Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2583621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 3 of 13
Found at i:469119 original size:10 final size:10
Alignment explanation
Indices: 469106--469144 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
469096 ATAAACAAAT
469106 AAACATAAAC
1 AAACATAAAC
*
469116 AAACATAAAT
1 AAACATAAAC
*
469126 GAACATAAAC
1 AAACATAAAC
*
469136 AATCATAAA
1 AAACATAAA
469145 TGAACGAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (10 bp):
AAACATAAAC
Found at i:469159 original size:24 final size:20
Alignment explanation
Indices: 469102--469149 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
469092 AAACATAAAC
*
469102 AAATAAACATAAACAAACAT
1 AAATGAACATAAACAAACAT
*
469122 AAATGAACATAAACAATCAT
1 AAATGAACATAAACAAACAT
469142 AAATGAAC
1 AAATGAAC
469150 GAACATAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.65, C:0.15, G:0.04, T:0.17
Consensus pattern (20 bp):
AAATGAACATAAACAAACAT
Found at i:474704 original size:2 final size:2
Alignment explanation
Indices: 474697--474739 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
474687 TCATCAAATG
474697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
474739 T
1 T
474740 TCCTGCTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:501250 original size:16 final size:17
Alignment explanation
Indices: 501229--501265 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
501219 AGAGCCCCAT
*
501229 GGGTGACACTT-TTGAG
1 GGGTGACACTTGTGGAG
501245 GGGTGACACTTGTGGAG
1 GGGTGACACTTGTGGAG
501262 GGGT
1 GGGT
501266 TGCTTGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.16, C:0.11, G:0.46, T:0.27
Consensus pattern (17 bp):
GGGTGACACTTGTGGAG
Found at i:501523 original size:2 final size:2
Alignment explanation
Indices: 501516--501541 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
501506 AATATTATTA
501516 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
501542 TAAAAATAAT
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:505981 original size:29 final size:29
Alignment explanation
Indices: 505949--506011 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
505939 ATTATTTTAA
*
505949 AAAAATGAATAAATTTTAA-ATTAAAATAT
1 AAAAATGAATAAATTTAAATATTAAAA-AT
* **
505978 AAAATTGTTTAAATTTAAATATTAAAAAT
1 AAAAATGAATAAATTTAAATATTAAAAAT
506007 AAAAA
1 AAAAA
506012 ATACTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAAATGAATAAATTTAAATATTAAAAAT
Found at i:506013 original size:16 final size:17
Alignment explanation
Indices: 505994--506039 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
505984 GTTTAAATTT
505994 AAATATTAAAAATA-AA
1 AAATATTAAAAATACAA
*
506010 AAATACTAAAAATACTAA
1 AAATATTAAAAATAC-AA
*
506028 AAAAATTAAAAA
1 AAATATTAAAAA
506040 AATATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
18 12 0.48
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATATTAAAAATACAA
Found at i:506020 original size:8 final size:9
Alignment explanation
Indices: 505994--506030 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
505984 GTTTAAATTT
*
505994 AAATATTAA
1 AAATACTAA
506003 AAATA--AA
1 AAATACTAA
506010 AAATACTAA
1 AAATACTAA
506019 AAATACTAA
1 AAATACTAA
506028 AAA
1 AAA
506031 AATTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
9 19 0.73
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATACTAA
Found at i:507282 original size:58 final size:57
Alignment explanation
Indices: 507218--507342 Score: 155
Period size: 58 Copynumber: 2.2 Consensus size: 57
507208 AGGGTGACTT
* * * *
507218 TTTTAAATATATTTTATTCTTTTCA-TAACCTAAAATATATATTTTATTATTATTTTAA
1 TTTTAAATATATTTTAATCTTAT-ATTAA-ATAAAATATATATTTTATTATTATCTTAA
*
507276 TTTTAAAATATATTTTAATCTTATATTAAATAAAATATATATTTTATTTTTATCTTAA
1 TTTT-AAATATATTTTAATCTTATATTAAATAAAATATATATTTTATTATTATCTTAA
*
507334 -CTTAAATAT
1 TTTTAAATAT
507343 TTATATTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
56 6 0.10
57 2 0.03
58 31 0.53
59 20 0.34
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (57 bp):
TTTTAAATATATTTTAATCTTATATTAAATAAAATATATATTTTATTATTATCTTAA
Found at i:507328 original size:29 final size:30
Alignment explanation
Indices: 507224--507356 Score: 119
Period size: 29 Copynumber: 4.5 Consensus size: 30
507214 ACTTTTTTAA
* * *
507224 ATATATTTTATTCTTTTCA-TAACCTAAAAT
1 ATATATTTTATTATTAT-ATTAACTTAAAAT
* * *
507254 ATATATTTTATTATTATTTTAATTTTAAA-
1 ATATATTTTATTATTATATTAACTTAAAAT
* * *
507283 ATATATTTTAATCTTATATTAA-ATAAAAT
1 ATATATTTTATTATTATATTAACTTAAAAT
* *
507312 ATATATTTTATTTTTATCTTAACTTAAATAT
1 ATATATTTTATTATTATATTAACTTAAA-AT
*
507343 TTATATTTTATTAT
1 ATATATTTTATTAT
507357 GATAATATTT
Statistics
Matches: 82, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
28 4 0.05
29 38 0.46
30 26 0.32
31 14 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (30 bp):
ATATATTTTATTATTATATTAACTTAAAAT
Found at i:507435 original size:30 final size:31
Alignment explanation
Indices: 507372--507446 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
507362 TATTTTAAAT
* * *
507372 TTAAGATAAAATTATAATATATTTTTCGTAG
1 TTAAAATAAAAATAAAATATATTTTTCGTAG
507403 TTAAAATAAAAATAAAATATATTTTT-GTAG
1 TTAAAATAAAAATAAAATATATTTTTCGTAG
507433 TTAAAATAAAAATA
1 TTAAAATAAAAATA
507447 TATTTTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 18 0.44
31 23 0.56
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (31 bp):
TTAAAATAAAAATAAAATATATTTTTCGTAG
Found at i:507438 original size:24 final size:23
Alignment explanation
Indices: 507411--507470 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
507401 AGTTAAAATA
*
507411 AAAATAAAATATATTTTTGTAGTT
1 AAAATAAAATATATTTTT-AAGTT
507435 AAAATAAAAATATATTTTTAAGTT
1 AAAAT-AAAATATATTTTTAAGTT
*
507459 AAGATAAGAATA
1 AAAATAA-AATA
507471 AAAGATATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 2 0.06
24 17 0.53
25 13 0.41
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.38
Consensus pattern (23 bp):
AAAATAAAATATATTTTTAAGTT
Found at i:507471 original size:30 final size:29
Alignment explanation
Indices: 507361--507703 Score: 225
Period size: 30 Copynumber: 11.6 Consensus size: 29
507351 TATTATGATA
* * *
507361 ATATTTTAAATTTAAGATAA-AATTATAAT
1 ATATTTTTAAGTTAAGATAAGAA-TAAAAT
* * *
507390 ATATTTTTCGTAGTTAAAATAAAAATAAAAT
1 ATATTTTT--AAGTTAAGATAAGAATAAAAT
*
507421 ATATTTTT--G-T-AGTTAA-AATAAAAAT
1 ATATTTTTAAGTTAAGATAAGAAT-AAAAT
*
507446 ATATTTTTAAGTTAAGATAAGAATAAAAG
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* * * *
507475 ATATGTTTAAGTTAAAATAAGAATTAATT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* * * * *
507504 ATATTTAATAATTTAAGGTAATAATATAAT
1 ATATTT-TTAAGTTAAGATAAGAATAAAAT
* * * *
507534 ATATTTAATAATTTAAGTTAAGAATATAAT
1 ATATTT-TTAAGTTAAGATAAGAATAAAAT
* ** * *
507564 TTATGTAATAAGTTAAGATAAGTATAAAAA
1 ATAT-TTTTAAGTTAAGATAAGAATAAAAT
507594 ATATTTTTTAAGTTAAGATAA-ATTATTAAAAT
1 ATA-TTTTTAAGTTAAGATAAGA--A-TAAAAT
* *
507626 ATATTTTTAGGTTAAGA-ATGTAATAAAAT
1 ATATTTTTAAGTTAAGATAAG-AATAAAAT
* * *
507655 ATATTTAATAAGTTAATATAAAAATAAAAT
1 ATATTT-TTAAGTTAAGATAAGAATAAAAT
507685 ATATTTTTAAAGTTAAGAT
1 ATATTTTT-AAGTTAAGAT
507704 GTAAAATTAA
Statistics
Matches: 248, Mismatches: 46, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
24 3 0.01
25 17 0.07
26 1 0.00
27 2 0.01
28 1 0.00
29 58 0.23
30 116 0.47
31 39 0.16
32 11 0.04
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.41
Consensus pattern (29 bp):
ATATTTTTAAGTTAAGATAAGAATAAAAT
Found at i:510582 original size:21 final size:22
Alignment explanation
Indices: 510542--510583 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
510532 ACCAACCAAC
*
510542 CGAATTAATTCGATTCGGTTAT
1 CGAATTAATTCGAGTCGGTTAT
*
510564 CGAATTAGTTCG-GTCGGTTA
1 CGAATTAATTCGAGTCGGTTA
510584 ACGGTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (22 bp):
CGAATTAATTCGAGTCGGTTAT
Found at i:518302 original size:15 final size:15
Alignment explanation
Indices: 518278--518311 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
518268 CCTCTTCAAG
518278 GCACTATAGGAGTAT
1 GCACTATAGGAGTAT
*
518293 GCACTGTAGGAGTAT
1 GCACTATAGGAGTAT
518308 GCAC
1 GCAC
518312 CCCCAGCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (15 bp):
GCACTATAGGAGTAT
Found at i:532005 original size:16 final size:17
Alignment explanation
Indices: 531979--532010 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
531969 CTTCTAATTT
531979 TTTTCTTGAGTTCAAGG
1 TTTTCTTGAGTTCAAGG
531996 TTTT-TTGAGTTCAAG
1 TTTTCTTGAGTTCAAG
532011 TTTCAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (17 bp):
TTTTCTTGAGTTCAAGG
Found at i:557720 original size:33 final size:30
Alignment explanation
Indices: 557677--557736 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
557667 AATATTCTTA
*
557677 ATTACATCTCTCCTATAATTTTTAAAAATTCTC
1 ATTACATCTCT-C-A-AATTTTCAAAAATTCTC
*
557710 ATTACGTCTCTCAAATTTTCAAAAATT
1 ATTACATCTCTCAAATTTTCAAAAATT
557737 ATAATTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 1 0.04
33 10 0.40
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTACATCTCTCAAATTTTCAAAAATTCTC
Found at i:562219 original size:28 final size:28
Alignment explanation
Indices: 562125--562225 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
562115 TTTCTTTTAA
*
562125 GTACTTAAAGTATTTTTGATCAAATTTA-
1 GTACTTAAAGTATTTTTGATCAAA-ATAG
*
562153 GTACTTAAAGTTATCTTTTTGGTCAAAATAG
1 GTACTTAAAG-TA--TTTTTGATCAAAATAG
** *
562184 ACATTTAAAGTATTTTAT-ATCAAAATAG
1 GTACTTAAAGTATTTT-TGATCAAAATAG
*
562212 GTACTTAAATTATT
1 GTACTTAAAGTATT
562226 CAAAAAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
28 33 0.57
29 3 0.05
30 4 0.07
31 18 0.31
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.44
Consensus pattern (28 bp):
GTACTTAAAGTATTTTTGATCAAAATAG
Found at i:562655 original size:3 final size:3
Alignment explanation
Indices: 562647--562683 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
562637 CCACAAGGAA
*
562647 AAG AAG AAG AAG AAG AAG AAG ACG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
562684 TTTCTCTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:568019 original size:43 final size:43
Alignment explanation
Indices: 567947--568191 Score: 226
Period size: 43 Copynumber: 5.7 Consensus size: 43
567937 GCCGCTAAAG
* ** *
567947 TTAGCGGCGTTTTTTAACAAAAAAACCGCAATAGGTGTTGTTAT
1 TTAGCGGCG-TTTTTCACAAAAACGCCGCAATAGGTGTTGATAT
* * *
567991 TTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTTTTGATGT
1 TTAGCGGCGTTTTTCACAAAAACGCCGCAATAGGTGTTGATAT
* * * * *
568034 TTAGCGGCG-TTTTCCCTACAAACGCTGCAGTAGGTTTTGATAT
1 TTAGCGGCGTTTTTCAC-AAAAACGCCGCAATAGGTGTTGATAT
* * *
568077 TTAGCGGCGTTTTTC-CTACAAACGCAGCAGTAGGTGTTGATAT
1 TTAGCGGCGTTTTTCAC-AAAAACGCCGCAATAGGTGTTGATAT
* **
568120 TTTGCGGCGATTTTTCA-AAAAACGCCGCAATAGGTGTTGAGCT
1 TTAGCGGCG-TTTTTCACAAAAACGCCGCAATAGGTGTTGATAT
* * * *
568163 TTAGTGGTGTTTTTTTATAAAAACGCCGC
1 TTAGCGGCG-TTTTTCACAAAAACGCCGC
568192 TAAAGTTCGG
Statistics
Matches: 170, Mismatches: 26, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
42 5 0.03
43 134 0.79
44 31 0.18
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTCACAAAAACGCCGCAATAGGTGTTGATAT
Found at i:568614 original size:23 final size:21
Alignment explanation
Indices: 568584--568632 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
568574 GCTGATATGT
*
568584 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGATGCCGC
568605 TGCTTCTCTCTGTGATGCCGC
1 TGCTTCTCTCTGTGATGCCGC
568626 TGCTTCT
1 TGCTTCT
568633 TTCTCTGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.35, G:0.22, T:0.41
Consensus pattern (21 bp):
TGCTTCTCTCTGTGATGCCGC
Found at i:576377 original size:43 final size:42
Alignment explanation
Indices: 576314--576476 Score: 127
Period size: 41 Copynumber: 3.9 Consensus size: 42
576304 CTTTTATATT
* * * *
576314 AAAAACGCCGCTAATGTACATGACTATGGCGGCGTTTATTACC
1 AAAAACGCCACTAAAGTACATGACTATAGCGGCGTTT-TTAAC
* * * * * *
576357 AAAAATGCCACTAAATTACATTACTATTGCAGC-ATTTTAAC
1 AAAAACGCCACTAAAGTACATGACTATAGCGGCGTTTTTAAC
* *
576398 AAAAACGCCACTAAAGTACGA-GTCTATAGCGGCGTTTTCATAC
1 AAAAACGCCACTAAAGTAC-ATGACTATAGCGGCGTTTTTA-AC
* * * *
576441 --GAACGCCACTAAAGTATAAGTCTATAGCGGCGTTTT
1 AAAAACGCCACTAAAGTACATGACTATAGCGGCGTTTT
576477 CGTACAAACG
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.01
41 61 0.63
42 7 0.07
43 28 0.29
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (42 bp):
AAAAACGCCACTAAAGTACATGACTATAGCGGCGTTTTTAAC
Found at i:576446 original size:41 final size:41
Alignment explanation
Indices: 576400--576500 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
576390 ATTTTAACAA
*
576400 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTTCATAC
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTTCATAC
* * *
576441 GAACGCCACTAAAGTATAAGTCTATAGCGGCGTTTTCGTAC
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTTCATAC
*
576482 AAACGCCACTAAAATACAA
1 AAACGCCACTAAAGTACAA
576501 ATATTTTGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTTCATAC
Found at i:578256 original size:12 final size:12
Alignment explanation
Indices: 578239--578263 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
578229 CGTTTTATCA
578239 AAAAACGCCGCT
1 AAAAACGCCGCT
578251 AAAAACGCCGCT
1 AAAAACGCCGCT
578263 A
1 A
578264 CAGAACAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:578921 original size:16 final size:16
Alignment explanation
Indices: 578881--578921 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
578871 GTTATTTTTG
578881 GATT-AGGTTAAATTC
1 GATTCAGGTTAAATTC
*
578896 -AGTTCGGGTTAAATTC
1 GA-TTCAGGTTAAATTC
578912 GATTCAGGTT
1 GATTCAGGTT
578922 GCTTTCGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
14 1 0.05
15 2 0.10
16 17 0.81
17 1 0.05
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (16 bp):
GATTCAGGTTAAATTC
Found at i:585596 original size:16 final size:16
Alignment explanation
Indices: 585577--585610 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
585567 ACCAACTCCT
585577 CCGGCATA-CAACATGA
1 CCGGCATACCAA-ATGA
585593 CCGGCATACCAAATGA
1 CCGGCATACCAAATGA
585609 CC
1 CC
585611 TTCCTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.12
Consensus pattern (16 bp):
CCGGCATACCAAATGA
Found at i:585827 original size:2 final size:2
Alignment explanation
Indices: 585820--585892 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
585810 ACACTAGTGA
585820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
585862 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 A
585893 AACAGAGGGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:594241 original size:20 final size:20
Alignment explanation
Indices: 594216--594255 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
594206 TTCTCCTTCA
*
594216 AAGGGGGAATCTATTCCCTC
1 AAGGGGGAATCAATTCCCTC
*
594236 AAGGGGGGATCAATTCCCTC
1 AAGGGGGAATCAATTCCCTC
594256 TGCACCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (20 bp):
AAGGGGGAATCAATTCCCTC
Found at i:594242 original size:21 final size:21
Alignment explanation
Indices: 594194--594255 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
594184 ATTCCCCTGT
**
594194 GGGGGGAATCGGTTCTCCTTCAA
1 GGGGGGAATCAATTC-CC-TCAA
* *
594217 AGGGGGAATCTATTCCCTCAA
1 GGGGGGAATCAATTCCCTCAA
594238 GGGGGG-ATCAATTCCCTC
1 GGGGGGAATCAATTCCCTC
594256 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 11 0.32
21 9 0.26
22 2 0.06
23 12 0.35
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (21 bp):
GGGGGGAATCAATTCCCTCAA
Found at i:598090 original size:21 final size:20
Alignment explanation
Indices: 598056--598108 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
598046 GAGTTTGTTT
*
598056 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTT-ATATTTT-AAAAA
598077 TCATTTTTATATTTTAAAAA
1 TCATTTTTATATTTTAAAAA
*
598097 TAATTTCTTATA
1 TCATTT-TTATA
598109 ATCCGAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (20 bp):
TCATTTTTATATTTTAAAAA
Found at i:608136 original size:19 final size:21
Alignment explanation
Indices: 608099--608141 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
608089 TAACTTTTTC
608099 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
608119 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
608139 TTT
1 TTT
608142 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:608147 original size:19 final size:20
Alignment explanation
Indices: 608098--608147 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
608088 TTAACTTTTT
*
608098 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
608118 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
608137 CTTTTACCTTT
1 CTTTTACCTTT
608148 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:611996 original size:17 final size:16
Alignment explanation
Indices: 611965--611998 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
611955 CACGTGAGGA
611965 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
611981 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
611998 T
1 T
611999 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:615706 original size:14 final size:14
Alignment explanation
Indices: 615687--615716 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
615677 GGGATGGCTG
615687 GCTTCAGTCCAAAA
1 GCTTCAGTCCAAAA
615701 GCTTCAGTCCAAAA
1 GCTTCAGTCCAAAA
615715 GC
1 GC
615717 GTGGAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (14 bp):
GCTTCAGTCCAAAA
Found at i:635238 original size:14 final size:14
Alignment explanation
Indices: 635193--635239 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
635183 ATAATGATAT
635193 TAAATTATAATTAA
1 TAAATTATAATTAA
*
635207 TAAATATATAA-TAT
1 TAAAT-TATAATTAA
*
635221 TAAATTTTAATTAA
1 TAAATTATAATTAA
635235 TAAAT
1 TAAAT
635240 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.14
14 19 0.68
15 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATTATAATTAA
Found at i:635297 original size:27 final size:28
Alignment explanation
Indices: 635234--635297 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
635224 ATTTTAATTA
* * * **
635234 ATAAATAAAATTTAAAAATATTTTTTAC
1 ATAACTAAAATTCAAAAATATATTAAAC
635262 ATAAC-AAAATTCAAAAATATATTAAAC
1 ATAACTAAAATTCAAAAATATATTAAAC
635289 AT-ACTAAAA
1 ATAACTAAAA
635298 ATTTTCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.07
27 24 0.80
28 4 0.13
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAACTAAAATTCAAAAATATATTAAAC
Found at i:636064 original size:2 final size:2
Alignment explanation
Indices: 636057--636085 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
636047 TAATTACATA
636057 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 A
636086 ATGGTAGAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:637921 original size:21 final size:21
Alignment explanation
Indices: 637897--637943 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
637887 ATCCAGGCGA
637897 CATACGGGGTGACATACGACC
1 CATACGGGGTGACATACGACC
*
637918 CATACGGGGTGACATACGAGC
1 CATACGGGGTGACATACGACC
637939 CATAC
1 CATAC
637944 AAGCCATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (21 bp):
CATACGGGGTGACATACGACC
Found at i:637942 original size:9 final size:9
Alignment explanation
Indices: 637930--637969 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
637920 TACGGGGTGA
637930 CATACGAGC
1 CATACGAGC
*
637939 CATACAAGC
1 CATACGAGC
637948 CATATACGAGC
1 C--ATACGAGC
637959 CATACGAGC
1 CATACGAGC
637968 CA
1 CA
637970 ATGGAGAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (9 bp):
CATACGAGC
Found at i:637956 original size:20 final size:20
Alignment explanation
Indices: 637931--637969 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
637921 ACGGGGTGAC
637931 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
637951 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
637970 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:638012 original size:28 final size:28
Alignment explanation
Indices: 637972--638028 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
637962 ACGAGCCAAT
637972 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGTCTTATACGA
638000 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGTCTTATACGA
638028 G
1 G
638029 CCATACGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (28 bp):
GGAGAGGTCGCCATGCAGTCTTATACGA
Found at i:638091 original size:29 final size:29
Alignment explanation
Indices: 638047--638151 Score: 165
Period size: 29 Copynumber: 3.6 Consensus size: 29
638037 GCCAATGGAG
* **
638047 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
638076 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
**
638105 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
638134 AGGTCGCCATGTAGTCCC
1 AGGTCGCCATGTAGTCCC
638152 CATGTAGTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.16, C:0.30, G:0.31, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:638475 original size:14 final size:14
Alignment explanation
Indices: 638456--638486 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
638446 AGAGATTGCA
638456 GCCATAGCTTGGTC
1 GCCATAGCTTGGTC
638470 GCCATAGCTTGGTC
1 GCCATAGCTTGGTC
638484 GCC
1 GCC
638487 GAGATTGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.29, T:0.26
Consensus pattern (14 bp):
GCCATAGCTTGGTC
Found at i:638537 original size:25 final size:26
Alignment explanation
Indices: 638487--638537 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
638477 CTTGGTCGCC
**
638487 GAGATTGCAGCCGAAGAAAGGGAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
638513 GAGATTGCAGCCG-AGAAAGAAAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
638538 AGGGAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.45, C:0.12, G:0.35, T:0.08
Consensus pattern (26 bp):
GAGATTGCAGCCGAAGAAAGAAAGAA
Found at i:638738 original size:41 final size:41
Alignment explanation
Indices: 638693--638781 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
638683 TATATGATTG
* *
638693 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
638734 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
638775 TTAGTTT
1 TTAGTTT
638782 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:638824 original size:45 final size:45
Alignment explanation
Indices: 638721--638852 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
638711 TACATAAATT
*
638721 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
638763 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
638807 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
638853 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:638929 original size:32 final size:33
Alignment explanation
Indices: 638893--638969 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
638883 TTAGTTAGTA
638893 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
638925 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
638959 ATTTTATTAGT
1 AGTTTATTAGT
638970 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:639047 original size:16 final size:16
Alignment explanation
Indices: 639015--639061 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
639005 TTTAAAATGT
*
639015 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
639031 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
639047 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
639062 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:639056 original size:15 final size:14
Alignment explanation
Indices: 639036--639066 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
639026 GTTTATTAGT
639036 TTATTATATTATAAG
1 TTATTATATTA-AAG
639051 TTATTATATTAAAG
1 TTATTATATTAAAG
639065 TT
1 TT
639067 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:641237 original size:17 final size:17
Alignment explanation
Indices: 641215--641247 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
641205 CAATGATTTT
*
641215 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
641232 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
641248 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:641264 original size:24 final size:22
Alignment explanation
Indices: 641232--641300 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
641222 AAATCATTAC
641232 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
641254 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
641279 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
641301 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:641471 original size:38 final size:38
Alignment explanation
Indices: 641429--641525 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
641419 CACTCATTTG
** *
641429 TTAGTATTCTATAATTATTAGT-AATAATTATTAAATCA
1 TTAGTATTAAATAATTATTA-TAAATAATTACTAAATCA
*
641467 TTAGTATTAAATCATTATTATAAATAATTACTAAAT-A
1 TTAGTATTAAATAATTATTATAAATAATTACTAAATCA
* *
641504 ATA--ACTAAATAATTATTATAAA
1 TTAGTATTAAATAATTATTATAAA
641526 ATCATTATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
35 17 0.33
37 4 0.08
38 30 0.59
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (38 bp):
TTAGTATTAAATAATTATTATAAATAATTACTAAATCA
Found at i:641546 original size:12 final size:13
Alignment explanation
Indices: 641455--641682 Score: 129
Period size: 14 Copynumber: 17.1 Consensus size: 13
641445 ATTAGTAATA
641455 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
641469 AGTATTAAATCATT
1 ATTA-TAAATCATT
641483 ATTATAAAT-A--
1 ATTATAAATCATT
641493 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
641504 ATAACTAAATAATT
1 ATTA-TAAATCATT
641518 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
641532 ATTAT-AATGATT
1 ATTATAAATCATT
641544 ATTATCAAATCATT
1 ATTAT-AAATCATT
641558 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
641577 AAATATTTAAATCATT
1 --AT-TATAAATCATT
641593 A-T-TAAATCATT
1 ATTATAAATCATT
* *
641604 TTTAT-AATGATT
1 ATTATAAATCATT
641616 ATTAATAAATCATT
1 ATT-ATAAATCATT
*
641630 ATTAT-AATGATT
1 ATTATAAATCATT
641642 ATTATCAAATCATT
1 ATTAT-AAATCATT
*
641656 ATTAT-AATGATT
1 ATTATAAATCATT
641668 ATTATCAAATCATT
1 ATTAT-AAATCATT
641682 A
1 A
641683 CTAAATCATC
Statistics
Matches: 176, Mismatches: 16, Indels: 44
0.75 0.07 0.19
Matches are distributed among these distances:
10 4 0.02
11 24 0.14
12 45 0.26
13 11 0.06
14 66 0.38
15 1 0.01
16 8 0.05
17 1 0.01
18 3 0.02
19 11 0.06
20 1 0.01
21 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:641553 original size:26 final size:26
Alignment explanation
Indices: 641455--641682 Score: 183
Period size: 26 Copynumber: 9.2 Consensus size: 26
641445 ATTAGTAATA
* * *
641455 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
641480 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
641504 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
641529 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
641555 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
641578 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
641601 ATTTTTATAATGATTATTAAT-AAATC
1 ATTATTATAATGATTATT-ATCAAATC
641627 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
641653 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
641679 ATTA
1 ATTA
641683 CTAAATCATC
Statistics
Matches: 160, Mismatches: 29, Indels: 27
0.74 0.13 0.12
Matches are distributed among these distances:
21 4 0.03
22 2 0.01
23 16 0.10
24 20 0.12
25 30 0.19
26 86 0.54
27 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:641656 original size:124 final size:123
Alignment explanation
Indices: 641471--641740 Score: 445
Period size: 124 Copynumber: 2.2 Consensus size: 123
641461 AAATCATTAG
* * *
641471 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTAT
1 TATTAAATCATTTTTATAATGATTATTAATAAATAATAACTAAATAATTATTATAAAATCATTAT
641534 TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
* * * * *
641592 TATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTAATAAATAATAACTA-AATAATTATTATAAAATCATTA
641657 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
65 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
641716 TATTAAATCATTTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
641741 ATAAATACAT
Statistics
Matches: 138, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
121 18 0.13
123 16 0.12
124 104 0.75
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (123 bp):
TATTAAATCATTTTTATAATGATTATTAATAAATAATAACTAAATAATTATTATAAAATCATTAT
TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:644635 original size:26 final size:24
Alignment explanation
Indices: 644577--644635 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
644567 CTAATAAACC
*
644577 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
644601 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
644629 TAATAAT
1 TAATAAT
644636 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:645479 original size:28 final size:30
Alignment explanation
Indices: 645439--645501 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
645429 ATTTTTTATA
*
645439 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
645469 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
645497 TAATA
1 TAATA
645502 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:645508 original size:28 final size:28
Alignment explanation
Indices: 645443--645508 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
645433 TTTATATAAT
*
645443 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
645471 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
645499 ATAATTTATA
1 ATAATATATA
645509 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:645511 original size:21 final size:21
Alignment explanation
Indices: 645478--645526 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
645468 CTAATATAAT
645478 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
645499 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
645520 ATTAACT
1 A-TAACT
645527 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:645999 original size:30 final size:29
Alignment explanation
Indices: 645934--646013 Score: 137
Period size: 27 Copynumber: 2.8 Consensus size: 29
645924 GAATCTCCCA
645934 GCCGTGACTCCATGGCGACCTACCAAGCT
1 GCCGTGACTCCATGGCGACCTACCAAGCT
645963 --CGTGACTCCATGGCGACCTACCAAGCT
1 GCCGTGACTCCATGGCGACCTACCAAGCT
645990 CGCCGTGACTCCATGGCGACCTAC
1 -GCCGTGACTCCATGGCGACCTAC
646014 ACCGTTCGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
27 27 0.56
30 21 0.44
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.17
Consensus pattern (29 bp):
GCCGTGACTCCATGGCGACCTACCAAGCT
Found at i:646315 original size:24 final size:20
Alignment explanation
Indices: 646267--646304 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
646257 AGCGACATGG
*
646267 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
646287 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
646305 ATGCATCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:646403 original size:29 final size:29
Alignment explanation
Indices: 646359--646469 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
646349 CACCACACAT
*
646359 GTCGCTCGGATGCCATGGCGACCTCCAAG
1 GTCGCCCGGATGCCATGGCGACCTCCAAG
*
646388 GTCGCCCGGATTCCATGGCGACCTCCAAG
1 GTCGCCCGGATGCCATGGCGACCTCCAAG
*
646417 GTCGCCCGGATGGCATGGCGACCTCCAAG
1 GTCGCCCGGATGCCATGGCGACCTCCAAG
*
646446 GTCGCCCGGATGGCATGGCGACCT
1 GTCGCCCGGATGCCATGGCGACCT
646470 ACGGCTGCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (29 bp):
GTCGCCCGGATGCCATGGCGACCTCCAAG
Found at i:647614 original size:42 final size:43
Alignment explanation
Indices: 647548--647678 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 43
647538 AACAAAAAAT
* * *
647548 GCCGCAATAGGTCAAGATATATAGCGAC-TTTTTTGAAACAAAC
1 GCCGCAAAAGATCAATATATATAGCGACGTTTTTTG-AACAAAC
* * * *
647591 GTCGTAAAAGATC-ATATCTATAGCGGCGTTTTTTGAACAAAC
1 GCCGCAAAAGATCAATATATATAGCGACGTTTTTTGAACAAAC
*
647633 GCCGCAAAAGATCAATATATATAACG--GTGTTTTTGTAACAAAC
1 GCCGCAAAAGATCAATATATATAGCGACGT-TTTTTG-AACAAAC
647676 GCC
1 GCC
647679 ATAAAATGTC
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 35 0.48
43 36 0.49
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (43 bp):
GCCGCAAAAGATCAATATATATAGCGACGTTTTTTGAACAAAC
Found at i:649439 original size:31 final size:31
Alignment explanation
Indices: 649404--649463 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
649394 TAGTTGTATG
*
649404 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTGCAAAACTAA
*
649435 AATTATTTAAATTTTAGTATTGCAAAACT
1 AATTATTTAAATTTCAGTATTGCAAAACT
649464 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTGCAAAACTAA
Found at i:650610 original size:25 final size:25
Alignment explanation
Indices: 650582--650640 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
650572 ATTATTCCTC
650582 TAAATTATAATTTATTATATAATAT
1 TAAATTATAATTTATTATATAATAT
650607 TAAATTATAATTTATTATATAATAT
1 TAAATTATAATTTATTATATAATAT
650632 TAAATTATA
1 TAAATTATA
650641 TTCTTAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TAAATTATAATTTATTATATAATAT
Found at i:650615 original size:15 final size:15
Alignment explanation
Indices: 650595--650641 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 15
650585 ATTATAATTT
650595 ATTATATAATATTAA
1 ATTATATAATATTAA
650610 A-T-TATAAT-TT--
1 ATTATATAATATTAA
650620 ATTATATAATATTAA
1 ATTATATAATATTAA
650635 ATTATAT
1 ATTATAT
650642 TCTTAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
10 1 0.04
11 1 0.04
12 8 0.30
13 8 0.30
14 1 0.04
15 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATATAATATTAA
Found at i:650876 original size:24 final size:23
Alignment explanation
Indices: 650848--650914 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
650838 AAAATAATCC
*
650848 TTAATGATATTATATTATAA-TTAA
1 TTAAT-ATATAATATTA-AATTTAA
650872 TTAATATATAATATTAAATTTTAA
1 TTAATATATAATATTAAA-TTTAA
*
650896 TTAATAAATAA-ATTTAAAT
1 TTAATATATAATA-TTAAAT
650915 ATATTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 12 0.32
24 24 0.63
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
TTAATATATAATATTAAATTTAA
Found at i:651732 original size:2 final size:2
Alignment explanation
Indices: 651720--651753 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
651710 ACATAATTAC
651720 AT AT A- 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 AT A
651754 AAGTTAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:654390 original size:85 final size:85
Alignment explanation
Indices: 654289--654989 Score: 866
Period size: 85 Copynumber: 8.2 Consensus size: 85
654279 CATATATTTT
* * * * * * * *
654289 TTCTCGACTTAAGCTATGCTGTGAATTTGACATGCCCTTGAGATGAATGGAATCGAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* * *
654354 TATTTGTTGATAGATAACCC
66 TCTTGGTTGACAGATAACCC
* * * * *
654374 TTCTTGGCTTGAGCTATGCTTTAAATTTGATATGCCTTTGAGATGAGTGTAATCGAACTCGAAGA
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
654439 TCTTTTGTTGACAGATAACCC
66 TC-TTGGTTGACAGATAACCC
* ** * * *
654460 TTCTCGCCTTGAGCTATGGTGTAAATTCAATTTGCCTTTTAGTTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* * *
654525 TATTGGTCGACAGATAACTC
66 TCTTGGTTGACAGATAACCC
* *
654545 TTCTCGCCTTGAGCTATGCT-TAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* *
654609 TCTTGGTTGAAAGATAACCG
66 TCTTGGTTGACAGATAACCC
* * * * * * *
654629 TTTTCGCATTGAGTTATGATGTAAATTGGATATTCCTTTGAGTTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* *
654694 TCTTGGTTGAAAGATAACCA
66 TCTTGGTTGACAGATAACCC
* * * *
654714 TTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATTGAATTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
654779 TCTTGGTTGACAGATAGCCC
66 TCTTGGTTGACAGATAACCC
* * * * * * * *
654799 TTTTTGCCTTGAGTTGTGCTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATTGAACTTGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
654864 CCTTGGTTGACAGATAGA-CC
66 TCTTGGTTGACAGATA-ACCC
* *
654884 TTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
654949 TCTTGGTTGACAGATAACCC
66 TCTTGGTTGACAGATAACCC
*
654969 TTCTCGCCTTGAGTTATGCTG
1 TTCTCGCCTTGAGCTATGCTG
654990 AACGAGATTC
Statistics
Matches: 534, Mismatches: 78, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
84 70 0.13
85 391 0.73
86 73 0.14
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (85 bp):
TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
TCTTGGTTGACAGATAACCC
Found at i:656959 original size:21 final size:21
Alignment explanation
Indices: 656933--656975 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
656923 ATTAATTGTT
*
656933 TTATATATCTATAATAAATTA
1 TTATATATATATAATAAATTA
656954 TTATATATATATAATAAATTA
1 TTATATATATATAATAAATTA
656975 T
1 T
656976 GTTTTTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATATATATATAATAAATTA
Found at i:657066 original size:23 final size:26
Alignment explanation
Indices: 657050--657113 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
657040 ATAATTCTTA
657050 ATAATATTAAATTATAATTCATAAATAT
1 ATAATATTAAATTATAATTCAT--ATAT
* * *
657078 ATAATATTAAATTTTAATTAATAAAT
1 ATAATATTAAATTATAATTCATATAT
*
657104 AAAAT-TTAAA
1 ATAATATTAAA
657114 AATATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.16
26 7 0.22
28 20 0.62
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATATTAAATTATAATTCATATAT
Found at i:657083 original size:28 final size:28
Alignment explanation
Indices: 657050--657104 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
657040 ATAATTCTTA
*
657050 ATAATATTAAATTATAATTCATAAATAT
1 ATAATATTAAATTATAATTAATAAATAT
*
657078 ATAATATTAAATTTTAATTAATAAATA
1 ATAATATTAAATTATAATTAATAAATA
657105 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAATATTAAATTATAATTAATAAATAT
Found at i:657102 original size:14 final size:14
Alignment explanation
Indices: 657057--657103 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
657047 TTAATAATAT
*
657057 TAAATTATAATTCA
1 TAAATTATAATTAA
*
657071 TAAATATATAA-TAT
1 TAAAT-TATAATTAA
*
657085 TAAATTTTAATTAA
1 TAAATTATAATTAA
657099 TAAAT
1 TAAAT
657104 AAAATTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.15
14 18 0.67
15 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATTATAATTAA
Found at i:664906 original size:63 final size:63
Alignment explanation
Indices: 664807--664931 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 63
664797 TCTATGGTCC
* *
664807 CAGGAACAGCTATGTTGATAAGCTTGCTGCATGAAAGCAACTAAAAATGTCAACAAACATCAT
1 CAGGAACAGCTATGTTGATAAGCCTGCTGCATGAAAGCAACTAAAAACGTCAACAAACATCAT
*
664870 CAGGAACATCTATGTTGATAAGCCTGCTGCATGAAAGCAACTAAAAACGTCAACAAACATCA
1 CAGGAACAGCTATGTTGATAAGCCTGCTGCATGAAAGCAACTAAAAACGTCAACAAACATCA
664932 AATCATGATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (63 bp):
CAGGAACAGCTATGTTGATAAGCCTGCTGCATGAAAGCAACTAAAAACGTCAACAAACATCAT
Found at i:682185 original size:53 final size:53
Alignment explanation
Indices: 682115--682216 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
682105 AATGATATTG
* * * * *
682115 ATAGTTTGAGGATTGATATATAATATTTTAAAGTTTATAGATTAATTTAGGTC
1 ATAGTTTGAGGACTGATATACAATATTTTAAAATTTAAAGACTAATTTAGGTC
*
682168 ATAGTTTGGGGACTGATATACAATATTTTAAAATTTAAAGACTAATTTA
1 ATAGTTTGAGGACTGATATACAATATTTTAAAATTTAAAGACTAATTTA
682217 AATACAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (53 bp):
ATAGTTTGAGGACTGATATACAATATTTTAAAATTTAAAGACTAATTTAGGTC
Found at i:685932 original size:3 final size:3
Alignment explanation
Indices: 685924--685988 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
685914 TTAATATATT
* * *
685924 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAG TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
685972 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
685989 TTTATAATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:686500 original size:113 final size:113
Alignment explanation
Indices: 686317--687210 Score: 1619
Period size: 113 Copynumber: 7.9 Consensus size: 113
686307 AGAATTATGC
* * *
686317 AAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** * * * *
686382 TATGAACTTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATT-TGAGC
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAG-GT
** *
686430 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
686495 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
686543 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
686608 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
686656 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
686721 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
686769 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
686834 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGTT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
686882 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
686947 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
*
686995 AAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
687060 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
687108 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
687173 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGAT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGAT
687211 AGATTTGAAT
Statistics
Matches: 758, Mismatches: 22, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
113 757 1.00
114 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGT
Found at i:688084 original size:83 final size:83
Alignment explanation
Indices: 687945--688847 Score: 1523
Period size: 83 Copynumber: 10.9 Consensus size: 83
687935 GTAGTTCTTA
*
687945 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTTCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCA
688009 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
*
688028 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTTCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCA
688092 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
688111 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
688176 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
688194 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
688259 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
688277 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
688342 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
688360 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTTCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCA
688424 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
*
688443 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATC-TTCT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTC-
* * *
688506 AAATTCAAT-AGCTGGTTTTA
64 AAATTCAATGA-TTGGTTCTG
688526 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
* *
688591 TTTCAATGATTGGTTATG
66 ATTCAATGATTGGTTCTG
* *
688609 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGTACATTCATCTTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTT-CA
* * *
688674 AATTCAAT-AGCTGGTTTTA
65 AATTCAATGA-TTGGTTCTG
688693 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
*
688758 TTTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
688776 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGTACATTAATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
688841 ATTCAAT
66 ATTCAAT
688848 AACTCGTTTA
Statistics
Matches: 784, Mismatches: 26, Indels: 20
0.94 0.03 0.02
Matches are distributed among these distances:
82 8 0.01
83 694 0.89
84 82 0.10
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
ATTCAATGATTGGTTCTG
Found at i:689433 original size:16 final size:17
Alignment explanation
Indices: 689394--689439 Score: 67
Period size: 16 Copynumber: 2.6 Consensus size: 17
689384 TTCATAGAAG
689394 AATAAATTGAAATTTCGAA
1 AATAAATTG-AATTTC-AA
689413 AATAAATTGAATTTC-A
1 AATAAATTGAATTTCAA
689429 AATAAATTGAA
1 AATAAATTGAA
689440 CTTGAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.44
18 6 0.22
19 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (17 bp):
AATAAATTGAATTTCAA
Found at i:689447 original size:16 final size:16
Alignment explanation
Indices: 689412--689448 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
689402 GAAATTTCGA
*
689412 AAATAAATTGAATTTC
1 AAATAAATTGAACTTC
*
689428 AAATAAATTGAACTTG
1 AAATAAATTGAACTTC
689444 AAATA
1 AAATA
689449 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
AAATAAATTGAACTTC
Found at i:689794 original size:13 final size:13
Alignment explanation
Indices: 689771--689825 Score: 74
Period size: 13 Copynumber: 4.1 Consensus size: 13
689761 TTGACCTCCC
*
689771 CTTTTTCTTTTTTT
1 CTTTTT-TTTTCTT
*
689785 TTTTTTTTTTCTT
1 CTTTTTTTTTCTT
689798 CTTTTTTTTTCTT
1 CTTTTTTTTTCTT
689811 CATTTTTTTTTCTT
1 C-TTTTTTTTTCTT
689825 C
1 C
689826 AAGCATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 19 0.51
14 18 0.49
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (13 bp):
CTTTTTTTTTCTT
Found at i:689795 original size:18 final size:19
Alignment explanation
Indices: 689772--689807 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
689762 TGACCTCCCC
689772 TTTTTCTT-TTTTTTTTTT
1 TTTTTCTTCTTTTTTTTTT
689790 TTTTTCTTCTTTTTTTTT
1 TTTTTCTTCTTTTTTTTT
689808 CTTCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTTTT
Found at i:689826 original size:14 final size:14
Alignment explanation
Indices: 689786--689826 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
689776 TCTTTTTTTT
689786 TTTTTTTTTCTTC-
1 TTTTTTTTTCTTCA
689799 TTTTTTTTTCTTCA
1 TTTTTTTTTCTTCA
689813 TTTTTTTTTCTTCA
1 TTTTTTTTTCTTCA
689827 AGCATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTCTTCA
Found at i:700919 original size:9 final size:9
Alignment explanation
Indices: 700905--700944 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
700895 TTGTCTCTAT
700905 TATTAAAAA
1 TATTAAAAA
700914 TATTAAAAA
1 TATTAAAAA
700923 TATTAAAAA
1 TATTAAAAA
700932 T-TTAAAATA
1 TATTAAAA-A
700941 TATT
1 TATT
700945 TAATTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 6 0.21
9 21 0.72
10 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TATTAAAAA
Found at i:702538 original size:3 final size:3
Alignment explanation
Indices: 702530--702633 Score: 109
Period size: 3 Copynumber: 34.7 Consensus size: 3
702520 TTAATATATT
* * * * *
702530 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TTA TTA TTA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** *
702578 TAA TAA TAA TTA TTA TTA TTG TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
702626 TAA TAA TA
1 TAA TAA TA
702634 TTTATAATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:702638 original size:24 final size:24
Alignment explanation
Indices: 702530--702642 Score: 136
Period size: 24 Copynumber: 4.7 Consensus size: 24
702520 TTAATATATT
*
702530 TAATAATAATAATAATAATAATAA
1 TAATAATAATTATAATAATAATAA
* * * *
702554 TAATAATAATTATTATTATTATAG
1 TAATAATAATTATAATAATAATAA
* * **
702578 TAATAATAATTATTATTATTGTAA
1 TAATAATAATTATAATAATAATAA
702602 TAATAATAATTATAATAATAATAA
1 TAATAATAATTATAATAATAATAA
*
702626 TAATAATATTTATAATA
1 TAATAATAATTATAATA
702643 TGGGTAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAATAATAATTATAATAATAATAA
Found at i:707058 original size:22 final size:22
Alignment explanation
Indices: 707030--707071 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
707020 TACAACTCTC
*
707030 TAAAAAACCAGTTGGTATTTCA
1 TAAAAAAACAGTTGGTATTTCA
707052 TAAAAAAACAGTTGGTATTT
1 TAAAAAAACAGTTGGTATTT
707072 AAAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (22 bp):
TAAAAAAACAGTTGGTATTTCA
Found at i:712331 original size:4 final size:4
Alignment explanation
Indices: 712322--712346 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
712312 GAAAACGTTC
712322 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
712347 TCATAACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:713970 original size:29 final size:30
Alignment explanation
Indices: 713923--714004 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
713913 CCCGAAGGAC
* *
713923 CTATCCAGAGGTAACAAAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* *
713952 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* * *
713982 CTGTCCATAGGTCCCAAAGAACC
1 CTATCCAGAGGTCACAAAGAACC
714005 TAGGTAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 17 0.39
30 27 0.61
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGGCAA
Found at i:715376 original size:64 final size:63
Alignment explanation
Indices: 715243--715400 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 63
715233 TGAAGGTATG
* * * *
715243 CATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGGATG
1 CATCGATGCACTACA-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGAATA
* * *
715308 CATCGATGCACT-CATTATACATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TAAT
1 CATCGATGCACTACA-TATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGAAT
715371 A
63 A
* *
715372 CATCGATGCACTGCATGTGCATCGATGCA
1 CATCGATGCACTACATATGCATCGATGCA
715401 CCTTAAACAA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
64 56 0.70
65 21 0.26
66 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (63 bp):
CATCGATGCACTACATATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGAATA
Found at i:718681 original size:30 final size:30
Alignment explanation
Indices: 718618--718700 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
718608 CCCGAAGGAC
* *
718618 CTATCCAGAGGTCACAAAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
*
718647 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
718677 CTATCCATAGGTCCCAAAGAACCT
1 CTATCCAGAGGTCACAAAGAACCT
718701 AGGTAAACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 18 0.38
30 29 0.62
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.17
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:720060 original size:64 final size:62
Alignment explanation
Indices: 719927--720087 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 62
719917 TAATGAAGGT
* *
719927 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTATATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTATATTTAAT-GGA
* * *
719992 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATG-TTTATATTT-AATGGA
* *
720056 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
720088 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.68
65 23 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTATATTTAATGGA
Found at i:747006 original size:23 final size:24
Alignment explanation
Indices: 746959--747007 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
746949 TTAAATATAT
*
746959 ATTTTATAAAATTTATTTTTCAAA
1 ATTTTATAAAATTTACTTTTCAAA
*
746983 ATTTTA-AAAATTTAACTTTTAAAA
1 ATTTTATAAAATTT-ACTTTTCAAA
747007 A
1 A
747008 GATCAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTATAAAATTTACTTTTCAAA
Found at i:748860 original size:38 final size:39
Alignment explanation
Indices: 748787--748866 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 39
748777 ATACATAAAA
* *
748787 TTTAGTTATTGTTTCATTTTAGTGTCTCACTTTTAAAATT
1 TTTAGTTATTGTTTCATTTTAGTATCT-ACGTTTAAAATT
*
748827 TTTAGTTTTTGTTTCATTTTAGTATCT-CGTTTAAAATT
1 TTTAGTTATTGTTTCATTTTAGTATCTACGTTTAAAATT
748865 TT
1 TT
748867 AAATTTTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 12 0.32
40 25 0.68
ACGTcount: A:0.21, C:0.09, G:0.10, T:0.60
Consensus pattern (39 bp):
TTTAGTTATTGTTTCATTTTAGTATCTACGTTTAAAATT
Found at i:757158 original size:24 final size:24
Alignment explanation
Indices: 757131--757190 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
757121 GGTGACCACA
757131 ATGATGATGAAAATGATGATCAAG
1 ATGATGATGAAAATGATGATCAAG
** * * *
757155 ATGACAACGAAAATGATGGTCACG
1 ATGATGATGAAAATGATGATCAAG
757179 ATGATGATGAAA
1 ATGATGATGAAA
757191 TTGAAGATGG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.25, T:0.22
Consensus pattern (24 bp):
ATGATGATGAAAATGATGATCAAG
Found at i:757222 original size:27 final size:27
Alignment explanation
Indices: 757169--757224 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
757159 CAACGAAAAT
*
757169 GATGGTCACGATGATGATGAAATTGAA
1 GATGGTCACGATGATGACGAAATTGAA
* *
757196 GATGGTGAGGATGATGACGACAA-TGAA
1 GATGGTCACGATGATGACGA-AATTGAA
757223 GA
1 GA
757225 ACCGAGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (27 bp):
GATGGTCACGATGATGACGAAATTGAA
Found at i:759244 original size:2 final size:2
Alignment explanation
Indices: 759224--759261 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
759214 GTCCATTTCA
* *
759224 AT AT A- AT AC AT AC 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 AT AT AT A
759262 ATCATTTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:763481 original size:21 final size:21
Alignment explanation
Indices: 763439--763479 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
763429 TACCAATAGA
* *
763439 TTTTTAATTATAGTTTTAAAT
1 TTTTTAATTATAATTATAAAT
763460 TTTTTAATTATTAATTATAA
1 TTTTTAATTA-TAATTATAA
763480 TTATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTAATTATAATTATAAAT
Found at i:764949 original size:15 final size:16
Alignment explanation
Indices: 764929--764961 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
764919 TAAATTTAAG
764929 TTTAGGAATTATC-TT
1 TTTAGGAATTATCGTT
*
764944 TTTAGGATTTATCGTT
1 TTTAGGAATTATCGTT
764960 TT
1 TT
764962 GTATTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTAGGAATTATCGTT
Found at i:769640 original size:16 final size:16
Alignment explanation
Indices: 769619--769683 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
769609 TAATAAATAA
769619 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
769635 ACGAACATAAGCGAAC
1 ACGAACATAAACGAAC
* *
769651 ACGAACATAAATGAGC
1 ACGAACATAAACGAAC
769667 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
769683 A
1 A
769684 TAAATGTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.54, C:0.23, G:0.15, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:769861 original size:13 final size:13
Alignment explanation
Indices: 769845--769869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
769835 ATATAATATT
769845 GAAACTCGAACTC
1 GAAACTCGAACTC
769858 GAAACTCGAACT
1 GAAACTCGAACT
769870 AAAAAAATGA
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:0.40, C:0.28, G:0.16, T:0.16
Consensus pattern (13 bp):
GAAACTCGAACTC
Found at i:769942 original size:23 final size:23
Alignment explanation
Indices: 769881--769969 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
769871 AAAAAATGAA
* * **
769881 GAGCTCGATTAAAACTCGAGACT
1 GAGCTCGATTCAAGCTCGATTCT
*
769904 CGAGCTCGATTGAAGCTCGATTCT
1 -GAGCTCGATTCAAGCTCGATTCT
* *
769928 GAGCTCTATTCAAGCTCAATTCT
1 GAGCTCGATTCAAGCTCGATTCT
*
769951 GAGCTCGATTTAAGCTCGA
1 GAGCTCGATTCAAGCTCGA
769970 CATTGCCCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 36 0.65
24 19 0.35
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCGATTCT
Found at i:770856 original size:14 final size:14
Alignment explanation
Indices: 770839--770884 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
770829 AATGAACATA
*
770839 AACGAACATAATCG
1 AACGAACATAACCG
770853 AACGAACATAACCG
1 AACGAACATAACCG
*
770867 AATGAACATAACCG
1 AACGAACATAACCG
770881 AACG
1 AACG
770885 TTCACGAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.50, C:0.24, G:0.15, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:770859 original size:24 final size:24
Alignment explanation
Indices: 770819--770868 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
770809 GATTGGGTTA
*
770819 AACATAAATGAATGAACATAAACG
1 AACATAAATGAACGAACATAAACG
*
770843 AACAT-AATCGAACGAACATAACCG
1 AACATAAAT-GAACGAACATAAACG
770867 AA
1 AA
770869 TGAACATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:771485 original size:21 final size:21
Alignment explanation
Indices: 771442--771485 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
771432 TTTAATGCGA
**
771442 TTAGTACCTAAACTATCCGTT
1 TTAGTACCTAAACTATCAATT
*
771463 TTAGTACCTAAACTTTCAATT
1 TTAGTACCTAAACTATCAATT
771484 TT
1 TT
771486 TTTAAAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (21 bp):
TTAGTACCTAAACTATCAATT
Found at i:773409 original size:17 final size:17
Alignment explanation
Indices: 773387--773419 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
773377 CAAGATCATA
773387 ATATTAT-TTTTCATATT
1 ATATTATGTTTT-ATATT
773404 ATATTATGTTTTATAT
1 ATATTATGTTTTATAT
773420 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
ATATTATGTTTTATATT
Found at i:775083 original size:71 final size:71
Alignment explanation
Indices: 774967--775121 Score: 267
Period size: 71 Copynumber: 2.2 Consensus size: 71
774957 ACACACAAAG
* *
774967 AAGGGATCGATTTTATTTCACATGGATCGACCATTTGTAAAATAGTGAGTTTGGGATCAATCCTT
1 AAGGGATCGATTTTATTTCACAGGGATCGACCATTTGTAAAATAGTGAGTTTGGGATCAATCATT
775032 CTAGGC
66 CTAGGC
**
775038 AAGGGATCGATTTTATTTCATGGGGATCGACCATTTGTAAAATAGTGAGTTTGGGATCAATCATT
1 AAGGGATCGATTTTATTTCACAGGGATCGACCATTTGTAAAATAGTGAGTTTGGGATCAATCATT
775103 CTAGGC
66 CTAGGC
775109 AAGGGATC-ATTTT
1 AAGGGATCGATTTT
775122 TTTTTAATAG
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
70 5 0.06
71 75 0.94
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (71 bp):
AAGGGATCGATTTTATTTCACAGGGATCGACCATTTGTAAAATAGTGAGTTTGGGATCAATCATT
CTAGGC
Found at i:780302 original size:28 final size:27
Alignment explanation
Indices: 780271--780374 Score: 77
Period size: 28 Copynumber: 3.6 Consensus size: 27
780261 TTGTAGATAA
780271 TATTAATAAACATTATACGTGTTTAAAT
1 TATTAAT-AACATTATACGTGTTTAAAT
** * *
780299 TATTAATTAATTTTATA-AT-TTAAAAAACCT
1 TATTAA-TAACATTATACGTGTT--TAAA--T
*
780329 CTAATTAATAACATTATATGTGTTTAAAT
1 -TA-TTAATAACATTATACGTGTTTAAAT
780358 TATTAATAACATTATAC
1 TATTAATAACATTATAC
780375 ATATTAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 19
0.67 0.10 0.22
Matches are distributed among these distances:
26 2 0.03
27 15 0.26
28 18 0.31
29 2 0.03
30 1 0.02
31 13 0.22
32 5 0.09
33 2 0.03
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (27 bp):
TATTAATAACATTATACGTGTTTAAAT
Found at i:780758 original size:2 final size:2
Alignment explanation
Indices: 780751--780817 Score: 95
Period size: 2 Copynumber: 35.0 Consensus size: 2
780741 TTCATTGATT
* *
780751 TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA GA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
780792 TA TA TA TA T- TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
780818 CCAAAACATA
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
1 3 0.05
2 56 0.95
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:785367 original size:13 final size:13
Alignment explanation
Indices: 785349--785374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
785339 ACAGACGCGC
785349 ATATGAAGACTGT
1 ATATGAAGACTGT
785362 ATATGAAGACTGT
1 ATATGAAGACTGT
785375 TCAATTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTGT
Found at i:785958 original size:21 final size:22
Alignment explanation
Indices: 785916--785963 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
785906 TATATATAAT
**
785916 ATAAAAATGACACCAT-TTAAA
1 ATAAAAATGACACCATAAAAAA
* *
785937 ATAAAATTGGCACCATAAAAAA
1 ATAAAAATGACACCATAAAAAA
785959 ATAAA
1 ATAAA
785964 TTAATCTCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (22 bp):
ATAAAAATGACACCATAAAAAA
Found at i:786466 original size:13 final size:13
Alignment explanation
Indices: 786448--786473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
786438 ACAGACGCGC
786448 ATATGAAGACTGT
1 ATATGAAGACTGT
786461 ATATGAAGACTGT
1 ATATGAAGACTGT
786474 TCAATTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTGT
Found at i:787057 original size:21 final size:22
Alignment explanation
Indices: 787015--787062 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
787005 TATATATAAT
**
787015 ATAAAAATGACACCAT-TTAAA
1 ATAAAAATGACACCATAAAAAA
* *
787036 ATAAAATTGGCACCATAAAAAA
1 ATAAAAATGACACCATAAAAAA
787058 ATAAA
1 ATAAA
787063 TTAATCTCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (22 bp):
ATAAAAATGACACCATAAAAAA
Found at i:794182 original size:60 final size:59
Alignment explanation
Indices: 794046--794187 Score: 162
Period size: 59 Copynumber: 2.4 Consensus size: 59
794036 AAACTGCAAG
* * * *
794046 ATTCAAAATTTTGAGAACCAATTTAGAATGAGGGTCATAGTTTGAGATAAAATTATAAT
1 ATTCAAAATTTTAAGGACCAATTTAGAATGAGAGTCATAGTTTGAGATAAAATTAGAAT
* * * *
794105 GTTCAAAATTTTAAGGACTAATTTAGAATG-GAAGTCATAGTTT-ATGGATTAAATTGGAAT
1 ATTCAAAATTTTAAGGACCAATTTAGAATGAG-AGTCATAGTTTGA--GATAAAATTAGAAT
*
794165 ATTCAAAATTATAAGGACCAATT
1 ATTCAAAATTTTAAGGACCAATT
794188 CAAAATAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
58 2 0.03
59 36 0.52
60 31 0.45
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.35
Consensus pattern (59 bp):
ATTCAAAATTTTAAGGACCAATTTAGAATGAGAGTCATAGTTTGAGATAAAATTAGAAT
Found at i:802460 original size:2 final size:2
Alignment explanation
Indices: 802416--802442 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
802406 TTTTAATAAT
802416 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
802443 TTTTACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:806158 original size:56 final size:56
Alignment explanation
Indices: 806092--806334 Score: 328
Period size: 56 Copynumber: 4.3 Consensus size: 56
806082 CCCTATTTTT
* *
806092 TAGATATATTCGATTTCGGGGTCC-CTATTTTTATGCTTCTTAATGGCAATAACTAA
1 TAGATATATTCGATTTCGGGG-CCTCTATTTTTATGCTTCTTAATGGCAACAACTGA
* *
806148 TACATATATTCGATTTCGGGGCCTCTATTTTTATGCTTCTTAATGGCAACAATTGA
1 TAGATATATTCGATTTCGGGGCCTCTATTTTTATGCTTCTTAATGGCAACAACTGA
* * * *
806204 TATATATATTCGATTTCGGTGCCTCTATTTTTATGTTTCTTAATGGCAACAACCGA
1 TAGATATATTCGATTTCGGGGCCTCTATTTTTATGCTTCTTAATGGCAACAACTGA
* ** * *
806260 TAGATATACTCGATTTCGAAGCC-CTTATTTTTATGCTTATTAATAGCAACAACTGA
1 TAGATATATTCGATTTCGGGGCCTC-TATTTTTATGCTTCTTAATGGCAACAACTGA
*
806316 TAGATATACTCGATTTCGG
1 TAGATATATTCGATTTCGG
806335 ACTCTTATTT
Statistics
Matches: 167, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
55 3 0.02
56 164 0.98
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (56 bp):
TAGATATATTCGATTTCGGGGCCTCTATTTTTATGCTTCTTAATGGCAACAACTGA
Found at i:809518 original size:23 final size:24
Alignment explanation
Indices: 809475--809520 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
809465 AGAATTTGAG
809475 GTTTTTTATAATTTTAGAAAATAGA
1 GTTTTTTATAA-TTTAGAAAATAGA
*
809500 GTTTTTTATAA-TTATAAAATA
1 GTTTTTTATAATTTAGAAAATA
809521 AGCGTCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (24 bp):
GTTTTTTATAATTTAGAAAATAGA
Found at i:811716 original size:585 final size:584
Alignment explanation
Indices: 810607--811775 Score: 2329
Period size: 585 Copynumber: 2.0 Consensus size: 584
810597 TTGACATCCA
810607 TTTTATTACAATACTCAATGTCATTAATCATTGTATCAAGTTTATGAACGTCTTCTTTAGTAGTT
1 TTTTATTACAATACTCAATGTCATTAATCATTGTATCAAGTTTATGAACGTCTTCTTTAGTAGTT
810672 ACTTTATTTAAATTCCTTGAGGCTATTGCATCTTGCGAACGGATTTTACAGTGTCGAAAACAATT
66 ACTTTATTTAAATTCCTTGAGGCTATTGCATCTTGCGAACGGATTTTACAGTGTCGAAAACAATT
810737 TGCTATTGACCCTTGCTTGAGCATTTATCATCTAAGTTGAGACTGCAAGAATTACAACATCAAAA
131 TGCTATTGACCCTTGCTTGAGCATTTATCATCTAAGTTGAGACTGCAAGAATTACAACATCAAAA
810802 ATATTAGTCTTTTATGATTAGATTCGACTCCCAACTCATAGTCCTCTGATATCCTACAATAATTT
196 ATATTAGTCTTTTATGATTAGATTCGACTCCCAACTCATAGTCCTCTGATATCCTACAATAATTT
810867 TTTTTTTTATAATAGTGCATCTTGAAAGTTCTTATTACTCCTATATCACATGGTTAGATTTTTTA
261 TTTTTTTTATAATAGTGCATCTTGAAAGTTCTTATTACTCCTATATCACATGGTTAGATTTTTTA
810932 TGTCATCTTGAAAGTTCCTATTATCCTCAATAGTCCTCTAATAGTCATGATTGGTTGGTTTTGAT
326 TGTCATCTTGAAAGTTCCTATTATCCTCAATAGTCCTCTAATAGTCATGATTGGTTGGTTTTGAT
810997 TTGAATTGATTTATAAAATGTTTGATGTTGTTTATATAGGGGTTGATTTCTTTACCATACATGAA
391 TTGAATTGATTTATAAAATGTTTGATGTTGTTTATATAGGGGTTGATTTCTTTACCATACATGAA
811062 CTTGCATTTAATGTCATTTTGAAAGTTCTTATTACCCCAAATCATAGCCCTATAATAACCATGGT
456 CTTGCATTTAATGTCATTTTGAAAGTTCTTATTACCCCAAATCATAGCCCTATAATAACCATGGT
811127 TCGTTGGTTTTGATTTAAACTGGCTAATCATAAATGTTTTAACTAGTACTACGTACTACTAAGG
521 TCGTTGGTTTTGATTTAAACTGGCTAATCATAAATGTTTTAACTAGTACTACGTACTACTAAGG
811191 TTTTATTACAATACTCAATGTCATTAATCATTGTATCAAGTTTATGAACGTCTTCTTTAGTAGTT
1 TTTTATTACAATACTCAATGTCATTAATCATTGTATCAAGTTTATGAACGTCTTCTTTAGTAGTT
811256 ACTTTATTTAAATTCCTTGAGGCTATTGCATCTTGCGAACGGATTTTACAGTGTCGAAAACAATT
66 ACTTTATTTAAATTCCTTGAGGCTATTGCATCTTGCGAACGGATTTTACAGTGTCGAAAACAATT
811321 TGCTATTGACCCTTGCTTGAGCATTTATCATCTAAGTTGAGACTGCAAGAATTACAACATCAAAA
131 TGCTATTGACCCTTGCTTGAGCATTTATCATCTAAGTTGAGACTGCAAGAATTACAACATCAAAA
811386 ATATTAGTCTTTTATGGATTAGATTCGACTCCCAACTCATAGTCCTCTGATATCCTACAATAATT
196 ATATTAGTCTTTTAT-GATTAGATTCGACTCCCAACTCATAGTCCTCTGATATCCTACAATAATT
811451 TTTTTTTTTATAATAGTGCATCTTGAAAGTTCTTATTACTCCTATATCACATGGTTAGATTTTTT
260 TTTTTTTTTATAATAGTGCATCTTGAAAGTTCTTATTACTCCTATATCACATGGTTAGATTTTTT
811516 ATGTCATCTTGAAAGTTCCTATTATCCTCAATAGTCCTCTAATAGTCATGATTGGTTGGTTTTGA
325 ATGTCATCTTGAAAGTTCCTATTATCCTCAATAGTCCTCTAATAGTCATGATTGGTTGGTTTTGA
811581 TTTGAATTGATTTATAAAATGTTTGATGTTGTTTATATAGGGGTTGATTTCTTTACCATACATGA
390 TTTGAATTGATTTATAAAATGTTTGATGTTGTTTATATAGGGGTTGATTTCTTTACCATACATGA
811646 ACTTGCATTTAATGTCATTTTGAAAGTTCTTATTACCCCAAATCATAGCCCTATAATAACCATGG
455 ACTTGCATTTAATGTCATTTTGAAAGTTCTTATTACCCCAAATCATAGCCCTATAATAACCATGG
811711 TTCGTTGGTTTTGATTTAAACTGGCTAATCATAAATGTTTTAACTAGTACTACGTACTACTAAGG
520 TTCGTTGGTTTTGATTTAAACTGGCTAATCATAAATGTTTTAACTAGTACTACGTACTACTAAGG
811776 GTTCTTAATG
Statistics
Matches: 584, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
584 210 0.36
585 374 0.64
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (584 bp):
TTTTATTACAATACTCAATGTCATTAATCATTGTATCAAGTTTATGAACGTCTTCTTTAGTAGTT
ACTTTATTTAAATTCCTTGAGGCTATTGCATCTTGCGAACGGATTTTACAGTGTCGAAAACAATT
TGCTATTGACCCTTGCTTGAGCATTTATCATCTAAGTTGAGACTGCAAGAATTACAACATCAAAA
ATATTAGTCTTTTATGATTAGATTCGACTCCCAACTCATAGTCCTCTGATATCCTACAATAATTT
TTTTTTTTATAATAGTGCATCTTGAAAGTTCTTATTACTCCTATATCACATGGTTAGATTTTTTA
TGTCATCTTGAAAGTTCCTATTATCCTCAATAGTCCTCTAATAGTCATGATTGGTTGGTTTTGAT
TTGAATTGATTTATAAAATGTTTGATGTTGTTTATATAGGGGTTGATTTCTTTACCATACATGAA
CTTGCATTTAATGTCATTTTGAAAGTTCTTATTACCCCAAATCATAGCCCTATAATAACCATGGT
TCGTTGGTTTTGATTTAAACTGGCTAATCATAAATGTTTTAACTAGTACTACGTACTACTAAGG
Found at i:812394 original size:30 final size:30
Alignment explanation
Indices: 812354--812422 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
812344 TATTATATTT
812354 AATTAGTCACATTATACATGAACATCATTC
1 AATTAGTCACATTATACATGAACATCATTC
* * * *
812384 AATTATTCACATTCTACATGAATATCATTT
1 AATTAGTCACATTATACATGAACATCATTC
812414 AATTAGTCA
1 AATTAGTCA
812423 ATATAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (30 bp):
AATTAGTCACATTATACATGAACATCATTC
Found at i:812577 original size:2 final size:2
Alignment explanation
Indices: 812570--812599 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
812560 AAAGTTTTAT
812570 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
812600 ATCCACTTAC
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
Done.