 AAATATCATCTCAAACTTTACTTGAGCTGGTAGAAGAATCCTGAACTATACCTCAGTCTA
1 AAATATCATCTCAAACTCTACTTGAGCTAGTAGAACAATCCTGAACTCTACTTTAGCCTA
* * * * *
783286 AAATATCATCTCGAACTCTACTGGAG-TAGGTAGAATAATCGC-AAACTCCA-TCTTAGCCTA
1 AAATATCATCTCAAACTCTACTTGAGCTA-GTAGAACAATC-CTGAACTCTACT-TTAGCCTA
* * * * * * * *
783346 AAATATTATCTCGAACTCTATTTAATGGC-A-TAGAGCAATCTTAAACTCTACTTCAGCC-A
1 AAATATCATCTCAAACTCTACTTGA--GCTAGTAGAACAATCCTGAACTCTACTTTAGCCTA
* * * * * * * ** *
783405 CAAATATCACCCCAAACTCTATTTGAGCAAGTAGAATAATCCTGATCTCCACCTCAATCC-A
1 -AAATATCATCTCAAACTCTACTTGAGCTAGTAGAACAATCCTGAACTCTA-CTTTAGCCTA
* * * ** * * * *
783466 AAATATCATC-CTTAGCTCTACTTAATTTAGTAGAATAATCCTAAACTTTACTTTAGCCCA
1 AAATATCATCTC-AAACTCTACTTGAGCTAGTAGAACAATCCTGAACTCTACTTTAGCCTA
* * * * * *
783526 AAATATCATCCCAAACTCTATTTGAGCGAGTAAAACAATCCTGAACTCTACCTTAGCCCA
1 AAATATCATCTCAAACTCTACTTGAGCTAGTAGAACAATCCTGAACTCTACTTTAGCCTA
*
783586 AATTATC
1 AAATATC
783593 CTCATGAACT
Statistics
Matches: 280, Mismatches: 72, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
58 2 0.01
59 9 0.03
60 258 0.92
61 9 0.03
62 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (60 bp):
AAATATCATCTCAAACTCTACTTGAGCTAGTAGAACAATCCTGAACTCTACTTTAGCCTA
Found at i:783575 original size:180 final size:179
Alignment explanation
Indices: 783166--783588 Score: 403
Period size: 180 Copynumber: 2.4 Consensus size: 179
783156 TCTCAGCACC
** * * *
783166 AAATATCATCTCAAACTCTCCTTAAGCTAGTAGAACAATCCTTAACTGTACTTTAGCCTA-AAAT
1 AAATATCATCTCAAACTCTATTTAAGCGAGTAGAACAATCCTAAACTCTAC-TTAGCC-ACAAAT
* * * ** * * *
783230 ATCATCTCAAACTTTACTTGAGCTGGTAGAAGAATCCTGAACTATACCTCAGTCTAAAATATCAT
64 ATCACCCCAAACTCTACTTGAGCAAGTAGAAGAATCCTGAACTACACCTCAATCCAAAATATCAT
* *
783295 CTCGAACTCTACTGGAGTAGGTAGAATAATCGCAAACTCCATCTTAGCCTA
129 CTCGAACTCTACTGAAGTAGGTAGAATAATCGCAAACTCCATCTTAGCCCA
* * * *
783346 AAATATTATCTCGAACTCTATTTAATG-GCA-TAGAGCAATCTTAAACTCTACTTCAGCCACAAA
1 AAATATCATCTCAAACTCTATTTAA-GCG-AGTAGAACAATCCTAAACTCTACTT-AGCCACAAA
* * * *
783409 TATCACCCCAAACTCTATTTGAGCAAGTAGAATAATCCTGATCTCCACCTCAATCCAAAATATCA
63 TATCACCCCAAACTCTACTTGAGCAAGTAGAAGAATCCTGAACTACACCTCAATCCAAAATATCA
* * * * **
783474 TC-CTTAGCTCTACTTAATTTA-GTAGAATAATC-CTAAACTTTA-CTTTAGCCCA
128 TCTC-GAACTCTACTGAA-GTAGGTAGAATAATCGC-AAACTCCATC-TTAGCCCA
* * * *
783526 AAATATCATCCCAAACTCTATTTGAGCGAGTAAAACAATCCTGAACTCTACCTTAGCC-CAAAT
1 AAATATCATCTCAAACTCTATTTAAGCGAGTAGAACAATCCTAAACTCTA-CTTAGCCACAAAT
783589 TATCCTCATG
Statistics
Matches: 195, Mismatches: 37, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
179 13 0.07
180 175 0.90
181 7 0.04
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (179 bp):
AAATATCATCTCAAACTCTATTTAAGCGAGTAGAACAATCCTAAACTCTACTTAGCCACAAATAT
CACCCCAAACTCTACTTGAGCAAGTAGAAGAATCCTGAACTACACCTCAATCCAAAATATCATCT
CGAACTCTACTGAAGTAGGTAGAATAATCGCAAACTCCATCTTAGCCCA
Found at i:783642 original size:120 final size:120
Alignment explanation
Indices: 783376--783624 Score: 259
Period size: 120 Copynumber: 2.1 Consensus size: 120
783366 TTTAATGGCA
* * * *
783376 TAGAGCAATCTTAAACTCTA-CTTCAG-CCACAAATATCACCCCAAACTCTATTTGAGCAAGTAG
1 TAGAACAATCCTAAACTTTACCTT-AGCCCA-AAATATCACCCCAAACTCTATTTGAGCAAGTAA
* * * * * * * *
783439 AATAATCCTGATCTCCACCTCAATCCAAAATATCATCCTTAGCTCTACTTAATTTAG
64 AACAATCCTGAACTCCACCTCAACCCAAAATATCATCATGAACTCTACCTAAGTTAG
* * * *
783496 TAGAATAATCCTAAACTTTACTTTAGCCCAAAATATCATCCCAAACTCTATTTGAGCGAGTAAAA
1 TAGAACAATCCTAAACTTTACCTTAGCCCAAAATATCACCCCAAACTCTATTTGAGCAAGTAAAA
* * * * * *
783561 CAATCCTGAACTCTACCTTAGCCCAAATTATCCTCATGAACTCTACCTAAGTTGG
66 CAATCCTGAACTCCACCTCAACCCAAAATATCATCATGAACTCTACCTAAGTTAG
*
783616 TTGAACAAT
1 TAGAACAAT
783625 TTTGAATTCT
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
120 98 0.95
121 5 0.05
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (120 bp):
TAGAACAATCCTAAACTTTACCTTAGCCCAAAATATCACCCCAAACTCTATTTGAGCAAGTAAAA
CAATCCTGAACTCCACCTCAACCCAAAATATCATCATGAACTCTACCTAAGTTAG
Found at i:784127 original size:23 final size:24
Alignment explanation
Indices: 784093--784140 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
784083 TATTCGGGGC
784093 CTATTTTATTTAATT-ATGTTAGG
1 CTATTTTATTTAATTGATGTTAGG
*
784116 CTATTTTTTTTAATTGATGTTAGG
1 CTATTTTATTTAATTGATGTTAGG
784140 C
1 C
784141 CTTAGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.56
Consensus pattern (24 bp):
CTATTTTATTTAATTGATGTTAGG
Found at i:784595 original size:4 final size:4
Alignment explanation
Indices: 784586--784616 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
784576 TTAGCCTTTG
*
784586 TTTA TTTA TTTA TTTG TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
784617 TTAATAGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:784603 original size:16 final size:16
Alignment explanation
Indices: 784582--784616 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
784572 TCTCTTAGCC
784582 TTTGTTTATTTATTTA
1 TTTGTTTATTTATTTA
784598 TTTGTTTATTTATTTA
1 TTTGTTTATTTATTTA
784614 TTT
1 TTT
784617 TTAATAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTGTTTATTTATTTA
Found at i:788163 original size:18 final size:21
Alignment explanation
Indices: 788132--788178 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
788122 ATAAATAGAA
788132 AATTAAAA-AAATATTTTTAT
1 AATTAAAATAAATATTTTTAT
*
788152 -ATTAAAATATATATTTTTAT
1 AATTAAAATAAATATTTTTAT
788172 AATTAAA
1 AATTAAA
788179 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTAAAATAAATATTTTTAT
Found at i:788390 original size:19 final size:19
Alignment explanation
Indices: 788363--788406 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
788353 ACACTTTAAC
*
788363 TTAAATTTAGAATTATATT
1 TTAATTTTAGAATTATATT
* * *
788382 TTAATTTTATAATTTTTTT
1 TTAATTTTAGAATTATATT
788401 TTAATT
1 TTAATT
788407 ATAAAAGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTAATTTTAGAATTATATT
Found at i:788447 original size:18 final size:19
Alignment explanation
Indices: 788420--788462 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
788410 AAAGTATAAA
788420 AATT-AATTATTAAA-TTT
1 AATTAAATTATTAAATTTT
788437 AATTAAATTATTAAATTTT
1 AATTAAATTATTAAATTTT
788456 AATTAAA
1 AATTAAA
788463 ATAAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAAATTATTAAATTTT
Found at i:788981 original size:20 final size:21
Alignment explanation
Indices: 788937--788982 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
788927 ATGTCTTATT
* *
788937 TTATTTTTAATTAATTATTTA
1 TTATTTTTAATTAAGTATATA
*
788958 TTATTTTTAA-TAAGTATATG
1 TTATTTTTAATTAAGTATATA
788978 TTATT
1 TTATT
788983 CTATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATTTTTAATTAAGTATATA
Found at i:789615 original size:19 final size:16
Alignment explanation
Indices: 789580--789620 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
789570 TTCATTATCT
789580 TTATTTTTTAAAATTA
1 TTATTTTTTAAAATTA
789596 TTATTATTTTAAACA-T-
1 TTATT-TTTTAAA-ATTA
789612 TTATTTTTT
1 TTATTTTTT
789621 TGACATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 8 0.35
18 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTTAAAATTA
Found at i:791689 original size:19 final size:18
Alignment explanation
Indices: 791655--791698 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
791645 AATATGTAAT
791655 ATTTTATTTAATTATTTA
1 ATTTTATTTAATTATTTA
791673 ATTTT-TTTAATAATATTTA
1 ATTTTATTTAAT--TATTTA
*
791692 AATTTAT
1 ATTTTAT
791699 AACATCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 10 0.45
20 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTATTTAATTATTTA
Found at i:791695 original size:20 final size:21
Alignment explanation
Indices: 791636--791696 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
791626 ATTAATGTTA
* *
791636 TTATTTATTAATATGTAATATT
1 TTATTTAATAATATTTAA-ATT
791658 TTATTTAAT--TATTT-AATT
1 TTATTTAATAATATTTAAATT
791676 TT-TTTAATAATATTTAAATT
1 TTATTTAATAATATTTAAATT
791696 T
1 T
791697 ATAACATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 6 0.18
20 9 0.26
22 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTTAATAATATTTAAATT
Done.