Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 87 of 168
Found at i:25897172 original size:13 final size:12
Alignment explanation
Indices: 25897144--25897171 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25897134 AAAAAAAATC
25897144 AAAATTCGAAAA
1 AAAATTCGAAAA
25897156 AAAATTCGAAAA
1 AAAATTCGAAAA
25897168 AAAA
1 AAAA
25897172 AGAAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAATTCGAAAA
Found at i:25897200 original size:26 final size:23
Alignment explanation
Indices: 25897163--25897225 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 23
25897153 AAAAAAATTC
*
25897163 GAAAAAAAAAGAAAAAAAGAAGTGA
1 GAAAAAAAAAGAAAAAAA-AAG-AA
*
25897188 GCAAAAAAAAAGAGTAAAAAAAGAA
1 G-AAAAAAAAAGA-AAAAAAAAGAA
25897213 GAAAAAAAAAGAA
1 GAAAAAAAAAGAA
25897226 GTGAAAAGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 11 0.33
25 3 0.09
26 14 0.42
27 5 0.15
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAAAAAAGAA
Found at i:25897232 original size:13 final size:13
Alignment explanation
Indices: 25897164--25897232 Score: 63
Period size: 13 Copynumber: 5.2 Consensus size: 13
25897154 AAAAAATTCG
25897164 AAAAAA-AA-AGA
1 AAAAAAGAAGAGA
25897175 AAAAAAGAAGTGAGCA
1 AAAAAAGAA--GAG-A
25897191 AAAAAA-AAGAGTA
1 AAAAAAGAAGAG-A
*
25897204 AAAAAAGAAGAAA
1 AAAAAAGAAGAGA
*
25897217 AAAAAAGAAGTGA
1 AAAAAAGAAGAGA
25897230 AAA
1 AAA
25897233 GTCTTGCGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
11 6 0.12
12 2 0.04
13 25 0.52
14 4 0.08
15 4 0.08
16 7 0.15
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.04
Consensus pattern (13 bp):
AAAAAAGAAGAGA
Found at i:25898293 original size:15 final size:15
Alignment explanation
Indices: 25898268--25898314 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
25898258 AGAAAAGAAT
25898268 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
25898284 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
25898299 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
25898314 A
1 A
25898315 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:25898361 original size:12 final size:12
Alignment explanation
Indices: 25898344--25898424 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
25898334 AGTGAAAAGC
*
25898344 AAAAAGAGATTG
1 AAAAAGAAATTG
25898356 AAAAAGAAATTG
1 AAAAAGAAATTG
*
25898368 AAAGAGAAA---
1 AAAAAGAAATTG
*
25898377 AAAAAGAAAGAGTGG
1 AAAAAG-AA-A-TTG
25898392 AAAAAGAAATTG
1 AAAAAGAAATTG
* **
25898404 AAAGAGAGCTTG
1 AAAAAGAAATTG
25898416 -AAAAGAAAT
1 AAAAAGAAAT
25898425 CGAGTGGAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
9 5 0.09
10 2 0.04
11 7 0.13
12 30 0.57
13 1 0.02
14 2 0.04
15 6 0.11
ACGTcount: A:0.63, C:0.01, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAAATTG
Found at i:25898408 original size:21 final size:20
Alignment explanation
Indices: 25898354--25898409 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 20
25898344 AAAAAGAGAT
25898354 TGAAAAAGAAATTGAAAGA-
1 TGAAAAAGAAATTGAAAGAG
25898373 -GAAAAA-AAA--GAAAGAG
1 TGAAAAAGAAATTGAAAGAG
25898389 TGGAAAAAGAAATTGAAAGAG
1 T-GAAAAAGAAATTGAAAGAG
25898410 AGCTTGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.19
17 3 0.10
18 12 0.39
19 3 0.10
21 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (20 bp):
TGAAAAAGAAATTGAAAGAG
Found at i:25900321 original size:20 final size:20
Alignment explanation
Indices: 25900296--25900342 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25900286 AGCTCATTTC
*
25900296 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
25900316 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
25900336 CAGCTCA
1 CAGCTCA
25900343 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:25900345 original size:10 final size:10
Alignment explanation
Indices: 25900286--25900345 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
25900276 AGCTCTGTTT
*
25900286 AGCTCATTTCC
1 AGCTCAATT-C
* *
25900297 AGCTCACTTG
1 AGCTCAATTC
*
25900307 AGCTCAAGTC
1 AGCTCAATTC
25900317 AGCTC-ATTC
1 AGCTCAATTC
*
25900326 GAGATCAATTC
1 -AGCTCAATTC
25900337 AGCTCAATT
1 AGCTCAATT
25900346 TTAACCCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 3 0.08
10 24 0.62
11 12 0.31
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:25903351 original size:12 final size:12
Alignment explanation
Indices: 25903318--25903398 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
25903308 TTTCCACTCG
25903318 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
25903329 AGCTCTCTTTCA
1 ATTTCTTTTTCA
25903341 ATTTCTTTTTCCA
1 ATTTCTTTTT-CA
*
25903354 CTCTTTCTTTTTC-
1 --ATTTCTTTTTCA
*
25903367 --TTCTCTTTCA
1 ATTTCTTTTTCA
25903377 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
25903389 ATCTCTTTTT
1 ATTTCTTTTT
25903399 GCTTTTCACT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
9 8 0.15
11 3 0.06
12 30 0.57
13 2 0.04
14 1 0.02
15 9 0.17
ACGTcount: A:0.12, C:0.25, G:0.01, T:0.62
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:25903359 original size:21 final size:20
Alignment explanation
Indices: 25903333--25903388 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
25903323 TTTTCAAGCT
25903333 CTCTTTCAATTTCTTTTTCCA
1 CTCTTTCAATTTCTTTTT-CA
*
25903354 CTCTTTC--TTT-TTCTT--
1 CTCTTTCAATTTCTTTTTCA
25903369 CTCTTTCAATTTCTTTTTCA
1 CTCTTTCAATTTCTTTTTCA
25903389 ATCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
15 7 0.25
17 3 0.11
18 8 0.29
19 3 0.11
21 7 0.25
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (20 bp):
CTCTTTCAATTTCTTTTTCA
Found at i:25903450 original size:15 final size:15
Alignment explanation
Indices: 25903427--25903473 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
25903417 TTTTGAAATC
25903427 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
25903442 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
25903457 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
25903473 T
1 T
25903474 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:25905099 original size:21 final size:23
Alignment explanation
Indices: 25905054--25905100 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25905044 TCACCTGCAA
* *
25905054 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
25905077 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
25905098 TAA
1 TAA
25905101 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:25910552 original size:17 final size:16
Alignment explanation
Indices: 25910530--25910572 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
25910520 TAGCTTCTTC
25910530 TTTTTTTTTCACGAAA
1 TTTTTTTTTCACGAAA
25910546 TTTTTTTTTCACGAAA
1 TTTTTTTTTCACGAAA
25910562 TTTTTTTTTCA
1 TTTTTTTTTCA
25910573 ACTTGATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTTTTTTCACGAAA
Found at i:25910631 original size:13 final size:12
Alignment explanation
Indices: 25910611--25910653 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 12
25910601 TGGAAACCAT
25910611 TTTTTTTTTGAA
1 TTTTTTTTTGAA
25910623 TTCTTTTTTTGAA
1 TT-TTTTTTTGAA
*
25910636 -TTTTTTTCGAA
1 TTTTTTTTTGAA
25910647 TTTTTTT
1 TTTTTTT
25910654 GAAGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 9 0.32
12 9 0.32
13 10 0.36
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:25910639 original size:10 final size:10
Alignment explanation
Indices: 25910626--25910656 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
25910616 TTTTGAATTC
25910626 TTTTTTTGAA
1 TTTTTTTGAA
25910636 TTTTTTTCGAA
1 TTTTTTT-GAA
25910647 TTTTTTTGAA
1 TTTTTTTGAA
25910657 GAAACTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.03, G:0.10, T:0.68
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:25910640 original size:11 final size:11
Alignment explanation
Indices: 25910612--25910653 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
25910602 GGAAACCATT
25910612 TTTTTTTTGAA
1 TTTTTTTTGAA
25910623 TTCTTTTTTTGAA
1 -T-TTTTTTTGAA
*
25910636 TTTTTTTCGAA
1 TTTTTTTTGAA
25910647 TTTTTTT
1 TTTTTTT
25910654 GAAGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 16 0.57
12 2 0.07
13 10 0.36
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:25911690 original size:21 final size:23
Alignment explanation
Indices: 25911645--25911691 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25911635 TCACCTGCAA
* *
25911645 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
25911668 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
25911689 TAA
1 TAA
25911692 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:25928439 original size:18 final size:17
Alignment explanation
Indices: 25928417--25928449 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25928407 GAAATCCTCT
25928417 TTTTTTTTCAATTTTTA
1 TTTTTTTTCAATTTTTA
25928434 TTTTTTTTCAATTTTT
1 TTTTTTTTCAATTTTT
25928450 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCAATTTTTA
Found at i:25932745 original size:15 final size:15
Alignment explanation
Indices: 25932725--25932776 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
25932715 GCTCTCATCA
*
25932725 TTCTTTTTTTTCTTT
1 TTCTTTTTTCTCTTT
**
25932740 TTCTTTTCACTCTTT
1 TTCTTTTTTCTCTTT
*
25932755 TT-GTTTTTCTCTTT
1 TTCTTTTTTCTCTTT
25932769 TTCTTTTT
1 TTCTTTTT
25932777 CTCGCTCAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (15 bp):
TTCTTTTTTCTCTTT
Found at i:25932766 original size:14 final size:14
Alignment explanation
Indices: 25932729--25932779 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
25932719 TCATCATTCT
*
25932729 TTTTTTTCTTTTTC
1 TTTTTCTCTTTTTC
* *
25932743 TTTTCACTCTTTTTG
1 TTTT-TCTCTTTTTC
25932758 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
25932772 TTTTTCTC
1 TTTTTCTC
25932780 GCTCAATAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Found at i:25934864 original size:12 final size:12
Alignment explanation
Indices: 25934847--25934877 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25934837 AATATATATA
*
25934847 TTTTTTTCGAAT
1 TTTTTTTCAAAT
25934859 TTTTTTTCAAAT
1 TTTTTTTCAAAT
25934871 TTTTTTT
1 TTTTTTT
25934878 TACAATCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTTTCAAAT
Found at i:25943006 original size:24 final size:24
Alignment explanation
Indices: 25942951--25943029 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 24
25942941 GATTAGTTAA
*
25942951 GAAATGGTATTTGGGTTTTGGTAC
1 GAAATGGTATTTGGGATTTGGTAC
*** *
25942975 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTTGGGATTTGGTAC
*
25942999 GAAATGGTA-AT-GGATTTGGTAC
1 GAAATGGTATTTGGGATTTGGTAC
25943021 GAAATGGTA
1 GAAATGGTA
25943030 ATGGTTCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
22 19 0.42
23 1 0.02
24 25 0.56
ACGTcount: A:0.25, C:0.04, G:0.33, T:0.38
Consensus pattern (24 bp):
GAAATGGTATTTGGGATTTGGTAC
Found at i:25943020 original size:22 final size:22
Alignment explanation
Indices: 25942992--25943033 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
25942982 TATTTGGGAA
25942992 TTGGTACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
25943014 TTGGTACGAAATGGTAATGG
1 TTGGTACGAAATGGTAATGG
25943034 TTCAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:25944121 original size:10 final size:10
Alignment explanation
Indices: 25944106--25944147 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
25944096 TTTGCAAGTT
25944106 TTGAGCTAAA
1 TTGAGCTAAA
* *
25944116 TTGAGCTGAT
1 TTGAGCTAAA
*
25944126 TTGAGCT-CA
1 TTGAGCTAAA
25944135 TTGAGCTAAA
1 TTGAGCTAAA
25944145 TTG
1 TTG
25944148 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:25944759 original size:29 final size:29
Alignment explanation
Indices: 25944722--25944794 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
25944712 TTAGATATTA
* *
25944722 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
*
25944751 TTAATTATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
25944780 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
25944795 ACTAATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.47
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:25949478 original size:11 final size:11
Alignment explanation
Indices: 25949462--25949512 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
25949452 AGTAGACTCG
25949462 TGAAAAAAAAT
1 TGAAAAAAAAT
25949473 TGAAAAAAAA-
1 TGAAAAAAAAT
*
25949483 T-CAAAAAAAT
1 TGAAAAAAAAT
** *
25949493 CAAAAAAAAAC
1 TGAAAAAAAAT
25949504 TGAAAAAAA
1 TGAAAAAAA
25949513 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.22
10 1 0.03
11 24 0.75
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (11 bp):
TGAAAAAAAAT
Found at i:25949488 original size:9 final size:9
Alignment explanation
Indices: 25949476--25949500 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25949466 AAAAAATTGA
25949476 AAAAAAATC
1 AAAAAAATC
25949485 AAAAAAATC
1 AAAAAAATC
25949494 AAAAAAA
1 AAAAAAA
25949501 AACTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:25949490 original size:20 final size:20
Alignment explanation
Indices: 25949465--25949520 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
25949455 AGACTCGTGA
25949465 AAAAAAATTGAAAAAAAA-TC
1 AAAAAAA-TGAAAAAAAACTC
* *
25949485 AAAAAAATCAAAAAAAAACTG
1 AAAAAAAT-GAAAAAAAACTC
25949506 AAAAAAA-GAAAAAAA
1 AAAAAAATGAAAAAAA
25949521 TTGCATACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 8 0.26
20 15 0.48
21 8 0.26
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.09
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAACTC
Found at i:25952499 original size:11 final size:11
Alignment explanation
Indices: 25952483--25952521 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
25952473 ACGAGATTGT
25952483 AAAAAAATCAA
1 AAAAAAATCAA
25952494 AAAAAAATC--
1 AAAAAAATCAA
25952503 -AAAAAATCAA
1 AAAAAAATCAA
25952513 AAAAAAATC
1 AAAAAAATC
25952522 TTATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.32
11 17 0.68
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:25952508 original size:19 final size:19
Alignment explanation
Indices: 25952484--25952521 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25952474 CGAGATTGTA
25952484 AAAAAATCAAAAAAAAATC
1 AAAAAATCAAAAAAAAATC
25952503 AAAAAATCAAAAAAAAATC
1 AAAAAATCAAAAAAAAATC
25952522 TTATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAATCAAAAAAAAATC
Found at i:25953262 original size:15 final size:16
Alignment explanation
Indices: 25953236--25953265 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25953226 CCTTAACGGT
25953236 TCCAACGAAATCGAGC
1 TCCAACGAAATCGAGC
25953252 TCCAA-GAAATCGAG
1 TCCAACGAAATCGAG
25953266 ATCGTCCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (16 bp):
TCCAACGAAATCGAGC
Found at i:25954655 original size:15 final size:14
Alignment explanation
Indices: 25954619--25954673 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
25954609 TCTATTGAGC
25954619 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
25954633 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
25954647 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
25954662 GAAAGAAAAGAA
1 GAGA-AAAAGAA
25954674 TGATGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:25956071 original size:10 final size:10
Alignment explanation
Indices: 25956056--25956097 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
25956046 TTTGCAAGTT
25956056 TTGAGCTAAA
1 TTGAGCTAAA
* *
25956066 TTGAGCTGAT
1 TTGAGCTAAA
*
25956076 TTGAGCT-CA
1 TTGAGCTAAA
25956085 TTGAGCTAAA
1 TTGAGCTAAA
25956095 TTG
1 TTG
25956098 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:25976333 original size:15 final size:14
Alignment explanation
Indices: 25976295--25976337 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
25976285 CATCTAACTT
*
25976295 AAAAACTAAGAAATA
1 AAAAAATAA-AAATA
*
25976310 AATAAATAAAAATAA
1 AAAAAATAAAAAT-A
25976325 AAAAAATAAAAAT
1 AAAAAATAAAAAT
25976338 CATTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:25977321 original size:13 final size:13
Alignment explanation
Indices: 25977305--25977339 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25977295 TTTAAACAAA
*
25977305 TTAATTAACTTAT
1 TTAATTAACTAAT
25977318 TTAATTAACTAAT
1 TTAATTAACTAAT
*
25977331 TTAACTAAC
1 TTAATTAAC
25977340 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:25977870 original size:50 final size:52
Alignment explanation
Indices: 25977745--25977875 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 52
25977735 AAACTAAATG
* * * *
25977745 AGTTACTTAATGCA-AGACTTAATTTAATGATGCTGACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCTGACATAAACTAACATGGA
** *
25977797 AGTTACATAATGCATGTCATTATTT-ATGATGCAT-ACAT-AACTAACATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGC-TGACATAAACTAACATGGA
*
25977847 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
25977876 CAGAACACGC
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
50 32 0.49
51 13 0.20
52 20 0.31
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCTGACATAAACTAACATGGA
Found at i:25979602 original size:18 final size:18
Alignment explanation
Indices: 25979553--25979609 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
25979543 TTACTCAATA
25979553 TCTTTTCTCTCTTCAA-TT
1 TCTTTTCTCT-TTCAATTT
* * *
25979571 TCAATCTCTTTTTCAATTT
1 TC-TTTTCTCTTTCAATTT
25979590 TCTTTTCTCTTTCACATTT
1 TCTTTTCTCTTTCA-ATTT
25979609 T
1 T
25979610 TGTTTACTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (18 bp):
TCTTTTCTCTTTCAATTT
Found at i:25981671 original size:20 final size:20
Alignment explanation
Indices: 25981646--25981691 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
25981636 TTTCCAACAC
25981646 TTTTTTTGAAGTTTCGTTTT
1 TTTTTTTGAAGTTTCGTTTT
* *
25981666 TTTTTTTGAATTTTTGTTTT
1 TTTTTTTGAAGTTTCGTTTT
25981686 TTTTTT
1 TTTTTT
25981692 CAATACTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.02, G:0.11, T:0.78
Consensus pattern (20 bp):
TTTTTTTGAAGTTTCGTTTT
Found at i:25983166 original size:52 final size:50
Alignment explanation
Indices: 25983108--25983224 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 50
25983098 CAAACTAAAT
* *
25983108 GAGTTACTTAATGCAAG-CCTTAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCAAGTCATT-ATTT-ATGATGCAGACTT-AACTAACATGG
* * *
25983160 GAGTTACATAATGCATGTCATTATTTATGATGCATAGTTAACTAACATGG
1 GAGTTACATAATGCAAGTCATTATTTATGATGCAGACTTAACTAACATGG
*
25983210 AAGTTACATAATGCA
1 GAGTTACATAATGCA
25983225 TAACTTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 25 0.43
51 11 0.19
52 19 0.33
53 3 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (50 bp):
GAGTTACATAATGCAAGTCATTATTTATGATGCAGACTTAACTAACATGG
Found at i:25983234 original size:50 final size:52
Alignment explanation
Indices: 25983130--25983239 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 52
25983120 GCAAGCCTTA
* **
25983130 ATTTAATGATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGTCATT
1 ATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATT
* * *
25983182 ATTT-ATGATGCATAGTT-AACTAACATGGAAGTTACATAATGCATAACTTT
1 ATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATT
*
25983232 ATTAAATG
1 ATTTAATG
25983240 CAGAACACAC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 32 0.64
51 14 0.28
52 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
ATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATT
Found at i:25985658 original size:22 final size:22
Alignment explanation
Indices: 25985606--25985670 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
25985596 TATTTGGGAA
* * *
25985606 TTGGTATGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
25985628 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
25985650 TTGGTACGAAAATGGAAATGG
1 TTGGTACG-AAATGGTAATGG
25985671 TTCAAAAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:25988989 original size:16 final size:16
Alignment explanation
Indices: 25988968--25989001 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25988958 TAGTAAGACA
25988968 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
25988984 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
25989000 TA
1 TA
25989002 GGACATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:25989082 original size:17 final size:18
Alignment explanation
Indices: 25989044--25989087 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
25989034 TCCAGGTTTT
*
25989044 TTTAAC-AAATTAATTAA
1 TTTAACTAAATTAACTAA
*
25989061 CTTAACTAAA-TAACTAA
1 TTTAACTAAATTAACTAA
25989078 TTTAACTAAA
1 TTTAACTAAA
25989088 GACAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAACTAAATTAACTAA
Found at i:25989171 original size:10 final size:11
Alignment explanation
Indices: 25989145--25989173 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25989135 AATCAAGCTC
25989145 ATTGAGCTAAG
1 ATTGAGCTAAG
25989156 ATTGAGCTAA-
1 ATTGAGCTAAG
25989166 ATTGAGCT
1 ATTGAGCT
25989174 TGAATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAAG
Found at i:25995706 original size:21 final size:21
Alignment explanation
Indices: 25995654--25995722 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
25995644 AGGACCTTCC
25995654 AGTCCACCTCCAAGAGGAGTT
1 AGTCCACCTCCAAGAGGAGTT
* *
25995675 -GGCCCCACTCCAAGAGGAGTT
1 AGTCCAC-CTCCAAGAGGAGTT
* *
25995696 AGTCTACCTCCAAG-GGAAGTC
1 AGTCCACCTCCAAGAGG-AGTT
25995717 AGTCCA
1 AGTCCA
25995723 ACTCGGATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 6 0.16
21 29 0.76
22 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (21 bp):
AGTCCACCTCCAAGAGGAGTT
Found at i:25996009 original size:84 final size:84
Alignment explanation
Indices: 25995904--25996109 Score: 229
Period size: 84 Copynumber: 2.4 Consensus size: 84
25995894 CCAAGAGGAG
* * * * *
25995904 TCAGTCCAACTTCAAGGGTAGTTAGTCCAATTCAAATAAGAACATCCAGCAT-ATTGAGTCAATC
1 TCAGTTCAACTCCAAGGGTAGTAAGTCCAACTCAAATAAGAACATCCA-CATCATCGAGTCAATC
* *
25995968 TCATAG-TTCGACTTCAGTTA
65 CCATAGCTT-AACTTCAGTTA
* * ** ** *
25995988 TTAGTTCAACTCCAAGGGTAGTCAGTCCAACTCGGATGGGAACATCCACCTCATCGAGTCAATCC
1 TCAGTTCAACTCCAAGGGTAGTAAGTCCAACTCAAATAAGAACATCCACATCATCGAGTCAATCC
25996053 CATAGCTTAACTTCAGTTA
66 CATAGCTTAACTTCAGTTA
25996072 TCAGTTCAACTCCAAGAGG-AGTAAGTCCAACTCCAAAT
1 TCAGTTCAACTCCAAG-GGTAGTAAGTCCAACT-CAAAT
25996110 GTTATCATTT
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
83 2 0.02
84 92 0.91
85 7 0.07
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (84 bp):
TCAGTTCAACTCCAAGGGTAGTAAGTCCAACTCAAATAAGAACATCCACATCATCGAGTCAATCC
CATAGCTTAACTTCAGTTA
Found at i:25996128 original size:42 final size:42
Alignment explanation
Indices: 25996068--25996149 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
25996058 CTTAACTTCA
*
25996068 GTTATCAGTTCAACTCCAAGAGGAGT-AAGTCCAACTCCAAAT
1 GTTATCAGTTCAACTCCAAGAGGACTCAA-TCCAACTCCAAAT
* *
25996110 GTTATCATTTCAATTCCAAGAGGACTCAATCCAACTCCAA
1 GTTATCAGTTCAACTCCAAGAGGACTCAATCCAACTCCAA
25996150 TCAGGATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (42 bp):
GTTATCAGTTCAACTCCAAGAGGACTCAATCCAACTCCAAAT
Found at i:25996335 original size:21 final size:21
Alignment explanation
Indices: 25996309--25996356 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
25996299 GTTATGGATT
25996309 CAACTCCAAGAGG-AGCCAGTC
1 CAACTCCAAG-GGTAGCCAGTC
**
25996330 CAACTCCAAGGGTAGTTAGTC
1 CAACTCCAAGGGTAGCCAGTC
25996351 CAACTC
1 CAACTC
25996357 AGATGAGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (21 bp):
CAACTCCAAGGGTAGCCAGTC
Found at i:25996417 original size:84 final size:84
Alignment explanation
Indices: 25996324--25996524 Score: 269
Period size: 84 Copynumber: 2.4 Consensus size: 84
25996314 CCAAGAGGAG
*
25996324 CCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCACCTCATCGAGTCAATCC
1 CCAGTCCAACTCTAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCACCTCATCGAGTCAATCC
*
25996389 CATAGCTCAACTTCAATTA
66 CATAGCTCAACCTCAATTA
* * ** * * *
25996408 CCAGTCCAACTCTAATGGTAGTTACTCCAACTTGGATGAGGACGTCCACCTCATCTAGTCAATCT
1 CCAGTCCAACTCTAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCACCTCATCGAGTCAATCC
*
25996473 CATAGCTCAACCTCAGTTA
66 CATAGCTCAACCTCAATTA
* * *
25996492 TCAGTTCAACTCTAAGAGG-AGTCAGTCCAACTC
1 CCAGTCCAACTCTAAG-GGTAGTTAGTCCAACTC
25996525 CAAGGGTAGT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
84 98 0.98
85 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (84 bp):
CCAGTCCAACTCTAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCACCTCATCGAGTCAATCC
CATAGCTCAACCTCAATTA
Found at i:25996418 original size:105 final size:105
Alignment explanation
Indices: 25995681--25996419 Score: 553
Period size: 105 Copynumber: 7.0 Consensus size: 105
25995671 AGTTGGCCCC
* * * * * * * *
25995681 ACTCCAAGAGGAGTTAGTCTACCTCCAAGGGAAGTCAGTCCAACTCGGATTAGGACATCCATCGC
1 ACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTCAGTCCAACTCAGATGAGGACATCCACCTC
* * * *
25995746 ATCAAGTCAATCCCAAAACTCAACTTCAGTTTTCAGTTCA
66 ATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCA
* * * *
25995786 ACTCCAAGAGGAGTCATTCCAACTCCAAGGGTACTGAGTCCAACT-AGGATGAGGACATCCAACT
1 ACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTCAGTCCAACTCA-GATGAGGACATCCACCT
* * * *
25995850 CATCAAGTCAGTCCCATAGCTCAACTTCAGTTCTCATTTCA
65 CATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCA
* * * * * * * *
25995891 ACCCCAAGAGGAGTCAGTCCAACTTCAAGGGTAGTTAGTCCAATTCAAATAAGAACATCCAGCAT
1 ACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTCAGTCCAACTCAGATGAGGACATCCA-CCT
* * * * *
25995956 -ATTGAGTCAATCTCATAGTTCGACTTCAGTTATTAGTTCA
65 CATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCA
* * * * *
25995996 ACTCCAAG-GGTAGTCAGTCCAACTCGGATGGG-A-ACA-TCCACCTC--ATCGA-GTCAATCC-
1 ACTCCAAGAGG-AGTCAGTCCAACTC-CAAGGGTAGTCAGTCCAACTCAGAT-GAGGAC-ATCCA
* ** * * * * * ** * *
25996053 CAT-AGCTTAACTTCAGT--TATCAGTTCAACTCCAAGAGGAGTAAGTCCA
62 CCTCA--TCGA-GTCAATCCCAT-AGCTCAACTTC-AG-TTA-TCAGTTCA
* * * * * * * *
25996101 ACTCCAA-ATGTTA-TCATTTCAATTCCAAGAGG-ACTCAATCCAACTCCA-ATCAGGATATCCA
1 ACTCCAAGA-G-GAGTCAGTCCAACTCCAAG-GGTAGTCAGTCCAACT-CAGATGAGGACATCCA
*
25996162 CCTCATCGAGTCAATCCCATAGCTCCACTTCAGTTATCAGTTCA
62 CCTCATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCA
* * *
25996206 ACTCCAAGAGG-GTTCAATCCAACTCCAAGGGTAGTTAGTCCAACTCGGATGAGGACATCCACCT
1 ACTCCAAGAGGAG-TCAGTCCAACTCCAAGGGTAGTCAGTCCAACTCAGATGAGGACATCCACCT
* *
25996270 CATCGAGTCAATGCCATAGCTCAACTTCAGTTAT-GGATTCA
65 CATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAG-TTCA
* *
25996311 ACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCACCTC
1 ACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTCAGTCCAACTCAGATGAGGACATCCACCTC
* * *
25996376 ATCGAGTCAATCCCATAGCTCAACTTCAATTACCAGTCCA
66 ATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCA
25996416 ACTC
1 ACTC
25996420 TAATGGTAGT
Statistics
Matches: 497, Mismatches: 102, Indels: 70
0.74 0.15 0.10
Matches are distributed among these distances:
100 4 0.01
101 5 0.01
102 17 0.03
103 12 0.02
104 10 0.02
105 399 0.80
106 14 0.03
107 12 0.02
108 16 0.03
109 7 0.01
110 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (105 bp):
ACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTCAGTCCAACTCAGATGAGGACATCCACCTC
ATCGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCA
Found at i:25996449 original size:189 final size:189
Alignment explanation
Indices: 25996223--25996770 Score: 589
Period size: 189 Copynumber: 2.9 Consensus size: 189
25996213 GAGGGTTCAA
*
25996223 TCCAACTCCAAGGGTAGTTAGTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATGC-CAT
1 TCCAACTCCAAGGGTAGTTACTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAAT-CTCAT
* *
25996287 AGCTCAACTTCAGTTAT-GGATTCAACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTC
65 AGCTCAACCTCAGTTATCAG-TTCAACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTC
25996351 CAACTCAGATGAGGACATCCACCTCATCGAGTCAATCCCATAGCTCAACTTCAATTACCAG
129 CAACTCAGATGAGGACATCCACCTCATCGAGTCAATCCCATAGCTCAACTTCAATTACCAG
* * * * *
25996412 TCCAACTCTAATGGTAGTTACTCCAACTTGGATGAGGACGTCCACCTCATCTAGTCAATCTCATA
1 TCCAACTCCAAGGGTAGTTACTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATCTCATA
* *
25996477 GCTCAACCTCAGTTATCAGTTCAACTCTAAGAGGAGTCAGTCCAACTCCAAGGGTAGTTAGTCCA
66 GCTCAACCTCAGTTATCAGTTCAACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCA
* * * * **
25996542 ACTCGGATGAGGACATCCACCTC-T--AG-CACAACCTCAGTTATCAATTCAACTCCAAGAGGAC
131 ACTCAGATGAGGACATCCACCTCATCGAGTCA-ATCC-CA--TAGC---TCAACTTC-A-ATTAC
*
25996603 TTAG
187 -CAG
* *
25996607 TCCAACTCCAAGGGTAGTTAGTCCAAATCGGATGAGG--AT--A--TC--C-A--C---CTC-TA
1 TCCAACTCCAAGGGTAGTTACTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATCTCATA
* ** ** * *
25996657 GCTCAACCTCAGTTATCAATTCAACTCCAAGAGGAGTTAGTCCTTCTCCAAGGGTAGTCAATCCA
66 GCTCAACCTCAGTTATCAGTTCAACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCA
* *
25996722 ACTCAAATGAGGACATCCACCTCATCTAGTCAATCCCATAGCTCAACTT
131 ACTCAGATGAGGACATCCACCTCATCGAGTCAATCCCATAGCTCAACTT
25996771 TAGATATCAA
Statistics
Matches: 308, Mismatches: 35, Indels: 44
0.80 0.09 0.11
Matches are distributed among these distances:
177 6 0.02
180 84 0.27
181 4 0.01
182 2 0.01
183 5 0.02
184 3 0.01
185 2 0.01
186 6 0.02
187 3 0.01
188 2 0.01
189 143 0.46
190 1 0.00
191 1 0.00
192 7 0.02
193 2 0.01
194 3 0.01
195 34 0.11
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (189 bp):
TCCAACTCCAAGGGTAGTTACTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATCTCATA
GCTCAACCTCAGTTATCAGTTCAACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCA
ACTCAGATGAGGACATCCACCTCATCGAGTCAATCCCATAGCTCAACTTCAATTACCAG
Found at i:25996458 original size:420 final size:420
Alignment explanation
Indices: 25995745--25996527 Score: 1115
Period size: 420 Copynumber: 1.9 Consensus size: 420
25995735 ACATCCATCG
* *
25995745 CATCAAGTCAATCCCAAAACTCAACTTCAGTTTTCAGTTCAACTCCAAGAGGAGTCATTCCAACT
1 CATCAAGTCAATCCCAAAACTCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCAATCCAACT
*
25995810 CCAAGGGTACTGAGTCCAACTAGGATGAGGACATCCAACTCATCAAGTCAGTCCCATAGCTCAAC
66 CCAAGGGTACTGAGTCCAACTAGGATGAGGACATCCAACTCATCAAGTCAATCCCATAGCTCAAC
* * * *
25995875 TTCAGTTCTCATTTCAACCCCAAGAGGAGTCAGTCCAACTTCAAGGGTAGTTAGTCCAATTCAAA
131 TTCAGTTATCATTTCAACCCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCAAA
* * * * * ** *
25995940 TAAGAACATCCAGCATATTGAGTCAATCTCATAGTTCGACTTCAGTTATTAGTTCAACTCCAAGG
196 TAAGAACATCCAGCATATCGAGTCAATCCCATAGCTCAACTTCAATTACCAGTCCAACTCCAAGG
* * *
25996005 GTAGTCAGTCCAACTCGGATGGGAACATCCACCTCATCGAGTCAATCCCATAGCTTAACTTCAGT
261 GTAGTCACTCCAACTCGGATGGGAACATCCACCTCATCGAGTCAATCCCATAGCTCAACCTCAGT
25996070 TATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAAATGTTATCATTTCAATTCCAAGAGGAC
326 TATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAAATGTTATCATTTCAATTCCAAGAGGAC
25996135 TCAATCCAACTCCAATCAGGATATCCACCT
391 TCAATCCAACTCCAATCAGGATATCCACCT
* * * *
25996165 CATCGAGTCAATCCCATAGCTCCACTTCAGTTATCAGTTCAACTCCAAGAGG-GTTCAATCCAAC
1 CATCAAGTCAATCCCAAAACTCAACTTCAGTTATCAGTTCAACTCCAAGAGGAG-TCAATCCAAC
* * * * * *
25996229 TCCAAGGGTAGTTAGTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATGCCATAGCTCAA
65 TCCAAGGGTACTGAGTCCAACTAGGATGAGGACATCCAACTCATCAAGTCAATCCCATAGCTCAA
* *
25996294 CTTCAGTTATGGA-TTCAACTCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCA
130 CTTCAGTTAT-CATTTCAACCCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCA
* * * * *
25996358 GATGAGGACATCCA-CCTCATCGAGTCAATCCCATAGCTCAACTTCAATTACCAGTCCAACTCTA
194 AATAAGAACATCCAGCAT-ATCGAGTCAATCCCATAGCTCAACTTCAATTACCAGTCCAACTCCA
* * * * * *
25996422 ATGGTAGTTACTCCAACTTGGATGAGG-ACGTCCACCTCATCTAGTCAATCTCATAGCTCAACCT
258 AGGGTAGTCACTCCAACTCGGATG-GGAACATCCACCTCATCGAGTCAATCCCATAGCTCAACCT
* *
25996486 CAGTTATCAGTTCAACTCTAAGAGGAGTCAGTCCAACTCCAA
322 CAGTTATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAA
25996528 GGGTAGTTAG
Statistics
Matches: 316, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
419 3 0.01
420 310 0.98
421 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (420 bp):
CATCAAGTCAATCCCAAAACTCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCAATCCAACT
CCAAGGGTACTGAGTCCAACTAGGATGAGGACATCCAACTCATCAAGTCAATCCCATAGCTCAAC
TTCAGTTATCATTTCAACCCCAAGAGGAGCCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCAAA
TAAGAACATCCAGCATATCGAGTCAATCCCATAGCTCAACTTCAATTACCAGTCCAACTCCAAGG
GTAGTCACTCCAACTCGGATGGGAACATCCACCTCATCGAGTCAATCCCATAGCTCAACCTCAGT
TATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAAATGTTATCATTTCAATTCCAAGAGGAC
TCAATCCAACTCCAATCAGGATATCCACCT
Found at i:25996539 original size:21 final size:21
Alignment explanation
Indices: 25996492--25996545 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
25996482 ACCTCAGTTA
* *
25996492 TCAGTTCAACTCTAAGAGGAG
1 TCAGTCCAACTCCAAGAGGAG
25996513 TCAGTCCAACTCCAAG-GGTAG
1 TCAGTCCAACTCCAAGAGG-AG
*
25996534 TTAGTCCAACTC
1 TCAGTCCAACTC
25996546 GGATGAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (21 bp):
TCAGTCCAACTCCAAGAGGAG
Found at i:25996578 original size:90 final size:90
Alignment explanation
Indices: 25996475--25996744 Score: 423
Period size: 90 Copynumber: 3.0 Consensus size: 90
25996465 GTCAATCTCA
* * *
25996475 TAGCTCAACCTCAGTTATCAGTTCAACTCTAAGAGGAGTCAGTCCAACTCCAAGGGTAGTTAGTC
1 TAGCTCAACCTCAGTTATCAATTCAACTCCAAGAGGAGTTAGTCCAACTCCAAGGGTAGTTAGTC
25996540 CAACTCGGATGAGGACATCCACCTC
66 CAACTCGGATGAGGACATCCACCTC
* *
25996565 TAGCACAACCTCAGTTATCAATTCAACTCCAAGAGGACTTAGTCCAACTCCAAGGGTAGTTAGTC
1 TAGCTCAACCTCAGTTATCAATTCAACTCCAAGAGGAGTTAGTCCAACTCCAAGGGTAGTTAGTC
* *
25996630 CAAATCGGATGAGGATATCCACCTC
66 CAACTCGGATGAGGACATCCACCTC
** * *
25996655 TAGCTCAACCTCAGTTATCAATTCAACTCCAAGAGGAGTTAGTCCTTCTCCAAGGGTAGTCAATC
1 TAGCTCAACCTCAGTTATCAATTCAACTCCAAGAGGAGTTAGTCCAACTCCAAGGGTAGTTAGTC
**
25996720 CAACTCAAATGAGGACATCCACCTC
66 CAACTCGGATGAGGACATCCACCTC
25996745 ATCTAGTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 163 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (90 bp):
TAGCTCAACCTCAGTTATCAATTCAACTCCAAGAGGAGTTAGTCCAACTCCAAGGGTAGTTAGTC
CAACTCGGATGAGGACATCCACCTC
Found at i:25996614 original size:21 final size:21
Alignment explanation
Indices: 25996588--25996632 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
25996578 GTTATCAATT
25996588 CAACTCCAAGAGG-ACTTAGTC
1 CAACTCCAAG-GGTACTTAGTC
*
25996609 CAACTCCAAGGGTAGTTAGTC
1 CAACTCCAAGGGTACTTAGTC
25996630 CAA
1 CAA
25996633 ATCGGATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (21 bp):
CAACTCCAAGGGTACTTAGTC
Found at i:26002067 original size:41 final size:41
Alignment explanation
Indices: 26001979--26002070 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
26001969 TGACCTTTTG
* * * *
26001979 GGGGCTTTAGTGGCGTTTTTAGAATATCGCCGCTAATGTTT
1 GGGGTTTTAGTGACGTTTTTAGAATATCGCCGCTAATGCTC
* *
26002020 GGGGTTTTAGTGACGTTTTTAG-TTTTGCGCCGCTAATGCTC
1 GGGGTTTTAGTGACGTTTTTAGAATAT-CGCCGCTAATGCTC
*
26002061 GTGGTTTTAG
1 GGGGTTTTAG
26002071 CAGCATTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.05
41 41 0.95
ACGTcount: A:0.14, C:0.14, G:0.30, T:0.41
Consensus pattern (41 bp):
GGGGTTTTAGTGACGTTTTTAGAATATCGCCGCTAATGCTC
Found at i:26002793 original size:21 final size:20
Alignment explanation
Indices: 26002767--26002814 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
26002757 CTTGTATGGA
26002767 TTTAGGGTTT-GGGATTTAAGG
1 TTTAGGGTTTAGGG--TTAAGG
26002788 TTTAGGGTTTAGGGTTAAGG
1 TTTAGGGTTTAGGGTTAAGG
*
26002808 GTTAGGG
1 TTTAGGG
26002815 GTTAAAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 10 0.40
22 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (20 bp):
TTTAGGGTTTAGGGTTAAGG
Found at i:26002796 original size:7 final size:7
Alignment explanation
Indices: 26002767--26002814 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
26002757 CTTGTATGGA
26002767 TTTAGGG
1 TTTAGGG
26002774 TTT-GGG
1 TTTAGGG
*
26002780 ATTTAAGG
1 -TTTAGGG
26002788 TTTAGGG
1 TTTAGGG
26002795 TTTAGGG
1 TTTAGGG
*
26002802 TTAAGGG
1 TTTAGGG
26002809 -TTAGGG
1 TTTAGGG
26002815 GTTAAAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 8 0.23
7 25 0.71
8 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:26004373 original size:336 final size:332
Alignment explanation
Indices: 26003491--26004605 Score: 1178
Period size: 337 Copynumber: 3.3 Consensus size: 332
26003481 ACCGTTTGGT
* * * * *
26003491 TTAAGTAAAATAATTTTTAGTGGCATGTTTAAA-AAAATGCCAGAACTGTGCATTGAAGCTTAAT
1 TTAAGCAAATTAATTTTTACTGGCAT-TTTAAAGAAAATGCCAGAAATGTGCATTAAAGCTTAAT
* * * *
26003555 AAAACGGCG-CAGTTTCCGATTAGAACTTTAACA-ATTAGTGGTGTTTTTGTTA-AAAACGCCGC
65 AAAACGGCGTC-GTTTCGGATTAGAACTTTAA-ATTTTAGTGGCG-CTTT-TTAGAAAACGCCGC
* * ** *
26003617 TACTGTTGAAGCAATAGCGGCGTTTGTAC-AAGAAACGCCGCAAAAGTGACTTAAAATTTTGGTT
126 AAATGTACAAGCAATAGCGGCGTTTGT-CTAAGAAACGCCGCAAAAGTGTCTTAAAATTTT-GTT
* * * *
26003681 GAACGACGCCGTTTCTGTCCACAATTTTTAACTTAGCATTTTCTCTATATTAATTAAAC-GGTGC
189 AAACGACGCCGTTTCTGTACAC-GTTTTTAACTTAGCATTTTCTCTATATTAATTCAACGGGT-C
* * * * *
26003745 CGTTTATGTTAATTTTTAGTGGCGTTTGTTCAGGAAACGCCGCAAAAGTGACTTGAAATATTGGC
252 CATTTCTGTTAATTTTT-GTGGCGTTT-TTCACGAAACGCCGCAAAAGTGACTTAAAATATTGCC
* * * *
26003810 TAAAAGTCGAT-GTCTAAC
315 TAAACGAC-ATCGTTTAGC
* * * *
26003828 TTAAGCAAATTAATTTTTAGTGGCATTTTAAAGGAAAAGGCCAGAAATGTGCATTAAATCTTAAC
1 TTAAGCAAATTAATTTTTACTGGCATTTTAAA-GAAAATGCCAGAAATGTGCATTAAAGCTTAAT
* * *
26003893 AAAACGGTGTCGTTTCGGATTAGAACCTT-AATTCTTTGTGGCGCTTCTTTAG-AAACGCCGCAA
65 AAAACGGCGTCGTTTCGGATTAGAACTTTAAATT-TTAGTGGCGCTT-TTTAGAAAACGCCGCAA
* * * * * *
26003956 ATATACAAGCTATAGCAGCGTTTGT-TCAATAAACGCCACAAAAGTGTCTTAAAATTTTTGGTAA
128 ATGTACAAGCAATAGCGGCGTTTGTCT-AAGAAACGCCGCAAAAGTGTCTTAAAA-TTTTGTTAA
* *
26004020 ACGACGCCGTCTCTGTACACGCTTTTATACTTAGCATTTTCTCTATATTAATTCAACGGGTCCAT
191 ACGACGCCGTTTCTGTACACGTTTTTA-ACTTAGCATTTTCTCTATATTAATTCAACGGGTCCAT
* ** * *
26004085 TTCTGTTAATTTCTTGTGGCATTTTTACATAAAACACCGCAAAAGTGACATAAAATATTGCCTAA
255 TTCTGTTAATTT-TTGTGGCGTTTTT-CACGAAACGCCGCAAAAGTGACTTAAAATATTGCCTAA
*
26004150 ACGACTTCGTTTAGC
318 ACGACATCGTTTAGC
* *
26004165 TTAAGCAAATTAATTTTTACTGGCGTTTTAGAAGAAAATGCCAAAAATGTG-ATTAAAGCTTAAT
1 TTAAGCAAATTAATTTTTACTGGCATTTTA-AAGAAAATGCCAGAAATGTGCATTAAAGCTTAAT
* *
26004229 AAAATGGCGTCGTTTTGGATTAGAACTTTAAATTTTAGTGGCGCTTTTTAGAAAACGCCGCAAAT
65 AAAACGGCGTCGTTTCGGATTAGAACTTTAAATTTTAGTGGCGCTTTTTAGAAAACGCCGCAAAT
* ** * *
26004294 GTACAAGCAATAGCGGCGTTTGTCTAGGATTCACCGCAAAATTGTCTTAAAATTTTGTCTAAACG
130 GTACAAGCAATAGCGGCGTTTGTCTAAGAAACGCCGCAAAAGTGTCTTAAAATTTTGT-TAAACG
* * * **
26004359 ACGCCATTTCTGTACTA-GTTTTTTAACTTAGCATTTTCTCTAAATTAATCCAACGGCACCATTT
194 ACGCCGTTTCTGTAC-ACG-TTTTTAACTTAGCATTTTCTCTATATTAATTCAACGGGTCCATTT
* * * *
26004423 CTCTTAATTTATAGTGGCGTTTTTGCACGAAACGCTGCAAAA-TGACTTAAAATATTGTCTAAAC
257 CTGTTAATTT-TTGTGGCGTTTTT-CACGAAACGCCGCAAAAGTGACTTAAAATATTGCCTAAAC
** *
26004487 GACCCCGTTTTGC
320 GACATCGTTTAGC
* * * * *
26004500 TTAAGAAAATTAATTTTTACTGGCGTTTTTACAGAAAATGCCAGAACTGTGCAATAAAGCTTAAT
1 TTAAGCAAATTAATTTTTACTGGC-ATTTTAAAGAAAATGCCAGAAATGTGCATTAAAGCTTAAT
* * * * *
26004565 TAAACGGCGCCGTTTCAG-TTTGAACTTTAATTTTTAGTGGC
65 AAAACGGCGTCGTTTCGGATTAGAACTTTAAATTTTAGTGGC
26004606 ATTTTTTGCA
Statistics
Matches: 653, Mismatches: 101, Indels: 50
0.81 0.13 0.06
Matches are distributed among these distances:
335 101 0.15
336 233 0.36
337 249 0.38
338 69 0.11
339 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (332 bp):
TTAAGCAAATTAATTTTTACTGGCATTTTAAAGAAAATGCCAGAAATGTGCATTAAAGCTTAATA
AAACGGCGTCGTTTCGGATTAGAACTTTAAATTTTAGTGGCGCTTTTTAGAAAACGCCGCAAATG
TACAAGCAATAGCGGCGTTTGTCTAAGAAACGCCGCAAAAGTGTCTTAAAATTTTGTTAAACGAC
GCCGTTTCTGTACACGTTTTTAACTTAGCATTTTCTCTATATTAATTCAACGGGTCCATTTCTGT
TAATTTTTGTGGCGTTTTTCACGAAACGCCGCAAAAGTGACTTAAAATATTGCCTAAACGACATC
GTTTAGC
Found at i:26004648 original size:63 final size:62
Alignment explanation
Indices: 26004549--26004678 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 62
26004539 GCCAGAACTG
26004549 TGCAATAAAGCTTAATTAAACGGCGCCGTTTCAGTTTGAACTTTAATTTTTAGTGGCATTTTT
1 TGCAATAAAGCTTAATTAAACGGCGCCGTTTCAGTTTGAACTTTAATTTTTAGTGGCA-TTTT
26004612 TGCAATAAAGCTTAATTAAACGGCGCCGTTTCAGTTTGAACTTTAATTTTTAGTGGCATTTT
1 TGCAATAAAGCTTAATTAAACGGCGCCGTTTCAGTTTGAACTTTAATTTTTAGTGGCATTTT
26004674 TGCAA
1 TGCAA
26004679 AAAACACCGC
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 9 0.13
63 58 0.87
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (62 bp):
TGCAATAAAGCTTAATTAAACGGCGCCGTTTCAGTTTGAACTTTAATTTTTAGTGGCATTTT
Found at i:26004837 original size:13 final size:13
Alignment explanation
Indices: 26004793--26004844 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
26004783 GAAACAGAAC
*
26004793 AAAGGAGAAAACG
1 AAAGGAAAAAACG
*
26004806 AAAGGGGTAAAAACG
1 AAA--GGAAAAAACG
26004821 AAAGAGAAAAAAC-
1 AAAG-GAAAAAACG
26004834 AAAGGAAAAAA
1 AAAGGAAAAAA
26004845 GGGAGAGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.21
13 8 0.24
14 7 0.21
15 11 0.33
ACGTcount: A:0.67, C:0.06, G:0.25, T:0.02
Consensus pattern (13 bp):
AAAGGAAAAAACG
Found at i:26005287 original size:22 final size:22
Alignment explanation
Indices: 26005257--26005300 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
26005247 TTTGGTATTT
26005257 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
26005279 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
26005301 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:26006137 original size:31 final size:32
Alignment explanation
Indices: 26006092--26006158 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
26006082 ACATGCATGC
*
26006092 ACCTTGCTAAAATGAATCTCCA-A-ATTCGGCTA
1 ACCTTGCTAAAATG-ATC-CCACACATTCGGCCA
*
26006124 ACCTTG-TTAAATGATCCCACACATTCGGCCA
1 ACCTTGCTAAAATGATCCCACACATTCGGCCA
26006155 ACCT
1 ACCT
26006159 ATATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 4 0.13
31 18 0.58
32 6 0.19
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (32 bp):
ACCTTGCTAAAATGATCCCACACATTCGGCCA
Found at i:26006491 original size:30 final size:30
Alignment explanation
Indices: 26006433--26006491 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
26006423 TTGAAAATGT
* *
26006433 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
26006463 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
26006492 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:26007670 original size:13 final size:13
Alignment explanation
Indices: 26007648--26007711 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
26007638 CGCTATATAT
*
26007648 TACATAACTTAAA
1 TACATTACTTAAA
26007661 TACATTACTTACTAA
1 TACATTACTTA--AA
26007676 -A-ATTTACTTAAA
1 TACA-TTACTTAAA
*
26007688 TATATTACTTAAA
1 TACATTACTTAAA
*
26007701 TACATGACTTA
1 TACATTACTTA
26007712 CTAAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.05
13 30 0.70
14 9 0.21
15 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:26007711 original size:40 final size:37
Alignment explanation
Indices: 26007654--26007846 Score: 167
Period size: 39 Copynumber: 5.0 Consensus size: 37
26007644 ATATTACATA
26007654 ACTTAAATACATTACTTACTAAAATTTACTTAAATATATT
1 ACTTAAATACATTACTTACTAAAATTTA--T-AATATATT
*
26007694 ACTTAAATACATGACTTACTAAAATTTA-AGTATATATT
1 ACTTAAATACATTACTTACTAAAATTTATA--ATATATT
*** * *
26007732 ACATTGCTTACATTACTTACTAAAA--TATATTACATT
1 AC-TTAAATACATTACTTACTAAAATTTATAATATATT
* *
26007768 ACTTAAATATATTACTTACTAAAATTTATAACTTACATT
1 ACTTAAATACATTACTTACTAAAATTTATAA--TATATT
* **
26007807 TCTTAAATGTATTACATTACTTAAAATTTATATATATATT
1 ACTTAAATACATTAC-TTAC-TAAAATTTATA-ATATATT
26007847 TAAAATTTTG
Statistics
Matches: 127, Mismatches: 15, Indels: 22
0.77 0.09 0.13
Matches are distributed among these distances:
35 18 0.14
36 8 0.06
37 6 0.05
38 10 0.08
39 37 0.29
40 36 0.28
41 11 0.09
42 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (37 bp):
ACTTAAATACATTACTTACTAAAATTTATAATATATT
Found at i:26007755 original size:39 final size:39
Alignment explanation
Indices: 26007654--26007795 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 39
26007644 ATATTACATA
**
26007654 ACTTAAATACATTACTTACTAAAATTTACTTAAATATATT
1 ACTTAAATACATTACTTACTAAAATTTAAGT-AATATATT
*
26007694 ACTTAAATACATGACTTACTAAAATTTAAGT-ATATATT
1 ACTTAAATACATTACTTACTAAAATTTAAGTAATATATT
*** * *
26007732 ACATTGCTTACATTACTTACTAAAA--T-A-TATTACATT
1 AC-TTAAATACATTACTTACTAAAATTTAAGTAATATATT
*
26007768 ACTTAAATATATTACTTACTAAAATTTA
1 ACTTAAATACATTACTTACTAAAATTTA
26007796 TAACTTACAT
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
35 19 0.23
36 8 0.10
37 2 0.02
38 9 0.11
39 18 0.21
40 28 0.33
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.42
Consensus pattern (39 bp):
ACTTAAATACATTACTTACTAAAATTTAAGTAATATATT
Found at i:26007769 original size:18 final size:18
Alignment explanation
Indices: 26007743--26007833 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
26007733 CATTGCTTAC
26007743 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
*
26007760 ATTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
26007778 ATTAC-TTACTAAAATTTAT
1 ATTACATTACTAAAA--TAT
* * *
26007797 AACTTACATTTCTTAAATGT
1 -A-TTACATTACTAAAATAT
26007817 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
26007834 TTATATATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
17 13 0.22
18 24 0.40
19 9 0.15
20 3 0.05
21 4 0.07
22 7 0.12
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:26007783 original size:31 final size:31
Alignment explanation
Indices: 26007679--26007783 Score: 89
Period size: 31 Copynumber: 3.6 Consensus size: 31
26007669 TTACTAAAAT
* * *
26007679 TTACTTAAATATATTACTTAAATACATGAC-
1 TTACTTAAATATATTACTAAAATATATTACA
**
26007709 TTAC-TAAA-AT-TTA--AGTATATATTACA
1 TTACTTAAATATATTACTAAAATATATTACA
* *
26007735 TTGCTTACAT-TACTTACTAAAATATATTACA
1 TTACTTAAATATA-TTACTAAAATATATTACA
26007766 TTACTTAAATATATTACT
1 TTACTTAAATATATTACT
26007784 TACTAAAATT
Statistics
Matches: 56, Mismatches: 11, Indels: 15
0.68 0.13 0.18
Matches are distributed among these distances:
25 7 0.12
26 3 0.05
27 7 0.12
28 2 0.04
29 7 0.12
30 4 0.07
31 24 0.43
32 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (31 bp):
TTACTTAAATATATTACTAAAATATATTACA
Found at i:26007786 original size:22 final size:22
Alignment explanation
Indices: 26007738--26007826 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
26007728 TATTACATTG
*
26007738 CTTACATTACTTACTAAAATA-TA
1 CTTACATTACTTA--AATATATTA
26007761 -TTACATTACTTAAATATATTA
1 CTTACATTACTTAAATATATTA
* *
26007782 CTTAC--TA---AAATTTATAA
1 CTTACATTACTTAAATATATTA
* *
26007799 CTTACATTTCTTAAATGTATTA
1 CTTACATTACTTAAATATATTA
26007821 CATTAC
1 C-TTAC
26007827 TTAAAATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
17 13 0.25
19 1 0.02
20 7 0.13
21 2 0.04
22 25 0.48
23 4 0.08
ACGTcount: A:0.40, C:0.15, G:0.01, T:0.44
Consensus pattern (22 bp):
CTTACATTACTTAAATATATTA
Found at i:26007792 original size:17 final size:17
Alignment explanation
Indices: 26007743--26007803 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
26007733 CATTGCTTAC
26007743 ATTACTTACTAAAATAT
1 ATTACTTACTAAAATAT
*
26007760 ATTACATTACTTAAATAT
1 ATTAC-TTACTAAAATAT
*
26007778 ATTACTTACTAAAATTT
1 ATTACTTACTAAAATAT
*
26007795 ATAACTTAC
1 ATTACTTAC
26007804 ATTTCTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTACTTACTAAAATAT
Found at i:26008032 original size:16 final size:16
Alignment explanation
Indices: 26008011--26008199 Score: 72
Period size: 16 Copynumber: 12.6 Consensus size: 16
26008001 TAACATTTCT
26008011 TACATAACTTACATAA
1 TACATAACTTACATAA
*
26008027 TACATAA--TACA-CA
1 TACATAACTTACATAA
*
26008040 -ACTTAA-TTA-ATATTA
1 TACATAACTTACATA--A
*
26008055 TACATAACGTACATAA
1 TACATAACTTACATAA
*
26008071 TACATAA--TACA-CA
1 TACATAACTTACATAA
* * *
26008084 -ACTTAA-TTAAGATTA
1 TACATAACTT-ACATAA
*
26008099 TACATAACATACATAA
1 TACATAACTTACATAA
26008115 TACATAA--TAC----
1 TACATAACTTACATAA
*
26008125 -ACATAACTTACATAG
1 TACATAACTTACATAA
* *
26008140 TACATAACTAACATTA
1 TACATAACTTACATAA
* *
26008156 TACACAACTTACGTAA
1 TACATAACTTACATAA
* *
26008172 CTTAAATAACGTACATAA
1 --TACATAACTTACATAA
26008190 TACATAACTT
1 TACATAACTT
26008200 TGATAACTAA
Statistics
Matches: 126, Mismatches: 26, Indels: 42
0.65 0.13 0.22
Matches are distributed among these distances:
9 6 0.05
11 3 0.02
12 11 0.09
13 5 0.04
14 13 0.10
15 2 0.02
16 68 0.54
17 3 0.02
18 15 0.12
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:26008074 original size:44 final size:44
Alignment explanation
Indices: 26008011--26008697 Score: 293
Period size: 44 Copynumber: 16.5 Consensus size: 44
26008001 TAACATTTCT
26008011 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
1 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
* *
26008055 TACATAACGTACATAATACATAATACACAACTTAATTAAGATTA
1 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
* *
26008099 TACATAACATACATAATACATAATACAC-A--TAACTTACATA--G
1 TACATAACTTACATAATACATAATACACAACTTAA-TTA-ATATTA
* ** *
26008140 TACAT-A---AC-T-A-ACATTATACACAACTTACGTAA-CTTA
1 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
* *** * *
26008176 -A-ATAACGTACATAATACATAA--CTTTGA--TAACTAACATTA
1 TACATAACTTACATAATACATAATAC-ACAACTTAATTAATATTA
* * * ** * *
26008215 TACACAACTTACATACTAC--AATTC-TTACATAACTT-ACATTA
1 TACATAACTTACATAATACATAATACACAACTTAA-TTAATATTA
* * * * * *
26008256 TACACAACTTAAATAAT--ATTATACATAACGTACA-TAATACATAA
1 TACATAACTTACATAATACATAATACACAACTTA-ATTAAT--ATTA
* * * * *
26008300 TACACAACTTA-ATTAAT--ATTATACATAACGT-A--CATA--A
1 TACATAACTTACA-TAATACATAATACACAACTTAATTAATATTA
** * * *
26008337 TACATAACTTTGATAACTAACATTATACACAACTT-A--CATACTA
1 TACATAACTTACATAA-T-ACATAATACACAACTTAATTAATATTA
* * * *
26008380 CA-AT-TCTTACATAACTTACATTATACACAACTTAAATAATATTA
1 TACATAACTTACATAA--TACATAATACACAACTTAATTAATATTA
26008424 TACATAA-TGTACATAATACATAATACACAACTTAATTAATATTA
1 TACATAACT-TACATAATACATAATACACAACTTAATTAATATTA
* * *
26008468 TACATAACGTACATAATACACAATACACAACTTAATTAAGATTA
1 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
* *
26008512 TACATAACATACATAATACATAATACAC-A--TAACTTACATA--G
1 TACATAACTTACATAATACATAATACACAACTTAA-TTA-ATATTA
* * * * *
26008553 TACATAACTAACATTATACACAACT-TAC-A--TAA-TACAT-TTCT
1 TACATAACTTACATAATACATAA-TACACAACTTAATTA-ATATT-A
* *
26008594 TACATAAC-T---T--T-CATTATACACAACTTAAATAATATTA
1 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
* *
26008631 TACATAACGTACATAATACATAATACAAAACTTAATTAATATTA
1 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
* *
26008675 TACATAACGTACCTAATACATAA
1 TACATAACTTACATAATACATAA
26008698 ATATATATCA
Statistics
Matches: 510, Mismatches: 68, Indels: 130
0.72 0.10 0.18
Matches are distributed among these distances:
33 1 0.00
34 17 0.03
35 7 0.01
36 3 0.01
37 31 0.06
38 14 0.03
39 15 0.03
40 4 0.01
41 134 0.26
42 19 0.04
43 11 0.02
44 244 0.48
45 3 0.01
46 7 0.01
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (44 bp):
TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
Found at i:26008153 original size:25 final size:25
Alignment explanation
Indices: 26008012--26008146 Score: 87
Period size: 25 Copynumber: 5.9 Consensus size: 25
26008002 AACATTTCTT
*
26008012 ACATAACTTACATAATACATAATAC
1 ACATAACATACATAATACATAATAC
* * *
26008037 AC--AACTTA-AT--TA-ATATTAT
1 ACATAACATACATAATACATAATAC
*
26008056 ACATAACGTACATAATACATAATAC
1 ACATAACATACATAATACATAATAC
* * * *
26008081 AC--AACTTA-AT--TA-AGATTAT
1 ACATAACATACATAATACATAATAC
26008100 ACATAACATACATAATACATAATAC
1 ACATAACATACATAATACATAATAC
* *
26008125 ACATAACTTACATAGTACATAA
1 ACATAACATACATAATACATAA
26008147 CTAACATTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
19 13 0.16
20 4 0.05
21 10 0.12
22 8 0.10
23 11 0.13
24 4 0.05
25 33 0.40
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (25 bp):
ACATAACATACATAATACATAATAC
Found at i:26008197 original size:25 final size:25
Alignment explanation
Indices: 26008100--26008234 Score: 79
Period size: 25 Copynumber: 5.4 Consensus size: 25
26008090 TTAAGATTAT
26008100 ACATAACATACATAATACATAA--TA
1 ACATAAC-TACATAATACATAACTTA
*
26008124 CACATAACTTACATAGTACATAAC-TA
1 -ACATAAC-TACATAATACATAACTTA
* * *
26008150 ACATTA-TACACAACTTACGTAACTTA
1 ACATAACTACATAA--TACATAACTTA
26008176 A-ATAACGTACATAATACATAACTT-
1 ACATAAC-TACATAATACATAACTTA
** * *
26008200 TGATAACTAACATTATACACAACTT-
1 ACATAACT-ACATAATACATAACTTA
26008225 ACAT-ACTACA
1 ACATAACTACA
26008235 ATTCTTACAT
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
23 8 0.09
24 4 0.05
25 65 0.74
26 5 0.06
27 6 0.07
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (25 bp):
ACATAACTACATAATACATAACTTA
Found at i:26008250 original size:9 final size:9
Alignment explanation
Indices: 26008099--26008253 Score: 59
Period size: 9 Copynumber: 18.6 Consensus size: 9
26008089 ATTAAGATTA
*
26008099 TACATAACA
1 TACATAACT
26008108 TACATAA--
1 TACATAACT
26008115 TACATAA-T
1 TACATAACT
*
26008123 ACACATAACT
1 -TACATAACT
*
26008133 TACAT-A-G
1 TACATAACT
26008140 TACATAACT
1 TACATAACT
* *
26008149 AACATTA--
1 TACATAACT
*
26008156 TACACAACT
1 TACATAACT
*
26008165 TACGTAACT
1 TACATAACT
* *
26008174 TAAATAACG
1 TACATAACT
26008183 TACATAA--
1 TACATAACT
26008190 TACATAACT
1 TACATAACT
**
26008199 TTGATAACT
1 TACATAACT
* *
26008208 AACATTA--
1 TACATAACT
*
26008215 TACACAACT
1 TACATAACT
26008224 TACAT-AC-
1 TACATAACT
*
26008231 TACA-ATTCT
1 TACATA-ACT
26008240 TACATAACT
1 TACATAACT
26008249 TACAT
1 TACAT
26008254 TATACACAAC
Statistics
Matches: 104, Mismatches: 27, Indels: 30
0.65 0.17 0.19
Matches are distributed among these distances:
7 31 0.30
8 5 0.05
9 66 0.63
10 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (9 bp):
TACATAACT
Found at i:26008266 original size:25 final size:25
Alignment explanation
Indices: 26008140--26008310 Score: 69
Period size: 25 Copynumber: 7.1 Consensus size: 25
26008130 ACTTACATAG
*
26008140 TACATAACTAACATTATACACAACT
1 TACATAACTTACATTATACACAACT
* * * *
26008165 TACGTAACTTAAATAACGTACATAA--
1 TACATAACTTACATTA--TACACAACT
** * *
26008190 TACATAACTTTGATAACTA-AC-ATT
1 TACATAACTTACATTA-TACACAACT
* *
26008214 ATACACAACTTACA-TACTACA-ATTCT
1 -TACATAACTTACATTA-TACACA-ACT
26008240 TACATAACTTACATTATACACAACT
1 TACATAACTTACATTATACACAACT
* * *
26008265 TAAATAA--T--ATTATACATAACG
1 TACATAACTTACATTATACACAACT
*
26008286 TACATAA--TACATAATACACAACT
1 TACATAACTTACATTATACACAACT
26008309 TA
1 TA
26008311 ATTAATATTA
Statistics
Matches: 109, Mismatches: 25, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
21 18 0.17
22 1 0.01
23 14 0.13
24 6 0.06
25 60 0.55
26 4 0.04
27 6 0.06
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATTATACACAACT
Found at i:26008297 original size:16 final size:16
Alignment explanation
Indices: 26008276--26008344 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
26008266 AAATAATATT
26008276 ATACATAACGTACATA
1 ATACATAACGTACATA
*
26008292 ATACATAA--TACA-C
1 ATACATAACGTACATA
* *
26008305 A-ACTTAA-TTA-ATA
1 ATACATAACGTACATA
26008318 TTATACATAACGTACATA
1 --ATACATAACGTACATA
26008336 ATACATAAC
1 ATACATAAC
26008345 TTTGATAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
12 6 0.15
13 3 0.07
14 4 0.10
15 1 0.02
16 22 0.54
17 2 0.05
18 3 0.07
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (16 bp):
ATACATAACGTACATA
Found at i:26008350 original size:147 final size:147
Alignment explanation
Indices: 26008139--26008487 Score: 614
Period size: 147 Copynumber: 2.4 Consensus size: 147
26008129 AACTTACATA
* ** *
26008139 GTACATAACTAACATTATACACAACTTACGTAA-CTTA-A-ATAACGTACATAATACATAACTTT
1 GTACATAA-T-ACATAATACACAACTTAATTAATATTATACATAACGTACATAATACATAACTTT
26008201 GATAACTAACATTATACACAACTTACATACTACAATTCTTACATAACTTACATTATACACAACTT
64 GATAACTAACATTATACACAACTTACATACTACAATTCTTACATAACTTACATTATACACAACTT
26008266 AAATAATATTATACATAAC
129 AAATAATATTATACATAAC
26008285 GTACATAATACATAATACACAACTTAATTAATATTATACATAACGTACATAATACATAACTTTGA
1 GTACATAATACATAATACACAACTTAATTAATATTATACATAACGTACATAATACATAACTTTGA
26008350 TAACTAACATTATACACAACTTACATACTACAATTCTTACATAACTTACATTATACACAACTTAA
66 TAACTAACATTATACACAACTTACATACTACAATTCTTACATAACTTACATTATACACAACTTAA
*
26008415 ATAATATTATACATAAT
131 ATAATATTATACATAAC
26008432 GTACATAATACATAATACACAACTTAATTAATATTATACATAACGTACATAATACA
1 GTACATAATACATAATACACAACTTAATTAATATTATACATAACGTACATAATACA
26008488 CAATACACAA
Statistics
Matches: 195, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
144 19 0.10
145 4 0.02
146 9 0.05
147 163 0.84
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (147 bp):
GTACATAATACATAATACACAACTTAATTAATATTATACATAACGTACATAATACATAACTTTGA
TAACTAACATTATACACAACTTACATACTACAATTCTTACATAACTTACATTATACACAACTTAA
ATAATATTATACATAAC
Found at i:26008375 original size:41 final size:41
Alignment explanation
Indices: 26008317--26008627 Score: 139
Period size: 41 Copynumber: 7.5 Consensus size: 41
26008307 CTTAATTAAT
* * **
26008317 ATTATACATAACGTACATAATAC-ATAACTTTGATAACTAAC
1 ATTATACACAACTTACATAATACAAT-ACTTACATAACTAAC
* * *
26008358 ATTATACACAACTTACATACTACAATTCTTACATAACTTAC
1 ATTATACACAACTTACATAATACAATACTTACATAACTAAC
* * *
26008399 ATTATACACAACTTAAATAATATTATACATAATGTACATAA-T-AC
1 ATTATACACAACTTACAT-A-A-TACA-ATACT-TACATAACTAAC
* * *
26008443 ATAATACACAACTTA-ATTAATATTATACATAACGTACATAA-TACAC
1 ATTATACACAACTTACA-T-A-A-TACA-AT-ACTTACATAACTA-AC
* * *
26008489 A--ATACACAACTTA-ATTA-AGATTA--TACATAAC-ATAC
1 ATTATACACAACTTACATAATACAATACTTACATAACTA-AC
* * * *
26008524 ATAATACATAA-TACACATAACTTAC-ATA-GTACATAACTAAC
1 ATTATACACAACT-TACATAA--TACAATACTTACATAACTAAC
* * **
26008565 ATTATACACAACTTACATAATACATTTCTTACATAACTTTC
1 ATTATACACAACTTACATAATACAATACTTACATAACTAAC
*
26008606 ATTATACACAACTTAAATAATA
1 ATTATACACAACTTACATAATA
26008628 TTATACATAA
Statistics
Matches: 214, Mismatches: 33, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
35 11 0.05
36 1 0.00
37 9 0.04
38 4 0.02
39 5 0.02
40 3 0.01
41 106 0.50
42 5 0.02
43 2 0.01
44 53 0.25
45 5 0.02
46 10 0.05
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (41 bp):
ATTATACACAACTTACATAATACAATACTTACATAACTAAC
Found at i:26008557 original size:16 final size:15
Alignment explanation
Indices: 26008538--26008599 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
26008528 TACATAATAC
26008538 ACATAACTTACATAGT
1 ACATAACTTACATA-T
*
26008554 ACATAACTAACATTAT
1 ACATAACTTACA-TAT
*
26008570 ACACAACTTACATAAT
1 ACATAACTTACAT-AT
**
26008586 ACATTTCTTACATA
1 ACATAACTTACATA
26008600 ACTTTCATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 2 0.05
16 34 0.89
17 2 0.05
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (15 bp):
ACATAACTTACATAT
Found at i:26008558 original size:32 final size:32
Alignment explanation
Indices: 26008520--26008589 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
26008510 TATACATAAC
26008520 ATACATAA-T-ACATAATACACATAACTTACATA
1 ATACATAACTAACATAATACAC--AACTTACATA
* *
26008552 GTACATAACTAACATTATACACAACTTACATA
1 ATACATAACTAACATAATACACAACTTACATA
26008584 ATACAT
1 ATACAT
26008590 TTCTTACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 22 0.67
33 1 0.03
34 10 0.30
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.29
Consensus pattern (32 bp):
ATACATAACTAACATAATACACAACTTACATA
Found at i:26008691 original size:21 final size:21
Alignment explanation
Indices: 26008606--26008692 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
26008596 CATAACTTTC
* * *
26008606 ATTATACACAACTTAAATAAT
1 ATTATACATAACGTACATAAT
26008627 ATTATACATAACGTACATAAT
1 ATTATACATAACGTACATAAT
* * *
26008648 ACATAATACAAAACTTA-ATTAAT
1 --ATTATACATAACGTACA-TAAT
*
26008671 ATTATACATAACGTACCTAAT
1 ATTATACATAACGTACATAAT
26008692 A
1 A
26008693 CATAAATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
21 35 0.67
22 1 0.02
23 16 0.31
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (21 bp):
ATTATACATAACGTACATAAT
Found at i:26010974 original size:82 final size:82
Alignment explanation
Indices: 26010871--26011033 Score: 229
Period size: 82 Copynumber: 2.0 Consensus size: 82
26010861 TTTTACTTCC
* * * * *
26010871 CTTTAAATACCGTTCCATGCATGGGAACATCTCCT-TAATGCATGTTTCCTTTGCCATTAAGTAG
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTAAAATGCATGTCTCCTTAGCCATTAAGTAG
26010935 CCGAATTTCAATGACCTT
66 CCGAA-TTCAATGACCTT
* * **
26010953 CTTTAAATGCCGTTCCTTGCATGTTAACAGCACCTAAAATGCATGTCTCCTTAGCCATTAAGTAG
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTAAAATGCATGTCTCCTTAGCCATTAAGTAG
26011018 CCGAATTCAATGACCT
66 CCGAATTCAATGACCT
26011034 GCAGACACAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 40 0.56
83 31 0.44
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (82 bp):
CTTTAAATACCGTTCCATGCATGGGAACAGCACCTAAAATGCATGTCTCCTTAGCCATTAAGTAG
CCGAATTCAATGACCTT
Found at i:26013581 original size:21 final size:18
Alignment explanation
Indices: 26013539--26013583 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
26013529 TTTTTCAAAC
26013539 TCTTTTTCAAATCCTCTT
1 TCTTTTTCAAATCCTCTT
*
26013557 TCTTTTATCACATCACTCATT
1 TCTTTT-TCAAATC-CTC-TT
26013578 TCTTTT
1 TCTTTT
26013584 GTACTCTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
TCTTTTTCAAATCCTCTT
Found at i:26013732 original size:20 final size:21
Alignment explanation
Indices: 26013691--26013741 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
26013681 CTATCTCACA
*
26013691 CTCATCTTCTTTTTCTTTTTCT
1 CTCAT-TTCTTTTTCTTCTTCT
26013713 CTCATTTCTTTTT-TTCTTCT
1 CTCATTTCTTTTTCTTCTTCT
26013733 CTCAATTTC
1 CTC-ATTTC
26013742 ATTCAAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 13 0.48
22 5 0.19
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (21 bp):
CTCATTTCTTTTTCTTCTTCT
Found at i:26013735 original size:22 final size:22
Alignment explanation
Indices: 26013691--26013736 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
26013681 CTATCTCACA
26013691 CTCATCTTCTTTTTCTTTTTCT
1 CTCATCTTCTTTTTCTTTTTCT
*
26013713 CTCAT-TTCTTTTT-TTCTTCT
1 CTCATCTTCTTTTTCTTTTTCT
26013733 CTCA
1 CTCA
26013737 ATTTCATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 5 0.22
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (22 bp):
CTCATCTTCTTTTTCTTTTTCT
Found at i:26014377 original size:23 final size:23
Alignment explanation
Indices: 26014351--26014394 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
26014341 AATAAATACC
26014351 TCAC-CAAAAAAAAAATCTCACGT
1 TCACTCAAAAAAAAAAT-TCACGT
* *
26014374 TCACTCACAAAGAAAATTCAC
1 TCACTCAAAAAAAAAATTCAC
26014395 ACAACTTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (23 bp):
TCACTCAAAAAAAAAATTCACGT
Found at i:26014779 original size:13 final size:12
Alignment explanation
Indices: 26014761--26014804 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
26014751 AATTGAATAC
26014761 AATTTTTTTTCGA
1 AATTTTTTTTC-A
26014774 AA-TTTTTTT-A
1 AATTTTTTTTCA
*
26014784 ATTTTTTTTTCA
1 AATTTTTTTTCA
26014796 AATTTTTTT
1 AATTTTTTT
26014805 CCTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 7 0.26
12 16 0.59
13 2 0.07
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (12 bp):
AATTTTTTTTCA
Found at i:26014781 original size:12 final size:11
Alignment explanation
Indices: 26014764--26014805 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
26014754 TGAATACAAT
26014764 TTTTTTTCGAAA
1 TTTTTTTC-AAA
*
26014776 TTTTTTT-AATT
1 TTTTTTTCAA-A
26014787 TTTTTTTCAAA
1 TTTTTTTCAAA
26014798 TTTTTTTC
1 TTTTTTTC
26014806 CTTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.08
11 15 0.58
12 9 0.35
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTTTTTCAAA
Found at i:26014789 original size:23 final size:22
Alignment explanation
Indices: 26014763--26014814 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
26014753 TTGAATACAA
26014763 TTTTTTTTCGAAATTTTTTTAAT
1 TTTTTTTTC-AAATTTTTTTAAT
**
26014786 TTTTTTTTCAAATTTTTTTCCT
1 TTTTTTTTCAAATTTTTTTAAT
26014808 TTTTTTT
1 TTTTTTT
26014815 ACAATACCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTTTCAAATTTTTTTAAT
Found at i:26015478 original size:62 final size:62
Alignment explanation
Indices: 26015381--26015505 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
26015371 CGAATACAAA
26015381 ACAAGCTATTTATAGTCAAATTCCTAAGCTAGCCGAATGGACACTTGAGCAGCTAAAAAGTC
1 ACAAGCTATTTATAGTCAAATTCCTAAGCTAGCCGAATGGACACTTGAGCAGCTAAAAAGTC
26015443 ACAAGCTATTTATAGTCAAATTCCTAAGCTAGCCGAATGGACACTTGAGCAGCTAAAAAGTC
1 ACAAGCTATTTATAGTCAAATTCCTAAGCTAGCCGAATGGACACTTGAGCAGCTAAAAAGTC
26015505 A
1 A
26015506 GCTTATTTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (62 bp):
ACAAGCTATTTATAGTCAAATTCCTAAGCTAGCCGAATGGACACTTGAGCAGCTAAAAAGTC
Found at i:26020133 original size:41 final size:41
Alignment explanation
Indices: 26020026--26020133 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
26020016 AATTCGGCCA
* * * *
26020026 AACATGTAGTAGCAGCATTAAATTCATCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
26020067 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
26020108 AACATGTAGTGGCAGCATTAAATTCG
1 AACATGTAGTGGCAGCATTAAATTCG
26020134 ACATATTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
Found at i:26021298 original size:20 final size:20
Alignment explanation
Indices: 26021275--26021328 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
26021265 AGTTTTTCCC
*
26021275 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
26021295 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
26021315 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
26021329 TACTTTAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:26030745 original size:15 final size:15
Alignment explanation
Indices: 26030725--26030755 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26030715 CCTATAGTAG
26030725 TTCTCAAAAGCAGAA
1 TTCTCAAAAGCAGAA
*
26030740 TTCTCACAAGCAGAA
1 TTCTCAAAAGCAGAA
26030755 T
1 T
26030756 AAATTTCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TTCTCAAAAGCAGAA
Found at i:26032365 original size:18 final size:18
Alignment explanation
Indices: 26032344--26032402 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
26032334 TCTTTTCTCA
26032344 TTTTCTTTTCGCTTTCTT
1 TTTTCTTTTCGCTTTCTT
*
26032362 TTTTATTTTCGCTTTCTTT
1 TTTTCTTTTCGCTTTC-TT
* *
26032381 TTTTCATTTGGCTTTTCTT
1 TTTTCTTTTCGC-TTTCTT
26032400 TTT
1 TTT
26032403 CATTTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.43
19 16 0.46
20 4 0.11
ACGTcount: A:0.03, C:0.17, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTCGCTTTCTT
Found at i:26032377 original size:24 final size:24
Alignment explanation
Indices: 26032332--26032377 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
26032322 TTTTCTTATT
*
26032332 TTTCTTTTCTCATTTTCTTTTCGC
1 TTTCTTTTCTCATTTTCCTTTCGC
*
26032356 TTTCTTTT-TTATTTTCGCTTTC
1 TTTCTTTTCTCATTTTC-CTTTC
26032378 TTTTTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTTTCTCATTTTCCTTTCGC
Found at i:26032378 original size:37 final size:38
Alignment explanation
Indices: 26032337--26032408 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
26032327 TTATTTTTCT
* *
26032337 TTTCTCATTTTCTTTTCGC-TTTCTTTTTTATTTTCGC
1 TTTCTCATTTTCATTTCGCTTTTCTTTTTCATTTTCGC
** *
26032374 TTTCTTTTTTTCATTTGGCTTTTCTTTTTCATTTT
1 TTTCTCATTTTCATTTCGCTTTTCTTTTTCATTTT
26032409 TTTCTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.52
38 14 0.48
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (38 bp):
TTTCTCATTTTCATTTCGCTTTTCTTTTTCATTTTCGC
Found at i:26032384 original size:19 final size:19
Alignment explanation
Indices: 26032344--26032402 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 19
26032334 TCTTTTCTCA
*
26032344 TTTTCTTTTCGCTTTC-TT
1 TTTTATTTTCGCTTTCTTT
26032362 TTTTATTTTCGCTTTCTTT
1 TTTTATTTTCGCTTTCTTT
*
26032381 TTTTCA-TTTGGCTTTTCTTT
1 TTTT-ATTTTCGC-TTTCTTT
26032401 TT
1 TT
26032403 CATTTTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.42
19 11 0.31
20 10 0.28
ACGTcount: A:0.03, C:0.17, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTATTTTCGCTTTCTTT
Found at i:26032420 original size:38 final size:37
Alignment explanation
Indices: 26032322--26032421 Score: 87
Period size: 38 Copynumber: 2.6 Consensus size: 37
26032312 TTTTTTTATA
* *
26032322 TTTTC-TTATTTTTCTTTTCTCATTTTCTTTTCGCTTTCT
1 TTTTCATT-TTTTTCTTTT-T-TTTTTCATTTCGCTTTCT
* ** *
26032361 TTTTTA-TTTTCGCTTTCTTTTTTTCATTTGGCTTTTCT
1 TTTTCATTTTTTTCTTT-TTTTTTTCATTTCGC-TTTCT
26032399 TTTTCATTTTTTTCTTTTTTTTT
1 TTTTCATTTTTTTCTTTTTTTTT
26032422 CGATTGAGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
37 10 0.21
38 24 0.50
39 14 0.29
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (37 bp):
TTTTCATTTTTTTCTTTTTTTTTTCATTTCGCTTTCT
Found at i:26034861 original size:16 final size:16
Alignment explanation
Indices: 26034840--26034878 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
26034830 CACTTCACTC
**
26034840 TTTTTTTTACTTCGTA
1 TTTTTTTTACTTCAAA
26034856 TTTTTTTTACTTCAAA
1 TTTTTTTTACTTCAAA
26034872 TTTTTTT
1 TTTTTTT
26034879 CAATTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTTTTACTTCAAA
Found at i:26038442 original size:25 final size:26
Alignment explanation
Indices: 26038377--26038446 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
26038367 CAAAGGAGAG
26038377 CATTCAAGGAAGCATGCATGAACGGA
1 CATTCAAGGAAGCATGCATGAACGGA
* *
26038403 -ATTAAAAGAAGCATGCATGAAC-GA
1 CATTCAAGGAAGCATGCATGAACGGA
*
26038427 CATTCAAGGAAACATGCATG
1 CATTCAAGGAAGCATGCATG
26038447 CTGATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (26 bp):
CATTCAAGGAAGCATGCATGAACGGA
Found at i:26040811 original size:22 final size:21
Alignment explanation
Indices: 26040786--26040835 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
26040776 GAATATTTAC
* *
26040786 ATAAAAATTAAACTAAGTAAAA
1 ATAAAAAATAAA-TAAATAAAA
26040808 ATAAATAAATAAATAAATAAAA
1 ATAAA-AAATAAATAAATAAAA
26040830 ATAAAA
1 ATAAAA
26040836 CTTTACAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAAATAAATAAAA
Found at i:26040831 original size:18 final size:19
Alignment explanation
Indices: 26040786--26040834 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
26040776 GAATATTTAC
*
26040786 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
26040806 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
26040824 ATAAAAATAAA
1 ATAAAAATAAA
26040835 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:26041386 original size:23 final size:22
Alignment explanation
Indices: 26041335--26041386 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
26041325 CCTCGTCTTT
*
26041335 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
26041357 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
26041380 TTCTTTT
1 TTCTTTT
26041387 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:26043817 original size:18 final size:19
Alignment explanation
Indices: 26043772--26043820 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
26043762 GAATATTTAC
*
26043772 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
26043792 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
26043810 ATAAAAATAAA
1 ATAAAAATAAA
26043821 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:26046017 original size:150 final size:150
Alignment explanation
Indices: 26045746--26046047 Score: 604
Period size: 150 Copynumber: 2.0 Consensus size: 150
26045736 ATTTCGTTTT
26045746 AGACTCAAGCTGACTTATCTAGCATACCTAGTGGTGTCTACCATGTTTCTTTGAACTTATCACTC
1 AGACTCAAGCTGACTTATCTAGCATACCTAGTGGTGTCTACCATGTTTCTTTGAACTTATCACTC
26045811 AATCTCGAGTGTGGCGTTCACCCTATTATACCTTTGGTTCATACTTAACTAAGTATTGGGTCAAG
66 AATCTCGAGTGTGGCGTTCACCCTATTATACCTTTGGTTCATACTTAACTAAGTATTGGGTCAAG
26045876 GTCCTATTCCAACACCTTTA
131 GTCCTATTCCAACACCTTTA
26045896 AGACTCAAGCTGACTTATCTAGCATACCTAGTGGTGTCTACCATGTTTCTTTGAACTTATCACTC
1 AGACTCAAGCTGACTTATCTAGCATACCTAGTGGTGTCTACCATGTTTCTTTGAACTTATCACTC
26045961 AATCTCGAGTGTGGCGTTCACCCTATTATACCTTTGGTTCATACTTAACTAAGTATTGGGTCAAG
66 AATCTCGAGTGTGGCGTTCACCCTATTATACCTTTGGTTCATACTTAACTAAGTATTGGGTCAAG
26046026 GTCCTATTCCAACACCTTTA
131 GTCCTATTCCAACACCTTTA
26046046 AG
1 AG
26046048 TGTCTTATAA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (150 bp):
AGACTCAAGCTGACTTATCTAGCATACCTAGTGGTGTCTACCATGTTTCTTTGAACTTATCACTC
AATCTCGAGTGTGGCGTTCACCCTATTATACCTTTGGTTCATACTTAACTAAGTATTGGGTCAAG
GTCCTATTCCAACACCTTTA
Found at i:26047555 original size:22 final size:22
Alignment explanation
Indices: 26047503--26047566 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
26047493 TATTTGGGAA
* *
26047503 TTGGTACGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
26047525 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
26047547 TTGGTACGAAATGGAAATGG
1 TTGGTACGAAATGGTAATGG
26047567 TTCAAAAAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:26048656 original size:10 final size:10
Alignment explanation
Indices: 26048641--26048682 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
26048631 TTTGCAAGTT
26048641 TTGAGCTAAA
1 TTGAGCTAAA
* *
26048651 TTGAGCTGAT
1 TTGAGCTAAA
*
26048661 TTGAGCT-CA
1 TTGAGCTAAA
26048670 TTGAGCTAAA
1 TTGAGCTAAA
26048680 TTG
1 TTG
26048683 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:26057877 original size:20 final size:19
Alignment explanation
Indices: 26057854--26057918 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
26057844 AAGCTCAAAC
26057854 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
26057874 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
26057894 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
26057914 GAGCT
1 GAGCT
26057919 GTGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:26059758 original size:18 final size:18
Alignment explanation
Indices: 26059737--26059771 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26059727 TTTTTCTTTT
26059737 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
26059755 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
26059772 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:26064415 original size:15 final size:14
Alignment explanation
Indices: 26064395--26064442 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
26064385 CTCATTTTCA
26064395 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
26064410 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
26064424 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
26064439 TCTT
1 TCTT
26064443 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:26064447 original size:22 final size:21
Alignment explanation
Indices: 26064395--26064453 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
26064385 CTCATTTTCA
* *
26064395 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
26064416 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
26064437 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
26064454 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:26065369 original size:19 final size:18
Alignment explanation
Indices: 26065345--26065383 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26065335 TCTCTTTTTC
26065345 TTTTTTTTTAATTCCGAA
1 TTTTTTTTTAATTCCGAA
*
26065363 TTTTTTTTTAATTTCGAA
1 TTTTTTTTTAATTCCGAA
26065381 TTT
1 TTT
26065384 CTCTCACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTTTTTAATTCCGAA
Found at i:26071735 original size:20 final size:20
Alignment explanation
Indices: 26071712--26071760 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
26071702 GATTGAAGTC
26071712 GAATTGAGCTAAGGGAGCTG
1 GAATTGAGCTAAGGGAGCTG
26071732 GAATTGAGCTAAGGGAGCTG
1 GAATTGAGCTAAGGGAGCTG
*
26071752 AAATT-AGCT
1 GAATTGAGCT
26071761 TGCACTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.22
Consensus pattern (20 bp):
GAATTGAGCTAAGGGAGCTG
Found at i:26087865 original size:27 final size:27
Alignment explanation
Indices: 26087833--26087884 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
26087823 ACAAGTGAGG
26087833 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* * *
26087860 AAAAAGAGAATGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
26087885 ATGTGAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.25, T:0.06
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:26097964 original size:52 final size:52
Alignment explanation
Indices: 26097881--26097981 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
26097871 TAAGGAAACG
* *
26097881 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
26097933 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
26097982 TATGTGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:26108479 original size:17 final size:15
Alignment explanation
Indices: 26108459--26108497 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
26108449 GCGAGCGAGA
26108459 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
26108476 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
26108491 AAGATGA
1 AA-ATGA
26108498 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:26111888 original size:20 final size:19
Alignment explanation
Indices: 26111850--26111888 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
26111840 TGAAGACACG
*
26111850 GCCCAATAAGATGTACAAA
1 GCCCAATAAGAAGTACAAA
*
26111869 GCCCAATCAAGAAGTTCAAA
1 GCCCAAT-AAGAAGTACAAA
26111889 CTAAACTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (19 bp):
GCCCAATAAGAAGTACAAA
Found at i:26130360 original size:16 final size:16
Alignment explanation
Indices: 26130334--26130375 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
26130324 GCACTCTCCT
26130334 ATTCAATGTAATGAACC
1 ATTC-ATGTAATGAACC
26130351 ATTCATGTAATGAACC
1 ATTCATGTAATGAACC
26130367 ATTCATGTA
1 ATTCATGTA
26130376 TCATCCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (16 bp):
ATTCATGTAATGAACC
Done.