Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 65
Found at i:611992 original size:23 final size:22
Alignment explanation
Indices: 611959--612009 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
611949 AATTATGTTA
*
611959 TTTT-ATGAAAAATTTTAAGCC
1 TTTTCATGAAAAATGTTAAGCC
*
611980 TTTTCATGAAAAAATGTTAATCC
1 TTTTCATG-AAAAATGTTAAGCC
*
612003 CTTTCAT
1 TTTTCAT
612010 AAAGGAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.16
22 3 0.12
23 18 0.72
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (22 bp):
TTTTCATGAAAAATGTTAAGCC
Found at i:613528 original size:9 final size:9
Alignment explanation
Indices: 613514--613564 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
613504 AGCATTTAAA
613514 ACCGGTTTG
1 ACCGGTTTG
613523 ACCGGTTTTG
1 ACCGG-TTTG
613533 AACCGGTTTG
1 -ACCGGTTTG
*
613543 ACAGGTTTG
1 ACCGGTTTG
*
613552 ATCGGTTTCG
1 ACCGGTTT-G
613562 ACC
1 ACC
613565 CGACCCGACC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 19 0.54
10 11 0.31
11 5 0.14
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:613536 original size:20 final size:20
Alignment explanation
Indices: 613513--613550 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
613503 AAGCATTTAA
*
613513 AACCGGTTTGACCGGTTTTG
1 AACCGGTTTGACAGGTTTTG
613533 AACCGGTTTGACAGGTTT
1 AACCGGTTTGACAGGTTT
613551 GATCGGTTTC
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:0.18, C:0.18, G:0.29, T:0.34
Consensus pattern (20 bp):
AACCGGTTTGACAGGTTTTG
Found at i:613586 original size:17 final size:17
Alignment explanation
Indices: 613564--613652 Score: 135
Period size: 17 Copynumber: 5.1 Consensus size: 17
613554 CGGTTTCGAC
613564 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
613581 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
613598 CCGACCCGGA-CCGTTGA
1 CCGACCC-GACCCGTTGA
*
613615 CCCGACCCGATCCGTTGA
1 -CCGACCCGACCCGTTGA
613633 CCCGACCCGACCCGTTGA
1 -CCGACCCGACCCGTTGA
613651 CC
1 CC
613653 ATTGACTTGA
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 35 0.51
18 33 0.49
ACGTcount: A:0.17, C:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
CCGACCCGACCCGTTGA
Found at i:613619 original size:18 final size:18
Alignment explanation
Indices: 613561--613652 Score: 145
Period size: 18 Copynumber: 5.2 Consensus size: 18
613551 GATCGGTTTC
613561 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
613579 GA-CCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
613596 GA-CCGACCCGGA-CCGTT
1 GACCCGACCC-GACCCGTT
*
613613 GACCCGACCCGATCCGTT
1 GACCCGACCCGACCCGTT
613631 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
613649 GACC
1 GACC
613653 ATTGACTTGA
Statistics
Matches: 70, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 33 0.47
18 37 0.53
ACGTcount: A:0.17, C:0.47, G:0.24, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:613805 original size:82 final size:83
Alignment explanation
Indices: 613667--613822 Score: 246
Period size: 82 Copynumber: 1.9 Consensus size: 83
613657 ACTTGAGTGC
* *
613667 TAGTTTTGTAAATATTTTTTATAAGGTTGTCTTATCTGTAATTAATTTCTGTTAGGGTGATATTT
1 TAGTTTTGTAAATATTTTTTAAAAGGTTGTCTTATCTGTAATTAATTTCTGTTAGGGTGATAATT
613732 ATGTAAAACCTAGGGTGT
66 ATGTAAAACCTAGGGTGT
613750 TAGTTTTGTAAATA-TTTTTAAAATGG-TGT-TTAATCTGTAATTAATTTCTGTTAGGGTGATAA
1 TAGTTTTGTAAATATTTTTTAAAA-GGTTGTCTT-ATCTGTAATTAATTTCTGTTAGGGTGATAA
*
613812 TTGTGTAAAAC
64 TTATGTAAAAC
613823 AGTTGACCTT
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
81 2 0.03
82 50 0.74
83 16 0.24
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (83 bp):
TAGTTTTGTAAATATTTTTTAAAAGGTTGTCTTATCTGTAATTAATTTCTGTTAGGGTGATAATT
ATGTAAAACCTAGGGTGT
Found at i:617355 original size:31 final size:31
Alignment explanation
Indices: 617317--617469 Score: 225
Period size: 31 Copynumber: 4.9 Consensus size: 31
617307 CCGAAGGAAT
* *
617317 AGTCCATATGTTCCAAAGAACATAGGTAATC
1 AGTCCATATGTCCCGAAGAACATAGGTAATC
* * * *
617348 AGTCCATATATCCCGAAGAACACATGTAATA
1 AGTCCATATGTCCCGAAGAACATAGGTAATC
*
617379 AGTCCATATGTCCCGAAGAACATATGTAATC
1 AGTCCATATGTCCCGAAGAACATAGGTAATC
*
617410 AGTCCATATATCCCGAAGAACATAGGTAATC
1 AGTCCATATGTCCCGAAGAACATAGGTAATC
*
617441 AGTCAATATGTCCCGAAGAACATAGGTAA
1 AGTCCATATGTCCCGAAGAACATAGGTAA
617470 CACTCGACTC
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (31 bp):
AGTCCATATGTCCCGAAGAACATAGGTAATC
Found at i:618626 original size:30 final size:31
Alignment explanation
Indices: 618569--618626 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
618559 CAATCATTCA
* * *
618569 CAACTTTTCCAAAATTGCTAAATTGGTCCCC
1 CAACTTTTCAAAAATTACTAAAATGGTCCCC
618600 CAACTTTTCAAAAATTAC-AAAATGGTC
1 CAACTTTTCAAAAATTACTAAAATGGTC
618627 TTTGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (31 bp):
CAACTTTTCAAAAATTACTAAAATGGTCCCC
Found at i:620459 original size:23 final size:24
Alignment explanation
Indices: 620411--620459 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
620401 TTCTTTTATG
* * *
620411 AAAAATGTTTAGTCTTTTCATGAA
1 AAAAATGTTAAGCCCTTTCATGAA
620435 AAAAATGTTAAGCCCTTTCAT-AA
1 AAAAATGTTAAGCCCTTTCATGAA
620458 AA
1 AA
620460 GGAGTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (24 bp):
AAAAATGTTAAGCCCTTTCATGAA
Found at i:620473 original size:21 final size:21
Alignment explanation
Indices: 620449--620498 Score: 50
Period size: 21 Copynumber: 2.3 Consensus size: 21
620439 ATGTTAAGCC
620449 CTTTCAT-AAAAGGAGTTAAG-T
1 CTTTCATCAAAA-G-GTTAAGTT
*
620470 CTTTTAATCAAAAGGTTAAGTT
1 C-TTTCATCAAAAGGTTAAGTT
620492 CTTTCAT
1 CTTTCAT
620499 TGAAAGATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 12 0.50
22 8 0.33
23 4 0.17
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (21 bp):
CTTTCATCAAAAGGTTAAGTT
Found at i:623182 original size:10 final size:10
Alignment explanation
Indices: 623162--623229 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
623152 AAGGAAAAAG
623162 TGACC-GTTT
1 TGACCGGTTT
623171 TGACCGGTTT
1 TGACCGGTTT
* *
623181 TGGAACTGTTT
1 T-GACCGGTTT
623192 TGACCGGTTT
1 TGACCGGTTT
* *
623202 TGGAACTGTTT
1 T-GACCGGTTT
*
623213 TGACCTG-TT
1 TGACCGGTTT
623222 TGACCGGT
1 TGACCGGT
623230 CATAACCCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 13 0.28
10 18 0.38
11 16 0.34
ACGTcount: A:0.13, C:0.18, G:0.28, T:0.41
Consensus pattern (10 bp):
TGACCGGTTT
Found at i:623193 original size:11 final size:11
Alignment explanation
Indices: 623177--623214 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
623167 GTTTTGACCG
623177 GTTTTGGAACT
1 GTTTTGGAACT
* *
623188 GTTTT-GACCG
1 GTTTTGGAACT
623198 GTTTTGGAACT
1 GTTTTGGAACT
623209 GTTTTG
1 GTTTTG
623215 ACCTGTTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.13, C:0.11, G:0.29, T:0.47
Consensus pattern (11 bp):
GTTTTGGAACT
Found at i:623193 original size:21 final size:21
Alignment explanation
Indices: 623167--623222 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
623157 AAAAGTGACC
623167 GTTTTGACCGGTTTTGGAACT
1 GTTTTGACCGGTTTTGGAACT
623188 GTTTTGACCGGTTTTGGAACT
1 GTTTTGACCGGTTTTGGAACT
*
623209 GTTTTGACCTGTTT
1 GTTTTGACCGGTTT
623223 GACCGGTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.12, C:0.14, G:0.27, T:0.46
Consensus pattern (21 bp):
GTTTTGACCGGTTTTGGAACT
Found at i:623257 original size:18 final size:18
Alignment explanation
Indices: 623234--623292 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
623224 ACCGGTCATA
623234 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
623252 ACCCGAGCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
623270 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
623288 ACCCG
1 ACCCG
623293 TTGACCGTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.17, C:0.47, G:0.24, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:623290 original size:8 final size:8
Alignment explanation
Indices: 623279--623325 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
623269 GACCCGACCC
623279 GACCCGTT
1 GACCCGTT
623287 GACCCGTT
1 GACCCGTT
623295 GA-CCGTT
1 GACCCGTT
623302 GACCGGCGTT
1 GACC--CGTT
623312 GACCACTGTT
1 GACC-C-GTT
623322 GACC
1 GACC
623326 AAAACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:623302 original size:15 final size:16
Alignment explanation
Indices: 623282--623315 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
623272 CCGACCCGAC
623282 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
623297 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
623314 CC
1 CC
623316 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:625798 original size:24 final size:24
Alignment explanation
Indices: 625680--625795 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
625670 TTCGATTTGA
625680 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
625704 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
* *
625728 ATTCTGATCTGGTACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
625752 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
625776 ATTTTGATCTGATACTTGAC
1 ATTCTGATCTGATACTTGAC
625796 CTGATTTATG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:626016 original size:2 final size:2
Alignment explanation
Indices: 626009--626033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
625999 TGGATGGGGG
626009 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
626034 TTTAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:633797 original size:20 final size:20
Alignment explanation
Indices: 633772--633810 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
633762 TACTATGGTG
633772 GAATTTGATGTTAGAATGTT
1 GAATTTGATGTTAGAATGTT
*
633792 GAATTTGGTGTTAGAATGT
1 GAATTTGATGTTAGAATGT
633811 GAAACTGGAT
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:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (20 bp):
GAATTTGATGTTAGAATGTT
Found at i:634636 original size:16 final size:17
Alignment explanation
Indices: 634612--634644 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
634602 TGATTCAAAA
634612 GGGAATAAAAA-ATTAT
1 GGGAATAAAAAGATTAT
*
634628 GGGATTAAAAAGATTAT
1 GGGAATAAAAAGATTAT
634645 CGTAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (17 bp):
GGGAATAAAAAGATTAT
Found at i:635407 original size:26 final size:26
Alignment explanation
Indices: 635377--635456 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
635367 GTGTTTGTAC
635377 GAAAAATAGATCATGAAAGTGAATAT
1 GAAAAATAGATCATGAAAGTGAATAT
*
635403 G--AAA-A-CTC-TGAAATGTGTCTAA-AT
1 GAAAAATAGATCATGAAA-GTG---AATAT
635427 GAAAAATAGATCATGAAAGTGAATAT
1 GAAAAATAGATCATGAAAGTGAATAT
635453 GAAA
1 GAAA
635457 GCTCTGAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 1 0.02
24 6 0.14
25 4 0.10
26 10 0.24
27 1 0.02
28 5 0.12
29 5 0.12
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.24
Consensus pattern (26 bp):
GAAAAATAGATCATGAAAGTGAATAT
Found at i:637528 original size:2 final size:2
Alignment explanation
Indices: 637516--637548 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
637506 TTAAAGAAGA
637516 AT AT GAT 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
637549 CTTTGCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:640345 original size:14 final size:14
Alignment explanation
Indices: 640328--640506 Score: 62
Period size: 14 Copynumber: 12.3 Consensus size: 14
640318 GAGAAAAAGT
640328 GAGAGAGAGAGGGA
1 GAGAGAGAGAGGGA
*
640342 GAGAGGGAGAGCAGGA
1 GAGAGAGAGAG--GGA
**
640358 GAGAGTCAGAGGGA
1 GAGAGAGAGAGGGA
* *
640372 G-G-GATAGGGGGA
1 GAGAGAGAGAGGGA
**
640384 GAGAGATG-GAAAGA
1 GAGAGA-GAGAGGGA
* *
640398 GATA-AGAAGAGAGA
1 GAGAGAG-AGAGGGA
* * *
640412 GATAGAGGGAGGGG
1 GAGAGAGAGAGGGA
*
640426 GAGTTAGAGAGGGGGA
1 GAG--AGAGAGAGGGA
*
640442 GAGAG-GAAGTGGGA
1 GAGAGAG-AGAGGGA
*
640456 GAGAGGGAGAGCAAGGGG
1 GAGA--GAGAG--AGGGA
* *
640474 GAGAGGGGAGAGGGG
1 GAGA-GAGAGAGGGA
640489 GAGAGAGAGAGGGA
1 GAGAGAGAGAGGGA
640503 GAGA
1 GAGA
640507 AATATATATA
Statistics
Matches: 124, Mismatches: 25, Indels: 32
0.69 0.14 0.18
Matches are distributed among these distances:
12 9 0.07
13 4 0.03
14 61 0.49
15 11 0.09
16 26 0.21
17 6 0.05
18 7 0.06
ACGTcount: A:0.37, C:0.02, G:0.56, T:0.04
Consensus pattern (14 bp):
GAGAGAGAGAGGGA
Found at i:640463 original size:8 final size:8
Alignment explanation
Indices: 640431--640506 Score: 61
Period size: 8 Copynumber: 9.6 Consensus size: 8
640421 AGGGGGAGTT
640431 AGAGAGGG
1 AGAGAGGG
*
640439 GGAGAGAGG
1 AGAGAG-GG
*
640448 A-AGTGGG
1 AGAGAGGG
640455 AGAGAGGG
1 AGAGAGGG
640463 AGAGCAAGGG
1 AGAG--AGGG
*
640473 GGAGAGGG
1 AGAGAGGG
640481 -GAGAGGG
1 AGAGAGGG
*
640488 -G-GAGAG
1 AGAGAGGG
640494 AGAGAGGG
1 AGAGAGGG
640502 AGAGA
1 AGAGA
640507 AATATATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
6 4 0.07
7 12 0.22
8 30 0.55
9 2 0.04
10 7 0.13
ACGTcount: A:0.36, C:0.01, G:0.62, T:0.01
Consensus pattern (8 bp):
AGAGAGGG
Found at i:640502 original size:27 final size:28
Alignment explanation
Indices: 640431--640505 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
640421 AGGGGGAGTT
640431 AGAGAGGG-G-GAGAGA-GGA-AGTGGG
1 AGAGAGGGAGAGAGAGAGGGAGAGTGGG
*
640455 AGAGAGGGAGAGCA-AGGGGGAGAG-GGG
1 AGAGAGGGAGAG-AGAGAGGGAGAGTGGG
*
640482 AGAGGGGGAGAGAGAGAGGGAGAG
1 AGAGAGGGAGAGAGAGAGGGAGAG
640506 AAATATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
24 8 0.19
25 1 0.02
26 4 0.10
27 27 0.64
28 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.63, T:0.01
Consensus pattern (28 bp):
AGAGAGGGAGAGAGAGAGGGAGAGTGGG
Found at i:641046 original size:28 final size:28
Alignment explanation
Indices: 640994--641048 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
640984 AGTGTTGTAT
*
640994 CATTTATGCCACTGAACTTTCATTTTTA
1 CATTTATGCCACTGAACTTACATTTTTA
* * *
641022 CATTTATGGCATTGAACTTAGATTTTT
1 CATTTATGCCACTGAACTTACATTTTT
641049 GTTTCAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
CATTTATGCCACTGAACTTACATTTTTA
Found at i:641375 original size:16 final size:17
Alignment explanation
Indices: 641354--641397 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
641344 TAATAGTATC
641354 TTAGTATTTTTATT-TT
1 TTAGTATTTTTATTGTT
* *
641370 TTAGTAATTTAATTGTT
1 TTAGTATTTTTATTGTT
641387 TTAGTATTTTT
1 TTAGTATTTTT
641398 TATATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TTAGTATTTTTATTGTT
Found at i:641405 original size:17 final size:16
Alignment explanation
Indices: 641354--641406 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
641344 TAATAGTATC
*
641354 TTAGTATTTTTATTTT
1 TTAGTATTTTTATATT
* * *
641370 TTAGTAATTTAATTGTT
1 TTAGTATTTTTA-TATT
641387 TTAGTATTTTTTATATT
1 TTAGTA-TTTTTATATT
641404 TTA
1 TTA
641407 AAGTATTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 10 0.34
17 15 0.52
18 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.68
Consensus pattern (16 bp):
TTAGTATTTTTATATT
Found at i:642603 original size:22 final size:22
Alignment explanation
Indices: 642578--642700 Score: 153
Period size: 22 Copynumber: 5.4 Consensus size: 22
642568 ATATTGTACG
642578 ATATATATATATAGTTTTGAGAA
1 ATATATATATATAGTTTTGA-AA
642601 TATATATAATATATAGTTTTGAAA
1 -ATATAT-ATATATAGTTTTGAAA
642625 A-ATATATAATATAGTTTTTGAAA
1 ATATATAT-ATATAG-TTTTGAAA
642648 ATATATA-ATATAGTTTTTGAAA
1 ATATATATATATAG-TTTTGAAA
*
642670 ATATAT-TATATAATTTTTGAAA
1 ATATATATATAT-AGTTTTGAAA
642692 ATATATATA
1 ATATATATA
642701 ATAAATATAA
Statistics
Matches: 91, Mismatches: 1, Indels: 15
0.85 0.01 0.14
Matches are distributed among these distances:
21 2 0.02
22 49 0.54
23 13 0.14
24 13 0.14
25 14 0.15
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (22 bp):
ATATATATATATAGTTTTGAAA
Found at i:642876 original size:26 final size:25
Alignment explanation
Indices: 642846--642908 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
642836 ATTATTACTA
642846 CTTTTTATTTT-ATTTTTATTTTTATT
1 CTTTTTATTTTCA--TTTATTTTTATT
* *
642872 CTTTTTGTTTTCATTTCTTTTTATT
1 CTTTTTATTTTCATTTATTTTTATT
*
642897 CATTTTCATTTT
1 C-TTTTTATTTT
642909 GGTTTAGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 12 0.39
26 18 0.58
27 1 0.03
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.76
Consensus pattern (25 bp):
CTTTTTATTTTCATTTATTTTTATT
Found at i:642882 original size:15 final size:16
Alignment explanation
Indices: 642858--642896 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
642848 TTTTATTTTA
*
642858 TTTTTATTTTTA-TTC
1 TTTTTATTTTCATTTC
*
642873 TTTTTGTTTTCATTTC
1 TTTTTATTTTCATTTC
642889 TTTTTATT
1 TTTTTATT
642897 CATTTTCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTCATTTC
Found at i:644123 original size:20 final size:20
Alignment explanation
Indices: 644073--644123 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
644063 TTCAAGTGGA
*
644073 ATCGATACCAAGAGGGGAGT
1 ATCGATACCATGAGGGGAGT
644093 ATCGATACCATGAGGAGG-GT
1 ATCGATACCATGAGG-GGAGT
644113 ATCGATACCAT
1 ATCGATACCAT
644124 TGATCACAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (20 bp):
ATCGATACCATGAGGGGAGT
Found at i:644598 original size:54 final size:54
Alignment explanation
Indices: 644540--645040 Score: 689
Period size: 54 Copynumber: 9.3 Consensus size: 54
644530 TTACCAAATA
* *
644540 GGCACTAAGTTTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
644594 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCTTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
644648 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* ***
644702 AGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATTATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
644756 GACACTAAGTGTGCATTTTACGGAATTCATCCTATGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * * *
644810 GGTACTAAGTGTGCATTTCATGTAATTCATCCTATGTTGATGAATAATCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
644864 GACACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
644918 GGCACTAAGTGTGCATTTTACGAAATTCATCCTATGTGGATGAATAACTGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * * * *
644972 GGTACTAATTGTACATTCCATGGAATTCATCCTATGTGGATGAATAATCG-TAC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
645025 AGGCACTATGTGTGCA
1 -GGCACTAAGTGTGCA
645041 AATCCATTGA
Statistics
Matches: 396, Mismatches: 50, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
53 1 0.00
54 395 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:644819 original size:162 final size:162
Alignment explanation
Indices: 644541--645040 Score: 772
Period size: 162 Copynumber: 3.1 Consensus size: 162
644531 TACCAAATAG
* *
644541 GCACTAAGTTTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAAGTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAATCGTTTCGGCACTAAGTGT
* * *
644606 GCATTTCACGGAATTCATCCTATGTGGATGAATAACCT-TTTCGGCACTAAGTGTGCATTTCACG
66 GCATTTTACGGAATTCATCCTATGTGGATGAATAA-CTGTTTCGGTACTAAGTGTGCATTTCATG
644670 GAATTCATCCTATGTGGATGAATAATCGTTTCA
130 GAATTCATCCTATGTGGATGAATAATCGTTTCA
* ** *
644703 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATTATTTCGACACTAAGTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAATCGTTTCGGCACTAAGTGT
*
644768 GCATTTTACGGAATTCATCCTATGTGGATGAATAACTGTTTCGGTACTAAGTGTGCATTTCATGT
66 GCATTTTACGGAATTCATCCTATGTGGATGAATAACTGTTTCGGTACTAAGTGTGCATTTCATGG
* *
644833 AATTCATCCTATGTTGATGAATAATCATTTC-
131 AATTCATCCTATGTGGATGAATAATCGTTTCA
*
644864 GACACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAATCGTTTCGGCACTAAGTG
1 G-CACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAATCGTTTCGGCACTAAGTG
* * * * *
644929 TGCATTTTACGAAATTCATCCTATGTGGATGAATAACTGTTTTGGTACTAATTGTACATTCCATG
65 TGCATTTTACGGAATTCATCCTATGTGGATGAATAACTGTTTCGGTACTAAGTGTGCATTTCATG
*
644994 GAATTCATCCTATGTGGATGAATAATCG-TACA
130 GAATTCATCCTATGTGGATGAATAATCGTTTCA
*
645026 GGCACTATGTGTGCA
1 -GCACTAAGTGTGCA
645041 AATCCATTGA
Statistics
Matches: 307, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
161 5 0.02
162 301 0.98
163 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (162 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAATCGTTTCGGCACTAAGTGT
GCATTTTACGGAATTCATCCTATGTGGATGAATAACTGTTTCGGTACTAAGTGTGCATTTCATGG
AATTCATCCTATGTGGATGAATAATCGTTTCA
Found at i:645072 original size:55 final size:54
Alignment explanation
Indices: 645010--645204 Score: 241
Period size: 55 Copynumber: 3.6 Consensus size: 54
645000 ATCCTATGTG
*
645010 GATGAATAATCGTACAGGCACTATGTGTGCAAATCCATTGAATTCATCATGAGTT
1 GATGAATAATCGTACAGGCACTATGTGTGCAAATCCA-AGAATTCATCATGAGTT
* * *
645065 GATGAATAACCGTACAGGCACTATGTGTGTAAATCCACGATATTCATCATGAGTT
1 GATGAATAATCGTACAGGCACTATGTGTGCAAATCCAAGA-ATTCATCATGAGTT
* * * *
645120 GATGAATAATCGTACAGGCACGATGTGTG-TAACCCAAGAAATTTATCATGAGTT
1 GATGAATAATCGTACAGGCACTATGTGTGCAAATCCAAG-AATTCATCATGAGTT
* * *
645174 GATGAACTACT-GTATAGGCACTACGTGTGCA
1 GATGAA-TAATCGTACAGGCACTATGTGTGCA
645205 TCTTAATAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
54 42 0.34
55 80 0.66
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (54 bp):
GATGAATAATCGTACAGGCACTATGTGTGCAAATCCAAGAATTCATCATGAGTT
Found at i:645600 original size:68 final size:68
Alignment explanation
Indices: 645470--645604 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
645460 AGATTAATTC
* * **
645470 CCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGAGCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTACATGAAAGAATAAGAGCCTTTG
645535 AGG
66 AGG
*
645538 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTACATGAAAGAATAA-ATGCCTTT
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTACATGAAAGAATAAGA-GCCTTT
645602 GAG
65 GAG
645605 TAAAAGACTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 1 0.02
68 60 0.98
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTACATGAAAGAATAAGAGCCTTTG
AGG
Found at i:645803 original size:47 final size:46
Alignment explanation
Indices: 645625--645959 Score: 374
Period size: 46 Copynumber: 7.2 Consensus size: 46
645615 GATGTGTGAC
* *
645625 AATGTATAATAGTGTATAAAAGGGCATGAAAGGATGTCATAAATGA
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
*
645671 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCCTAAATGA
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
645717 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
* * * * *
645763 AATGTATAATAGCGTAAAAAAAGAGCAGGAAATGATGCCATAAATAA
1 AATGTATAATAGCGT-ATAAAAGGGCATGAAAGGATGCCATAAATGA
* * * ** * * * *
645810 AATGCAT-AT-GGGTGCAT-TATCGGAATGAAAGGATACCATAATTTA
1 AATGTATAATAGCGT--ATAAAAGGGCATGAAAGGATGCCATAAATGA
* *
645855 AATGCAT-ATGAGTGCGTATAAAAGGGTATGAAAGGATGCCATAAATGA
1 AATGTATAAT-A--GCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
*
645903 AATGTATAATAACGTA-ATAAAGGGCATGAAAGGATGCCATAAATGAA
1 AATGTATAATAGCGTATA-AAAGGGCATGAAAGGATGCCATAAATG-A
*
645950 AATGCATAAT
1 AATGTATAAT
645960 GGTGCATTAT
Statistics
Matches: 244, Mismatches: 35, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
45 31 0.13
46 136 0.56
47 44 0.18
48 28 0.11
49 5 0.02
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (46 bp):
AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
Found at i:645978 original size:46 final size:46
Alignment explanation
Indices: 645791--645985 Score: 141
Period size: 46 Copynumber: 4.2 Consensus size: 46
645781 AAAAGAGCAG
* * *
645791 GAAATGATGCCATAAAT-AAAATGCATATGGGTGCATTAT-CGGAAT
1 GAAAGGATGCCATAAATGAAAATGCATAT-GGTGCATTATAAGGTAT
* ** * *
645836 GAAAGGATACCAT-AATTTAAATGCATATGAGTGCGTATAAAAGGGTAT
1 GAAAGGATGCCATAAATGAAAATGCATATG-GTGCAT-TATAA-GGTAT
* *** * * *
645884 GAAAGGATGCCATAAATG-AAATGTATAATAACGTAATA-AAGGGCAT
1 GAAAGGATGCCATAAATGAAAATGCAT-ATGGTGCATTATAA-GGTAT
645930 GAAAGGATGCCATAAATGAAAATGCATAATGGTGCATTATAA-GTAT
1 GAAAGGATGCCATAAATGAAAATGCAT-ATGGTGCATTATAAGGTAT
*
645976 GAATGGATGC
1 GAAAGGATGC
645986 TCCAGTGGAA
Statistics
Matches: 116, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
44 4 0.03
45 26 0.22
46 39 0.34
47 16 0.14
48 26 0.22
49 5 0.04
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (46 bp):
GAAAGGATGCCATAAATGAAAATGCATATGGTGCATTATAAGGTAT
Found at i:647420 original size:14 final size:15
Alignment explanation
Indices: 647401--647429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
647391 TGACACCCTG
647401 ATCTTT-TTTATTTT
1 ATCTTTATTTATTTT
647415 ATCTTTATTTATTTT
1 ATCTTTATTTATTTT
647430 TTAACATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
ATCTTTATTTATTTT
Found at i:648512 original size:16 final size:15
Alignment explanation
Indices: 648493--648534 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
648483 TCTTACTAAC
*
648493 TTGTTTTCTTTCGTTT
1 TTGTTTTATTTC-TTT
648509 TTGTTTTATTTCTTT
1 TTGTTTTATTTCTTT
648524 TT-TATTTATTT
1 TTGT-TTTATTT
648535 GCATCATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 12 0.50
16 11 0.46
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (15 bp):
TTGTTTTATTTCTTT
Found at i:654682 original size:36 final size:36
Alignment explanation
Indices: 654635--654706 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
654625 GGACACAAAG
654635 ACCCATTCATGACAAATGAAAATAATGTATTTTATC
1 ACCCATTCATGACAAATGAAAATAATGTATTTTATC
* *
654671 ACCCATTCATGACGAATGAAAATAGTGTATTTTATC
1 ACCCATTCATGACAAATGAAAATAATGTATTTTATC
654707 TTTATCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (36 bp):
ACCCATTCATGACAAATGAAAATAATGTATTTTATC
Found at i:654850 original size:24 final size:24
Alignment explanation
Indices: 654818--654968 Score: 111
Period size: 24 Copynumber: 6.4 Consensus size: 24
654808 ATAGTATGAG
*
654818 ATATATATATGGT-TTTGAGAATAT
1 ATATATATAT-GTATTTGAAAATAT
* * *
654842 ATATATATATATATAT-ATATATAT
1 ATATATATATGTATTTGA-AAATAT
* * *
654866 ATATATATATATATAT-ATATATAT
1 ATATATATATGTATTTGA-AAATAT
*
654890 ATATATATATAGT-TTTTAAAATAT
1 ATATATATAT-GTATTTGAAAATAT
654914 ATA-ATATA-GTATTTGAAAATAT
1 ATATATATATGTATTTGAAAATAT
* *
654936 AT-TATATAT-TTTTTGAAAAAAT
1 ATATATATATGTATTTGAAAATAT
654958 ATATAATATAT
1 ATAT-ATATAT
654969 ATAATTTTTG
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
21 2 0.02
22 30 0.28
23 8 0.07
24 66 0.61
25 2 0.02
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (24 bp):
ATATATATATGTATTTGAAAATAT
Found at i:654916 original size:2 final size:2
Alignment explanation
Indices: 654838--654900 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
654828 GGTTTTGAGA
654838 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
654880 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
654901 GTTTTTAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:654932 original size:22 final size:21
Alignment explanation
Indices: 654888--654967 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 21
654878 ATATATATAT
*
654888 ATATATATATATAGTTTTTAAA
1 ATATATA-ATATAGTTTTGAAA
654910 ATATATAATATAGTATTTGAAA
1 ATATATAATATAGT-TTTGAAA
* *
654932 ATATATTATATATTTTTTGAAAAA
1 ATATATAATATA-GTTTTG--AAA
654956 ATATATAATATA
1 ATATATAATATA
654968 TATAATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.14
22 28 0.56
23 1 0.02
24 14 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATATATAATATAGTTTTGAAA
Found at i:661238 original size:22 final size:22
Alignment explanation
Indices: 661213--661261 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
661203 TCAAATTCCA
661213 AACACGAATATTAATATATCGC
1 AACACGAATATTAATATATCGC
661235 AACACGAATATTAATATATCGC
1 AACACGAATATTAATATATCGC
661257 AACAC
1 AACAC
661262 AAATGTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.24
Consensus pattern (22 bp):
AACACGAATATTAATATATCGC
Found at i:661331 original size:60 final size:60
Alignment explanation
Indices: 661256--661379 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 60
661246 TAATATATCG
*
661256 CAACACAAATGTAAACAGTATATCCCGTAATCGCAACTCATAACCTAAAACCCTAAATCA
1 CAACACAAATATAAACAGTATATCCCGTAATCGCAACTCATAACCTAAAACCCTAAATCA
661316 CAACACAAATATAAACAGTATATCCCGTAATCGCAACTCATAACCTAAAACCCTAAATCA
1 CAACACAAATATAAACAGTATATCCCGTAATCGCAACTCATAACCTAAAACCCTAAATCA
661376 CAAC
1 CAAC
661380 TCATTCCCAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.19
Consensus pattern (60 bp):
CAACACAAATATAAACAGTATATCCCGTAATCGCAACTCATAACCTAAAACCCTAAATCA
Found at i:661441 original size:22 final size:22
Alignment explanation
Indices: 661416--661466 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
661406 CTACGGCGAT
*
661416 ATCCGTCCCCGTCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
661438 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
661460 ATCCGTC
1 ATCCGTC
661467 TATCTCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:661842 original size:20 final size:20
Alignment explanation
Indices: 661819--661885 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
661809 GAAACATAAA
661819 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
661839 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
661859 ATCGCAACGCGTATTTGACT
1 ATCGCAACGCGAAAATGACT
661879 ATCGCAA
1 ATCGCAA
661886 TGAGAGAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:661916 original size:19 final size:19
Alignment explanation
Indices: 661892--661958 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
661882 GCAATGAGAG
661892 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
661911 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
*
661925 AATCGTAATGCGAAACT-AA
1 AATCGCAATGCGAAA-TGAA
*
661944 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
661959 CTAAATTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:661918 original size:33 final size:33
Alignment explanation
Indices: 661879--661958 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
661869 GTATTTGACT
* *
661879 ATCGCAATGAGAGAATCGCAATGCGAAA-TGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAACT-AAA
*
661912 ATCGCAACGAGAAAATCGTAATGCGAAACTAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAACTAAA
*
661945 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
661959 CTAAATTCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 41 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATGCGAAACTAAA
Found at i:661959 original size:19 final size:19
Alignment explanation
Indices: 661923--661963 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
661913 TCGCAACGAG
* *
661923 AAAATCGTAATGCGAAACT
1 AAAATCGCAACGCGAAACT
661942 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
661961 AAA
1 AAA
661964 TTCACATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:661975 original size:19 final size:19
Alignment explanation
Indices: 661931--661975 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
661921 AGAAAATCGT
*
661931 AATGCGAAACTAAAATCGC
1 AATGCGAAACTAAAATCAC
* *
661950 AACGCGAAACTAAATTCAC
1 AATGCGAAACTAAAATCAC
*
661969 ATTGCGA
1 AATGCGA
661976 TTTTCATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (19 bp):
AATGCGAAACTAAAATCAC
Found at i:661995 original size:20 final size:20
Alignment explanation
Indices: 661970--662126 Score: 65
Period size: 20 Copynumber: 8.5 Consensus size: 20
661960 TAAATTCACA
661970 TTGCGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
661990 TTGCGATTTTCA------CG
1 TTGCGATTTTCATTTTCGCG
*
662004 TTGCGATTTTCA-TTTCGCA
1 TTGCGATTTTCATTTTCGCG
*
662023 TTGCGA--TTC----TCTCG
1 TTGCGATTTTCATTTTCGCG
** ** *
662037 TTGCGATAGTCAAATACGCG
1 TTGCGATTTTCATTTTCGCG
** *
662057 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTTCGCG
*
662077 TTGCGATTTT-ATGTTTCGTG
1 TTGCGATTTTCAT-TTTCGCG
* *
662097 TTGCAATTTT-ATGTTTCGTG
1 TTGCGATTTTCAT-TTTCGCG
*
662117 TTTCGATTTT
1 TTGCGATTTT
662127 AAGTTTCAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
14 23 0.21
16 2 0.02
17 3 0.03
19 9 0.08
20 72 0.66
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGCG
Found at i:661998 original size:14 final size:14
Alignment explanation
Indices: 661981--662015 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
661971 TGCGATTTTC
*
661981 ATTTTCGCGTTGCG
1 ATTTTCACGTTGCG
661995 ATTTTCACGTTGCG
1 ATTTTCACGTTGCG
662009 ATTTTCA
1 ATTTTCA
662016 TTTCGCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (14 bp):
ATTTTCACGTTGCG
Found at i:662002 original size:34 final size:33
Alignment explanation
Indices: 661964--662030 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
661954 CGAAACTAAA
*
661964 TTCACATTGCGATTTTCATTTTCGCGTTGCGATT
1 TTCACATTGCGATTTTCA-TTTCGCATTGCGATT
*
661998 TTCACGTTGCGATTTTCATTTCGCATTGCGATT
1 TTCACATTGCGATTTTCATTTCGCATTGCGATT
662031 CTCTCGTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
TTCACATTGCGATTTTCATTTCGCATTGCGATT
Found at i:662027 original size:33 final size:34
Alignment explanation
Indices: 661964--662043 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 34
661954 CGAAACTAAA
* *
661964 TTCACATTGCGATTTTCATTTTCGCGTTGCGATT
1 TTCACGTTGCGATTTTCATTTTCGCATTGCGATT
661998 TTCACGTTGCGATTTTCA-TTTCGCATTGCGATT
1 TTCACGTTGCGATTTTCATTTTCGCATTGCGATT
* *
662031 CTCTCGTTGCGAT
1 TTCACGTTGCGAT
662044 AGTCAAATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 25 0.60
34 17 0.40
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.45
Consensus pattern (34 bp):
TTCACGTTGCGATTTTCATTTTCGCATTGCGATT
Found at i:662127 original size:20 final size:20
Alignment explanation
Indices: 662076--662133 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
662066 TCATTTCCGC
662076 GTTGCGATTTTATGTTTCGT
1 GTTGCGATTTTATGTTTCGT
*
662096 GTTGCAATTTTATGTTTCGT
1 GTTGCGATTTTATGTTTCGT
* *
662116 GTTTCGATTTTAAGTTTC
1 GTTGCGATTTTATGTTTC
662134 AGAAACTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.14, C:0.10, G:0.21, T:0.55
Consensus pattern (20 bp):
GTTGCGATTTTATGTTTCGT
Found at i:663927 original size:20 final size:20
Alignment explanation
Indices: 663898--663941 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
663888 AATAGTTTAT
*
663898 GAAACTTAAAATCGCAACAC
1 GAAACATAAAATCGCAACAC
*
663918 GAAACATAAAATCGCAACGC
1 GAAACATAAAATCGCAACAC
663938 GAAA
1 GAAA
663942 ATGACTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (20 bp):
GAAACATAAAATCGCAACAC
Found at i:663990 original size:20 final size:20
Alignment explanation
Indices: 663928--663978 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
663918 GAAACATAAA
663928 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
663948 ATCGTAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
663968 ATCGCAACGCG
1 ATCGCAACGCG
663979 TATTTGACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:664048 original size:14 final size:14
Alignment explanation
Indices: 664015--664050 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
664005 GCAATGCGAA
664015 ACGAAAATCGCAAC
1 ACGAAAATCGCAAC
*
664029 ATGAAAATCGCAAC
1 ACGAAAATCGCAAC
*
664043 GCGAAAAT
1 ACGAAAAT
664051 GAAAATTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.11
Consensus pattern (14 bp):
ACGAAAATCGCAAC
Found at i:664054 original size:20 final size:20
Alignment explanation
Indices: 664029--664067 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
664019 AAATCGCAAC
664029 ATGAAAATCGCAACGCGAAA
1 ATGAAAATCGCAACGCGAAA
* *
664049 ATGAAAATTGCAATGCGAA
1 ATGAAAATCGCAACGCGAA
664068 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (20 bp):
ATGAAAATCGCAACGCGAAA
Found at i:664167 original size:20 final size:20
Alignment explanation
Indices: 664144--664193 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
664134 AGTCAAATAC
*
664144 GCGTTGTGATAGTCATTTTT
1 GCGTTGCGATAGTCATTTTT
*
664164 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCATTTTT
*
664184 ACGTTGCGAT
1 GCGTTGCGAT
664194 TTTATGTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTTT
Found at i:664631 original size:42 final size:42
Alignment explanation
Indices: 664585--664703 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
664575 GATTCAACTG
** * *
664585 TCATCATTCAAGAGGCTTCTCCTATCGTTCAAGAGGCCCCTA
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
* *
664627 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
* * *
664669 TCATCGTTGAAGAGGTCCCTCCCACCGTTCAAGAG
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAG
664704 CCCGATTCTC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:664697 original size:21 final size:21
Alignment explanation
Indices: 664591--664703 Score: 111
Period size: 21 Copynumber: 5.4 Consensus size: 21
664581 ACTGTCATCA
** * *
664591 TTCAAGAGGCTTCTCCTATCG
1 TTCAAGAGGCCCCTCCCACCG
**
664612 TTCAAGAGGCCCCTATCATCC-
1 TTCAAGAGGCCCCTCCCA-CCG
664633 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCG
** *
664654 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTCCCACCG
* *
664675 TTGAAGAGGTCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCG
664696 TTCAAGAG
1 TTCAAGAG
664704 CCCGATTCTC
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 2 0.03
21 70 0.96
22 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCG
Found at i:666298 original size:20 final size:20
Alignment explanation
Indices: 666262--666313 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
666252 TACACTTTCA
* *
666262 CAACGCTAAACTCAAAATCG
1 CAACGCGAAAGTCAAAATCG
*
666282 CAATGCGAAAGTCAAAATCG
1 CAACGCGAAAGTCAAAATCG
666302 CAACGCGAAAGT
1 CAACGCGAAAGT
666314 AAATTCGCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
CAACGCGAAAGTCAAAATCG
Found at i:666339 original size:20 final size:20
Alignment explanation
Indices: 666314--666645 Score: 192
Period size: 20 Copynumber: 17.2 Consensus size: 20
666304 ACGCGAAAGT
*
666314 AAATTCGCGTTGTGATAGTG
1 AAATTCGCGTTGCGATAGTG
*
666334 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
* * * * *
666354 CATTTCACATTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
* * *
666374 CATTTCGCATTGCGAT--T-
1 AAATTCGCGTTGCGATAGTG
* *
666391 --CTCTC-C-TTGCGATAGTC
1 AAAT-TCGCGTTGCGATAGTG
* *
666408 AAATTCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
* * *
666428 AAATTCCCGTTGCGATAATC
1 AAATTCGCGTTGCGATAGTG
* *
666448 AAATTCACGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
*
666468 AAATAT-GCGTTGCGATAGTC
1 AAAT-TCGCGTTGCGATAGTG
*
666488 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
666508 AAATAT-GC-TT----T-GTG
1 AAAT-TCGCGTTGCGATAGTG
** * *
666522 ATTTTCTCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
* *
666542 AAATTCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
* *
666562 AAATTCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
* * *
666582 AAATAAC-CGTTGCGATAATC
1 AAAT-TCGCGTTGCGATAGTG
* * *
666602 AAATTCACGTTACGATAGTC
1 AAATTCGCGTTGCGATAGTG
*
666622 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTG
666642 AAAT
1 AAAT
666646 GAATGTCTAA
Statistics
Matches: 264, Mismatches: 28, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.00
14 12 0.05
15 5 0.02
16 3 0.01
18 3 0.01
19 7 0.03
20 230 0.87
21 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (20 bp):
AAATTCGCGTTGCGATAGTG
Found at i:666452 original size:40 final size:40
Alignment explanation
Indices: 666306--666645 Score: 298
Period size: 40 Copynumber: 8.8 Consensus size: 40
666296 AAATCGCAAC
* * * * *
666306 GCGAAAGT-AAATTCGCGTTGTGATAGTGAAATTCGCGTT
1 GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCACGTT
* * * * * * * *
666345 GCGATAGTCCATTTCACATTGCGATAGTCCATTTCGCATT
1 GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCACGTT
*
666385 GCGAT--TC----TCTCC-TTGCGATAGTCAAATTCCCGTT
1 GCGATAGTCAAATTC-CCGTTGCGATAGTCAAATTCACGTT
*
666419 GCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTT
1 GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCACGTT
* *
666459 GCGATAGTCAAATAT-GCGTTGCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAAT-TCCCGTTGCGATAGTCAAATTCACGTT
* * * *
666499 GCGATAGTCAAATAT-GCTTTGTGAT--T----TTCTCGTT
1 GCGATAGTCAAAT-TCCCGTTGCGATAGTCAAATTCACGTT
*
666533 GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTT
1 GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCACGTT
** *
666573 GCGATAGTCAAATAACCGTTGCGATAATCAAATTCACGTT
1 GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCACGTT
* *
666613 ACGATAGTCAAATTCGCGTTGCGATAGTCAAAT
1 GCGATAGTCAAATTCCCGTTGCGATAGTCAAAT
666646 GAATGTCTAA
Statistics
Matches: 248, Mismatches: 36, Indels: 33
0.78 0.11 0.10
Matches are distributed among these distances:
33 1 0.00
34 52 0.21
35 1 0.00
36 3 0.01
38 3 0.01
39 9 0.04
40 178 0.72
41 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (40 bp):
GCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCACGTT
Found at i:666533 original size:114 final size:114
Alignment explanation
Indices: 666415--666625 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
666405 GTCAAATTCC
**
666415 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATATGCGTTG
1 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATAACCGTTG
* * *
666480 CGATAGTCAAATTCGCGTTGCGATAGTCAAATATGCTTTGTGATTTTCT
66 CGATAATCAAATTCACGTTACGATAGTCAAATATGCTTTGTGATTTTCT
* *
666529 CGTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATAACCGTTG
1 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATAACCGTTG
666594 CGATAATCAAATTCACGTTACGATAGTCAAAT
66 CGATAATCAAATTCACGTTACGATAGTCAAAT
666626 TCGCGTTGCG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (114 bp):
CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATAACCGTTG
CGATAATCAAATTCACGTTACGATAGTCAAATATGCTTTGTGATTTTCT
Found at i:666535 original size:134 final size:135
Alignment explanation
Indices: 666314--666645 Score: 456
Period size: 134 Copynumber: 2.5 Consensus size: 135
666304 ACGCGAAAGT
* * * * * * * * *
666314 AAATTCGCGTTGTGATAGTGAAATTCGCGTTGCGATAGTCCATTTCACATTGCGATAGTC-CATT
1 AAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATA
666378 TCGCATTGCGATTCTCTCCTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGA
66 TCGCATTGCGATTCTCTCCTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGA
666443 TAATC
131 TAATC
666448 AAATTCACGTTGCGATAGTCAAATAT-GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
1 AAATTCACGTTGCGATAGTCAAAT-TCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
* * * *
666512 AT-GCTTTGTGATTTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCG
65 ATCGCATTGCGATTCTCTCCTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCG
*
666576 ATAGTC
130 ATAATC
* * * *
666582 AAA-TAACCGTTGCGATAATCAAATTCACGTTACGATAGTCAAATTCGCGTTGCGATAGTCAAAT
1 AAATTCA-CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
666646 GAATGTCTAA
Statistics
Matches: 176, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
133 3 0.02
134 169 0.96
135 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (135 bp):
AAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATA
TCGCATTGCGATTCTCTCCTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGA
TAATC
Found at i:666686 original size:19 final size:19
Alignment explanation
Indices: 666662--666699 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
666652 CTAATAAGTG
*
666662 ATAACAACTGAACAGATCA
1 ATAACAACTGAACAAATCA
666681 ATAACAACTGAACAAATCA
1 ATAACAACTGAACAAATCA
666700 TAGCAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.21, G:0.08, T:0.16
Consensus pattern (19 bp):
ATAACAACTGAACAAATCA
Found at i:666856 original size:18 final size:18
Alignment explanation
Indices: 666830--666870 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
666820 AGGTAAAGCC
* *
666830 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
666848 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
666866 GATTT
1 GATTT
666871 CCTTTTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:668912 original size:14 final size:15
Alignment explanation
Indices: 668893--668929 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
668883 TCCCGTGGCA
668893 TTTTCTTCGGGGAC-
1 TTTTCTTCGGGGACT
*
668907 TTTTCTTCGGGGCCT
1 TTTTCTTCGGGGACT
668922 TTTTCTTC
1 TTTTCTTC
668930 TTTTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.03, C:0.24, G:0.22, T:0.51
Consensus pattern (15 bp):
TTTTCTTCGGGGACT
Found at i:670165 original size:20 final size:20
Alignment explanation
Indices: 670140--670198 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
670130 TCAGTGATGT
670140 GATAGTCAGAATCGCGTTGC
1 GATAGTCAGAATCGCGTTGC
*
670160 GATAGTCAGAATCGTGTTGC
1 GATAGTCAGAATCGCGTTGC
*
670180 GATAGTCAGATTCGCGTTG
1 GATAGTCAGAATCGCGTTG
670199 TGAATCTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (20 bp):
GATAGTCAGAATCGCGTTGC
Found at i:671373 original size:40 final size:41
Alignment explanation
Indices: 671303--671385 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
671293 GACAAAAATA
671303 TAATGATTAAATTAAAAAAAATTAAACGTATAGTGAGTAATT
1 TAATGATTAAATT-AAAAAAATTAAACGTATAGTGAGTAATT
671345 TAATGATTAAATT-AAAAAATTAAACGTATAGTGAGTAATT
1 TAATGATTAAATTAAAAAAATTAAACGTATAGTGAGTAATT
671385 T
1 T
671386 GTAATTTACC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 28 0.68
42 13 0.32
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (41 bp):
TAATGATTAAATTAAAAAAATTAAACGTATAGTGAGTAATT
Found at i:673842 original size:39 final size:38
Alignment explanation
Indices: 673755--673860 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 38
673745 TTATATTAAA
* *
673755 TTTTAAGCACAAAATAGAAAAAATAGAATTATATTATT
1 TTTTAAGCACAAAATAGAAAAAATAAAATTATACTATT
* *
673793 TTTAAAGCACAAAATAGAAAAGAATAAAATTATCCTATT
1 TTTTAAGCACAAAATAGAAAA-AATAAAATTATACTATT
*
673832 TTTTATGCACAAAATAG--AAAATAAAATTA
1 TTTTAAGCACAAAATAGAAAAAATAAAATTA
673861 AACACACAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 10 0.16
37 2 0.03
38 20 0.33
39 29 0.48
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (38 bp):
TTTTAAGCACAAAATAGAAAAAATAAAATTATACTATT
Found at i:675290 original size:2 final size:2
Alignment explanation
Indices: 675279--675343 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
675269 CCCAATTATT
675279 TA TA TA -A 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
675320 TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
675344 TTCATATTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:675380 original size:24 final size:24
Alignment explanation
Indices: 675341--675404 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
675331 ATATATATTA
*
675341 TATTTCATATT-TTAAAAATTTTAAT
1 TATTT-ATATTATTAAAAATTAT-AT
675366 T-TTTATATTATT-AAAA-TATAT
1 TATTTATATTATTAAAAATTATAT
675387 TATTTA-ATTATTAAAAAT
1 TATTTATATTATTAAAAAT
675405 ATAAAAGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 9 0.26
22 10 0.29
23 9 0.26
24 5 0.15
25 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTATATTATTAAAAATTATAT
Found at i:675487 original size:41 final size:42
Alignment explanation
Indices: 675375--675488 Score: 130
Period size: 41 Copynumber: 2.8 Consensus size: 42
675365 TTTTTATATT
* *
675375 ATTA-AAATATATTATTTAATTA-TTAAAAAT-ATAAAAGTT
1 ATTATAAATATATTATTTAATTATTTAAATATAATAAAAGTA
**
675414 ATTATAAATATATTAATTTAATCGTTTAAATATAAT-AAAG-A
1 ATTATAAATATATT-ATTTAATTATTTAAATATAATAAAAGTA
*
675455 ATTATAAATATATTATTTTAATTATTTTAATATA
1 ATTATAAATATATTA-TTTAATTATTTAAATATA
675489 TTAGGATCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 4 0.06
40 10 0.16
41 36 0.57
42 11 0.17
43 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (42 bp):
ATTATAAATATATTATTTAATTATTTAAATATAATAAAAGTA
Found at i:697474 original size:23 final size:24
Alignment explanation
Indices: 697434--697478 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
697424 TTCGCCGAAG
697434 CCATAAATTCTTGCAATGATAACT
1 CCATAAATTCTTGCAATGATAACT
*
697458 CCATGAATT-TTGCAATGATAA
1 CCATAAATTCTTGCAATGATAA
697479 ATTATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (24 bp):
CCATAAATTCTTGCAATGATAACT
Found at i:699345 original size:25 final size:25
Alignment explanation
Indices: 699312--699366 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
699302 AGCGTCTATC
699312 CCTT-TTAGTCGATTGAAACTCACT
1 CCTTATTAGTCGATTGAAACTCACT
699336 CCTTATTAGTCGATTGAAACTCACT
1 CCTTATTAGTCGATTGAAACTCACT
699361 CCTTAT
1 CCTTAT
699367 CTCTAAGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.38
Consensus pattern (25 bp):
CCTTATTAGTCGATTGAAACTCACT
Found at i:705521 original size:20 final size:20
Alignment explanation
Indices: 705496--705562 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
705486 AATAAGTCAG
705496 TAGTATCGATATCC-AGGGGT
1 TAGTATCGATA-CCGAGGGGT
* * *
705516 TAGTATTGATACCTAGAGGT
1 TAGTATCGATACCGAGGGGT
* *
705536 TAGTACCAATACCGAGGGGCT
1 TAGTATCGATACCGAGGGG-T
705557 TAGTAT
1 TAGTAT
705563 TGGTACCTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 2 0.05
20 29 0.78
21 6 0.16
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (20 bp):
TAGTATCGATACCGAGGGGT
Found at i:706325 original size:70 final size:70
Alignment explanation
Indices: 706250--706389 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 70
706240 ATTTAAACTC
* * *
706250 AGTGTATTACTTGGATGATTTATGAGTTCCCTTGTACTGTAAACTCAAATTTATTACTTTTTATT
1 AGTGTATTACTTGGATGATTTAGGAGCTCCCTTGTACTGTAAACTCAAATTGATTACTTTTTATT
706315 TTATA
66 TTATA
* ** *
706320 AGTGTATTATTTGGATGATTTAGGAGCTCTGTTGTATTGTAAACTCAAATTGATTACTTTTTATT
1 AGTGTATTACTTGGATGATTTAGGAGCTCCCTTGTACTGTAAACTCAAATTGATTACTTTTTATT
706385 TTATA
66 TTATA
706390 TTTCTATGGA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (70 bp):
AGTGTATTACTTGGATGATTTAGGAGCTCCCTTGTACTGTAAACTCAAATTGATTACTTTTTATT
TTATA
Found at i:710504 original size:40 final size:40
Alignment explanation
Indices: 710451--710563 Score: 199
Period size: 40 Copynumber: 2.8 Consensus size: 40
710441 AATCATACCT
* *
710451 AAAAGTTTGATTTTTGTTTCATTTTAGTACCCCTCCGTTA
1 AAAACTTTAATTTTTGTTTCATTTTAGTACCCCTCCGTTA
710491 AAAACTTTAATTTTTGTTTCATTTTAGTACCCCTCCGTTA
1 AAAACTTTAATTTTTGTTTCATTTTAGTACCCCTCCGTTA
*
710531 AAAACTTTAATTTTTGTTTCATTTTAGCACCCC
1 AAAACTTTAATTTTTGTTTCATTTTAGTACCCC
710564 GTTCAAGTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (40 bp):
AAAACTTTAATTTTTGTTTCATTTTAGTACCCCTCCGTTA
Found at i:711424 original size:22 final size:22
Alignment explanation
Indices: 711399--711440 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
711389 TATATAAACG
711399 AACGATAAACAAACACTAAATC
1 AACGATAAACAAACACTAAATC
* **
711421 AACGCTAAATGAACACTAAA
1 AACGATAAACAAACACTAAA
711441 AGAACATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (22 bp):
AACGATAAACAAACACTAAATC
Found at i:714982 original size:21 final size:21
Alignment explanation
Indices: 714938--715015 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
714928 ATTGTTCACT
* *
714938 ATATCAATATAGTAGATTGA-C
1 ATATCAATATAATAAATT-ATC
714959 ATATCAATATAATAAATTATC
1 ATATCAATATAATAAATTATC
* * ** *
714980 ATATTAATTTTCTAAATTGTC
1 ATATCAATATAATAAATTATC
* *
715001 ATGTCAATATTATAA
1 ATATCAATATAATAA
715016 TTGTCACGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 1 0.02
21 44 0.98
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (21 bp):
ATATCAATATAATAAATTATC
Found at i:715685 original size:20 final size:21
Alignment explanation
Indices: 715660--715700 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
715650 TTCAACAAAT
715660 ATCTTCATC-AAAGGTCTTAA
1 ATCTTCATCGAAAGGTCTTAA
*
715680 ATCTTCATCGAAAGGTGTTAA
1 ATCTTCATCGAAAGGTCTTAA
715701 CCTTTCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
ATCTTCATCGAAAGGTCTTAA
Found at i:719268 original size:21 final size:20
Alignment explanation
Indices: 719234--719273 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
719224 TCAACTAATC
* *
719234 TCTTCATCAAAGGTCTTAAA
1 TCTTCATAAAAGGTATTAAA
719254 TCTTCATTAAAAGGTATTAA
1 TCTTCA-TAAAAGGTATTAA
719274 CCTTTCAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTTCATAAAAGGTATTAAA
Found at i:723618 original size:14 final size:15
Alignment explanation
Indices: 723599--723627 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
723589 CAAATATGAA
723599 TGATATTTAA-ATTT
1 TGATATTTAAGATTT
723613 TGATATTTAAGATTT
1 TGATATTTAAGATTT
723628 GTTTGCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TGATATTTAAGATTT
Found at i:729266 original size:15 final size:16
Alignment explanation
Indices: 729246--729279 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
729236 GGAAGTGATA
*
729246 GTATCGGTACCA-TGG
1 GTATCGATACCAGTGG
729261 GTATCGATACCAGTGG
1 GTATCGATACCAGTGG
729277 GTA
1 GTA
729280 GGTATTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (16 bp):
GTATCGATACCAGTGG
Found at i:730992 original size:29 final size:29
Alignment explanation
Indices: 730933--731127 Score: 212
Period size: 29 Copynumber: 6.7 Consensus size: 29
730923 CTTTTTAAAA
* ***
730933 TAATTACCAGAATAGCA-CAAATTTGAAT
1 TAATTCCCAGAATAGCACCAAAACCGAAT
**
730961 TAATTCCTTGAATAGCACCAAAACCGAAT
1 TAATTCCCAGAATAGCACCAAAACCGAAT
*
730990 TAAATCCCAGAATAGCACCAAAAACCGAAT
1 TAATTCCCAGAATAGCACC-AAAACCGAAT
* * *
731020 TAATTTCCAGAATAGAACCAAAACAGAAT
1 TAATTCCCAGAATAGCACCAAAACCGAAT
* *
731049 TATTTCCCAGAATAGAACCAAAACCGAAT
1 TAATTCCCAGAATAGCACCAAAACCGAAT
* **
731078 TATTTCCCAGAATAGCACCGGTCAACCGAAT
1 TAATTCCCAGAATAGCACC--AAAACCGAAT
*
731109 TATTTCCCAGAATAGCACC
1 TAATTCCCAGAATAGCACC
731128 GGTCAACGAT
Statistics
Matches: 144, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
28 14 0.10
29 77 0.53
30 26 0.18
31 27 0.19
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (29 bp):
TAATTCCCAGAATAGCACCAAAACCGAAT
Found at i:731040 original size:59 final size:58
Alignment explanation
Indices: 730939--731127 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 58
730929 AAAATAATTA
*** * **
730939 CCAGAATAGCA-CAAATTTGAATTAA-TTCCTTGAATAGCACCAAAACCGAATTAAATC
1 CCAGAATAGCACCAAAACCGAATTAATTTCC-AGAATAGCACCAAAACCGAATTATTTC
* *
730996 CCAGAATAGCACCAAAAACCGAATTAATTTCCAGAATAGAACCAAAACAGAATTATTTC
1 CCAGAATAGCACC-AAAACCGAATTAATTTCCAGAATAGCACCAAAACCGAATTATTTC
* **
731055 CCAGAATAGAACCAAAACCGAATT-ATTTCCCAGAATAGCACCGGTCAACCGAATTATTTC
1 CCAGAATAGCACCAAAACCGAATTAATTT-CCAGAATAGCACC--AAAACCGAATTATTTC
731115 CCAGAATAGCACC
1 CCAGAATAGCACC
731128 GGTCAACGAT
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
57 15 0.13
58 24 0.21
59 44 0.39
60 29 0.26
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (58 bp):
CCAGAATAGCACCAAAACCGAATTAATTTCCAGAATAGCACCAAAACCGAATTATTTC
Found at i:731165 original size:18 final size:18
Alignment explanation
Indices: 731142--731187 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
731132 AACGATCAAT
731142 GGTCGGGTCGGGTCAACG
1 GGTCGGGTCGGGTCAACG
731160 GGTCGGGTCGGGTCAACG
1 GGTCGGGTCGGGTCAACG
731178 GGTCGGGTCG
1 GGTCGGGTCG
731188 TGACCGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (18 bp):
GGTCGGGTCGGGTCAACG
Found at i:738214 original size:29 final size:29
Alignment explanation
Indices: 738182--738345 Score: 139
Period size: 29 Copynumber: 5.7 Consensus size: 29
738172 CTTTTTAAAA
* * **
738182 TAATTAATAGAATAGCACTAAATTCGAAT
1 TAATTAACAGAATAGCACCAAAACCGAAT
**
738211 TAATTCCCAGAATAGCACCAAAACCGAAT
1 TAATTAACAGAATAGCACCAAAACCGAAT
** * **
738240 TAATTCCCAGAATAGCAACAAAACTAAAT
1 TAATTAACAGAATAGCACCAAAACCGAAT
* **
738269 TATTTCCCAGAATAGCACCAAAACCGAAT
1 TAATTAACAGAATAGCACCAAAACCGAAT
* ** *
738298 TATTTGCCAGAATAGCACCAAAACTGAAT
1 TAATTAACAGAATAGCACCAAAACCGAAT
* **
738327 TATTTCCCAGAATAGCACC
1 TAATTAACAGAATAGCACC
738346 GGTCAACGGT
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 119 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (29 bp):
TAATTAACAGAATAGCACCAAAACCGAAT
Found at i:738244 original size:58 final size:57
Alignment explanation
Indices: 738190--738345 Score: 199
Period size: 58 Copynumber: 2.7 Consensus size: 57
738180 AATAATTAAT
* * *
738190 AGAATAGCACTAAATTCGAATTAATTCCCAGAATAGCACCAAAACCGAATTAATTCCC
1 AGAATAGCAC-AAAATCGAATTATTTCCCAGAATAGCACCAAAACCGAATTAATTACC
* * *
738248 AGAATAGCAACAAAA-CTAAATTATTTCCCAGAATAGCACCAAAACCGAATTATTTGCC
1 AGAATAGC-ACAAAATC-GAATTATTTCCCAGAATAGCACCAAAACCGAATTAATTACC
738306 AGAATAGCACCAAAA-CTGAATTATTTCCCAGAATAGCACC
1 AGAATAGCA-CAAAATC-GAATTATTTCCCAGAATAGCACC
738346 GGTCAACGGT
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
57 2 0.02
58 85 0.96
59 2 0.02
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.22
Consensus pattern (57 bp):
AGAATAGCACAAAATCGAATTATTTCCCAGAATAGCACCAAAACCGAATTAATTACC
Found at i:738383 original size:18 final size:18
Alignment explanation
Indices: 738353--738427 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
738343 ACCGGTCAAC
738353 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
738370 GGTTAACAGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
738388 GGTCAACGGGTCGAGTCG
1 GGTCAACGGGTCGGGTCG
738406 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
738424 GGTC
1 GGTC
738428 GTGACCGGTC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
17 6 0.12
18 46 0.88
ACGTcount: A:0.13, C:0.21, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:745430 original size:29 final size:29
Alignment explanation
Indices: 745398--745532 Score: 171
Period size: 29 Copynumber: 4.7 Consensus size: 29
745388 CTTTTTAAAA
* * **
745398 TAATTACCATAATAGCACCAAATTTGAAT
1 TAATTCCCAGAATAGCACCAAAACTGAAT
*
745427 TAATTCCCAGAATAACACCAAAACTGAAT
1 TAATTCCCAGAATAGCACCAAAACTGAAT
* *
745456 TAAATCCCAGAATAGCACCAAAACCGAAT
1 TAATTCCCAGAATAGCACCAAAACTGAAT
* * *
745485 TATTTCCCAGAATAGTACCAAAACCGAAT
1 TAATTCCCAGAATAGCACCAAAACTGAAT
*
745514 TATTTCCCAGAATAGCACC
1 TAATTCCCAGAATAGCACC
745533 GGTCAACGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.23
Consensus pattern (29 bp):
TAATTCCCAGAATAGCACCAAAACTGAAT
Found at i:745573 original size:18 final size:18
Alignment explanation
Indices: 745550--745593 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
745540 GGTCAACGAT
745550 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
745568 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
745586 CGGGTCGG
1 CGGGTCGG
745594 ATCATGACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.09, C:0.23, G:0.52, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTCAA
Found at i:745579 original size:23 final size:22
Alignment explanation
Indices: 745540--745583 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
745530 ACCGGTCAAC
745540 GGTCAACGATCGGGTCGGGTCG
1 GGTCAACGATCGGGTCGGGTCG
*
745562 GGTCAACGGGTCGGGTCGGGTC
1 GGTCAAC-GATCGGGTCGGGTC
745584 AACGGGTCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (22 bp):
GGTCAACGATCGGGTCGGGTCG
Found at i:747011 original size:21 final size:21
Alignment explanation
Indices: 746977--747045 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
746967 CCTTCGGGAT
**
746977 ATATATGTAATTCTTTGGAAC
1 ATATATGTGGTTCTTTGGAAC
* *
746998 ATATATGTGGTTCTTCGAAAC
1 ATATATGTGGTTCTTTGGAAC
* * * *
747019 ACATATTTGGTCCTTTGGAAT
1 ATATATGTGGTTCTTTGGAAC
747040 ATATAT
1 ATATAT
747046 TTGATCCTTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (21 bp):
ATATATGTGGTTCTTTGGAAC
Found at i:747046 original size:21 final size:21
Alignment explanation
Indices: 746989--747054 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
746979 ATATGTAATT
* *
746989 CTTTGGAACATATATGTGGTT
1 CTTTGGAACATATATTTGGTC
* * *
747010 CTTCGAAACACATATTTGGTC
1 CTTTGGAACATATATTTGGTC
* *
747031 CTTTGGAATATATATTTGATC
1 CTTTGGAACATATATTTGGTC
747052 CTT
1 CTT
747055 AAAGAGTGGT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
CTTTGGAACATATATTTGGTC
Found at i:751015 original size:7 final size:7
Alignment explanation
Indices: 751003--751029 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
750993 TTGATAACTC
751003 ATGTGAT
1 ATGTGAT
751010 ATGTGAT
1 ATGTGAT
751017 ATGTGAT
1 ATGTGAT
751024 ATGTGA
1 ATGTGA
751030 ATTATATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
ATGTGAT
Found at i:751203 original size:21 final size:21
Alignment explanation
Indices: 751170--751258 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
751160 TTCTACGTGG
* *
751170 TCCTTCGGGATATATATGTAA
1 TCCTTTGGAATATATATGTAA
**
751191 TCCTTTGGAATATATATGTGG
1 TCCTTTGGAATATATATGTAA
* * * * **
751212 TTCTTTGGAACACATATTTGG
1 TCCTTTGGAATATATATGTAA
751233 TCCTTTGGAATATATATGTAA
1 TCCTTTGGAATATATATGTAA
751254 TCCTT
1 TCCTT
751259 AAGGAGTGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (21 bp):
TCCTTTGGAATATATATGTAA
Found at i:751322 original size:21 final size:21
Alignment explanation
Indices: 751264--751315 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
751254 TCCTTAAGGA
751264 GTGGTCCTTCTAGACATCTAT
1 GTGGTCCTTCTAGACATCTAT
751285 GTGGTCCTTCTAGACATCTAT
1 GTGGTCCTTCTAGACATCTAT
751306 GTGGTCCTTC
1 GTGGTCCTTC
751316 GGGACATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.38
Consensus pattern (21 bp):
GTGGTCCTTCTAGACATCTAT
Found at i:752753 original size:135 final size:135
Alignment explanation
Indices: 752509--753261 Score: 922
Period size: 135 Copynumber: 5.6 Consensus size: 135
752499 AGATTTTCTC
* *
752509 ATATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTGGATTCAAT
1 ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAAT
** * ** * * *
752574 CTTCCCTGAAGAGCAATGAAATGGATCAATTTTTTTCTCGAGTCTGATCTCCCATAATGAGTATC
66 CTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGC
*
752639 GGAGA
131 AGAGA
* * * * *
752644 AGATTCTTATTCTTTCAGATTTGGCCTTCTTGAAGAGTAGCGAAGCAAATCAAGTTCGATTCAAT
1 ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAAT
* * * *
752709 CTTCCTTGAAGAGCAACGAAGTGGATCAAAATTTTTCTCTAGTCTGATTTCCCCTAAAGAGTAGC
66 CTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGC
752774 AGA-A
131 AGAGA
* * * * *
752778 CATATTCTTCTTCTTTCAGATTTGGTATTCCTGAAGAGCAGCAAAGAAAATTAAGTTCAATTTCA
1 -ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGA-TTCA
* * * * * * *
752843 ATCTTACCTAAAGAGCAGTGAAGTGTATCAAAAATTTTCTTGAGTCTGATTTCCCCTAAAGAGTA
64 ATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTA
*
752908 GCAGAGC
129 GCAGAGA
* * *
752915 ATATTCTTCTTCTTTTAAATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTCGATTCAAT
1 ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAAT
* ***
752980 CTTCCTTGAAGAGCAGCGAAGTGGATCAAAAAAAATT-TCGAGTCTGATCTCCCCTAAAGAGTAG
66 CTTCCCTGAAGAGCAGCGAAGTGGATC-AAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAG
753044 CAGAGA
130 CAGAGA
* * **
753050 AAATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTTAATAT-AA
1 ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGAT-TCAA
*
753114 TTTTCCCTGAAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCT-CCCTAAAGAGTA
65 TCTTCCCTG-AAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTA
* *
753178 GCGGATCA
129 GCAGA-GA
* * * * **
753186 A-ATTCATCTTCTTTCAGATTTGATATTCCTGAAGAACAGTTAAGCAAATCAAGTTCGATTCAAT
1 ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAAT
* *
753250 TTTCCCTTAAGA
66 CTTCCCTGAAGA
753262 ACAGTGGAAT
Statistics
Matches: 530, Mismatches: 79, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
134 6 0.01
135 366 0.69
136 158 0.30
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (135 bp):
ATATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAAT
CTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGC
AGAGA
Found at i:752990 original size:271 final size:272
Alignment explanation
Indices: 752508--753254 Score: 995
Period size: 271 Copynumber: 2.8 Consensus size: 272
752498 AAGATTTTCT
**
752508 CATATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTGGA-TTCA
1 CATATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCAATTTCA
* * * ** * *
752572 ATCTTCCCTGAAGAGCAATGAAATGGATCAATTTTTTTCTCGAGTCTGATCTCCCATAATGAGTA
66 ATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTA
* * * *
752637 TCGGAG-AAGATTCTTATTCTTTCAGATTTGGCCTTCTTGAAGAGTAGCGAAGCAAATCAAGTTC
131 GCGGAGCAA-ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTC
*** * *
752701 GATTCAATCTTCCTTGAAGAGCAACGAAGTGGATC-AAAATTTTTCTCTAGTCTGATTTCCCCTA
195 GATTCAATCTTCCTTGAAGAGCAACGAAGTGGATCAAAAAAAATT-TCGAGTCTGATCTCCCCTA
752765 AAGAGTAGCAGA-A
259 AAGAGTAGCAGAGA
* * * * *
752778 CATATTCTTCTTCTTTCAGATTTGGTATTCCTGAAGAGCAGCAAAGAAAATTAAGTTCAATTTCA
1 CATATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCAATTTCA
* * * * *
752843 ATCTTACCTAAAGAGCAGTGAAGTGTATCAAAAATTTTCTTGAGTCTGATTTCCCCTAAAGAGTA
66 ATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTA
* * * *
752908 GCAGAGCATATTCTTCTTCTTTTAAATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTCG
131 GCGGAGCAAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTCG
*
752973 ATTCAATCTTCCTTGAAGAGCAGCGAAGTGGATCAAAAAAAATTTCGAGTCTGATCTCCCCTAAA
196 ATTCAATCTTCCTTGAAGAGCAACGAAGTGGATCAAAAAAAATTTCGAGTCTGATCTCCCCTAAA
753038 GAGTAGCAGAGA
261 GAGTAGCAGAGA
* * *
753050 -AAATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTTAATAT-A
1 CATATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCAATTTCA
* *
753113 ATTTTCCCTGAAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCT-CCCTAAAGAGT
66 ATCTTCCCT-AAAGAGCAGTGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGT
* * * * ** **
753177 AGCGGATCAAATTCATCTTCTTTCAGATTTGATATTCCTGAAGAACAGTTAAGCAAATCAAGTTC
130 AGCGGAGCAAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTC
*
753242 GATTCAATTTTCC
195 GATTCAATCTTCC
753255 CTTAAGAACA
Statistics
Matches: 411, Mismatches: 61, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
270 137 0.33
271 266 0.65
272 8 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (272 bp):
CATATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCAATTTCA
ATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAAGAGTA
GCGGAGCAAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTCG
ATTCAATCTTCCTTGAAGAGCAACGAAGTGGATCAAAAAAAATTTCGAGTCTGATCTCCCCTAAA
GAGTAGCAGAGA
Found at i:756815 original size:20 final size:20
Alignment explanation
Indices: 756771--756822 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
756761 TGATTCAATC
* *
756771 AGTATCAATACCGAAGGGAG
1 AGTATCGATACCGAAGGAAG
*
756791 AGTATTGATACCGAATGGAAG
1 AGTATCGATACCGAA-GGAAG
756812 -GTATCGATACC
1 AGTATCGATACC
756823 ATTTTAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (20 bp):
AGTATCGATACCGAAGGAAG
Found at i:757367 original size:45 final size:41
Alignment explanation
Indices: 757316--757627 Score: 220
Period size: 45 Copynumber: 7.8 Consensus size: 41
757306 ATAAAAGAAT
*
757316 AATGCATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATG-CATAG-T-A
*
757361 AATGCATATGGGTGCATTATCGGCAT-AAA-A-G-A-A-T-
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGCATAGTA
757395 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAGATGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATG-CATAG-T-A
757440 AATGCATATGGGTGCATTATCT-GCAT-AAA-A-G-A-A-T-
1 AATGCATATGGGTGCATTAT-TGGCATGAAAGATGCATAGTA
*
757474 -ATACATATGGGTGCATTATTGGCATGAAAGGATGCTATAGCTTA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGC-ATAG--TA
*
757518 AATGCATATGGGTGCATTATCGGCAT-AAA-A-G-A-A-T-
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGCATAGTA
* *
757552 AATGCATATGGGTGCATTACTGGCATGAAAGAATACCATAGTTAA
1 AATGCATATGGGTGCATTATTGGCATGAAAG-AT-GCATAG-T-A
* * * *
757597 AATGCATATCGGTTCATTATCGGCATAAAAG
1 AATGCATATGGGTGCATTATTGGCATGAAAG
757628 TATACTCTAT
Statistics
Matches: 217, Mismatches: 14, Indels: 72
0.72 0.05 0.24
Matches are distributed among these distances:
32 1 0.00
33 22 0.10
34 52 0.24
35 7 0.03
36 3 0.01
37 3 0.01
38 4 0.02
39 4 0.02
40 3 0.01
41 5 0.02
42 3 0.01
43 3 0.01
44 9 0.04
45 97 0.45
46 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (41 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGATGCATAGTA
Found at i:757441 original size:79 final size:79
Alignment explanation
Indices: 757306--757627 Score: 511
Period size: 79 Copynumber: 4.1 Consensus size: 79
757296 GAATGAATGA
*
757306 ATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
757371 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* *
757385 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAGATGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
757450 GGTGCATTATCTGC
66 GGTGCATTATCGGC
* * *
757464 ATAAAAGAAT-ATACATATGGGTGCATTATTGGCATGAAAGGATGCTATAGCTTAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
757528 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* * * * * *
757542 ATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAAGAATACCATAGTTAAAATGCATATC
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
757607 GGTTCATTATCGGC
66 GGTGCATTATCGGC
757621 ATAAAAG
1 ATAAAAG
757628 TATACTCTAT
Statistics
Matches: 223, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 72 0.32
79 151 0.68
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGGC
Found at i:757556 original size:34 final size:34
Alignment explanation
Indices: 757518--757586 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 34
757508 CTATAGCTTA
757518 AATGCATATGGGTGCATTA-TCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTACT-GGCATAAAAGAAT
*
757552 AATGCATATGGGTGCATTACTGGCATGAAAGAAT
1 AATGCATATGGGTGCATTACTGGCATAAAAGAAT
757586 A
1 A
757587 CCATAGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (34 bp):
AATGCATATGGGTGCATTACTGGCATAAAAGAAT
Found at i:757615 original size:157 final size:158
Alignment explanation
Indices: 757306--757627 Score: 522
Period size: 157 Copynumber: 2.0 Consensus size: 158
757296 GAATGAATGA
*
757306 ATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATACATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATG
* *
757371 GGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAG
66 GGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAATGATACCATAG
* * *
757436 ATGAAATGCATATGGGTGCATTATCTGC
131 ATAAAATGCATATCGGTGCATTATCGGC
* * *
757464 ATAAAAGAAT-ATACATATGGGTGCATTATTGGCATGAAAGGATGCTATAGCTTAAATGCATATG
1 ATAAAAGAATAATACATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATG
757528 GGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAA-GAATACCATA
66 GGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAATG-ATACCATA
* *
757592 GTTAAAATGCATATCGGTTCATTATCGGC
130 GATAAAATGCATATCGGTGCATTATCGGC
757621 ATAAAAG
1 ATAAAAG
757628 TATACTCTAT
Statistics
Matches: 152, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
156 1 0.01
157 141 0.93
158 10 0.07
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (158 bp):
ATAAAAGAATAATACATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAATGATACCATAG
ATAAAATGCATATCGGTGCATTATCGGC
Found at i:763774 original size:20 final size:20
Alignment explanation
Indices: 763748--763798 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
763738 GATTCAATCA
763748 GTATCGATACCGAAGGG-AG
1 GTATCGATACCGAAGGGAAG
*
763767 ATTATCGATACCGAAGGGAAG
1 -GTATCGATACCGAAGGGAAG
763788 GTATCGATACC
1 GTATCGATACC
763799 ATTTTAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (20 bp):
GTATCGATACCGAAGGGAAG
Found at i:763847 original size:19 final size:19
Alignment explanation
Indices: 763823--763893 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 19
763813 TGCAAAAATT
763823 GTATCGATACCATGGGAAG
1 GTATCGATACCATGGGAAG
* *
763842 GTATCGGTACCATAGCATGGTA-
1 GTATCGATACCAT-G---GGAAG
*
763864 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGGAA-G
763884 GTATCGATAC
1 GTATCGATAC
763894 TGAGGACCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.05
19 12 0.29
20 11 0.27
21 1 0.02
22 12 0.29
23 3 0.07
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (19 bp):
GTATCGATACCATGGGAAG
Found at i:765008 original size:17 final size:17
Alignment explanation
Indices: 764986--765026 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
764976 ATTGTTGACT
*
764986 GTTGACCGTTGACATGC
1 GTTGACCGTTGACAGGC
*
765003 GTTGACCGTTGACCGGC
1 GTTGACCGTTGACAGGC
765020 GTTGACC
1 GTTGACC
765027 ACCGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.27
Consensus pattern (17 bp):
GTTGACCGTTGACAGGC
Found at i:769468 original size:17 final size:17
Alignment explanation
Indices: 769446--769486 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
769436 ATTGTTGACT
**
769446 GTTGACCGTTGACTTGC
1 GTTGACCGTTGACCGGC
769463 GTTGACCGTTGACCGGC
1 GTTGACCGTTGACCGGC
769480 GTTGACC
1 GTTGACC
769487 ACCGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (17 bp):
GTTGACCGTTGACCGGC
Found at i:770650 original size:45 final size:41
Alignment explanation
Indices: 770599--770911 Score: 263
Period size: 45 Copynumber: 7.8 Consensus size: 41
770589 ATAAAAGAAT
*
770599 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAA
1 AATGCATATGGGTGCATTATCGGCATGAAA-GATG-CATAG-T-A
770644 AATGCATATGGGTGCATTATCGGCAT-AAA-A-G-A-A-T-
1 AATGCATATGGGTGCATTATCGGCATGAAAGATGCATAGTA
*
770678 AATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGATGA
1 AATGCATATGGGTGCATTATCGGCATGAAA-GATG-CATAG-T-A
* *
770723 AATGCATATGGGTGTATTATCGGTAT-AAA-AT--A-A-T-
1 AATGCATATGGGTGCATTATCGGCATGAAAGATGCATAGTA
*
770757 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATCGGCATGAAA-GATG-CATAG-T-A
770802 AATGCATATGGGTGCATTATCGGCAT-AAA-AT--A-A-T-
1 AATGCATATGGGTGCATTATCGGCATGAAAGATGCATAGTA
* *
770836 AATTCATATGGGTGCATTATTGGCATGAAAGTATGCCATAGATGA
1 AATGCATATGGGTGCATTATCGGCATGAAAG-ATG-CATAG-T-A
*
770881 AATGCATATGGGTGCATTATCGGCATAAAAG
1 AATGCATATGGGTGCATTATCGGCATGAAAG
770912 TATACTCTAT
Statistics
Matches: 221, Mismatches: 14, Indels: 66
0.73 0.05 0.22
Matches are distributed among these distances:
34 72 0.33
35 9 0.04
36 3 0.01
37 5 0.02
38 4 0.02
39 3 0.01
40 3 0.01
41 4 0.02
42 5 0.02
43 3 0.01
44 9 0.04
45 101 0.46
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (41 bp):
AATGCATATGGGTGCATTATCGGCATGAAAGATGCATAGTA
Found at i:770682 original size:34 final size:34
Alignment explanation
Indices: 770644--770708 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
770634 CCATAGCTAA
770644 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* *
770678 AATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAG
770709 GATGTCATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:770726 original size:79 final size:79
Alignment explanation
Indices: 770589--770911 Score: 556
Period size: 79 Copynumber: 4.1 Consensus size: 79
770579 GAATGAATGA
* *
770589 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATG
770654 GGTGCATTATCGGC
66 GGTGCATTATCGGC
*
770668 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGATGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATG
* *
770733 GGTGTATTATCGGT
66 GGTGCATTATCGGC
* *
770747 ATAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATG
770812 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* * *
770826 ATAAAATAATAATTCATATGGGTGCATTATTGGCATGAAAGTATGCCATAGATGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATG
770891 GGTGCATTATCGGC
66 GGTGCATTATCGGC
770905 ATAAAAG
1 ATAAAAG
770912 TATACTCTAT
Statistics
Matches: 230, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 230 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATG
GGTGCATTATCGGC
Found at i:770761 original size:34 final size:34
Alignment explanation
Indices: 770723--770861 Score: 134
Period size: 34 Copynumber: 3.8 Consensus size: 34
770713 TCATAGATGA
* *
770723 AATGCATATGGGTGTATTATCGGTATAAAATAAT
1 AATGCATATGGGTGCATTATCGGCATAAAATAAT
*
770757 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTGCATTATCGGCAT-AAA--AT---A-A--T
770800 GAAATGCATATGGGTGCATTATCGGCATAAAATAAT
1 --AATGCATATGGGTGCATTATCGGCATAAAATAAT
* *
770836 AATTCATATGGGTGCATTATTGGCAT
1 AATGCATATGGGTGCATTATCGGCAT
770862 GAAAGTATGC
Statistics
Matches: 88, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
34 47 0.53
35 3 0.03
36 1 0.01
37 2 0.02
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 2 0.02
43 1 0.01
44 3 0.03
45 25 0.28
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAATAAT
Found at i:770912 original size:45 final size:45
Alignment explanation
Indices: 770840--770944 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
770830 AATAATAATT
* * *
770840 CATATGGGTGCATTATTGGCATGAAAGTATGC-CATAGATGAAATG
1 CATATGGGTGCATTATCGGCATAAAAGTATACTC-TAGATGAAATG
**
770885 CATATGGGTGCATTATCGGCATAAAAGTATACTCTATTTGAAATG
1 CATATGGGTGCATTATCGGCATAAAAGTATACTCTAGATGAAATG
770930 CATAAT-GGTGCATTA
1 CAT-ATGGGTGCATTA
770945 CAAACACGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
45 50 0.94
46 3 0.06
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (45 bp):
CATATGGGTGCATTATCGGCATAAAAGTATACTCTAGATGAAATG
Found at i:773291 original size:23 final size:23
Alignment explanation
Indices: 773218--773283 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 23
773208 TTCTTTTATG
773218 AAAAAAGTTAAGTCTTTTCATGAA
1 AAAAAAGTTAAGTCTTTTCAT-AA
* *
773242 AAAAAATGTTAAGCCCTTTCATAA
1 AAAAAA-GTTAAGTCTTTTCATAA
773266 AAAAAAGTTAAGTCTTTT
1 AAAAAAGTTAAGTCTTTT
773284 AATCAAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 10 0.27
24 14 0.38
25 13 0.35
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (23 bp):
AAAAAAGTTAAGTCTTTTCATAA
Done.