Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold439
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: 1094049
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 5 of 7
Found at i:623323 original size:18 final size:18
Alignment explanation
Indices: 623300--623354 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
623290 GATAAATACG
*
623300 TACATATACATATACATA
1 TACATATACATATATATA
623318 TACATATACATATATATA
1 TACATATACATATATATA
* *
623336 TATATATATATATATATA
1 TACATATACATATATATA
623354 T
1 T
623355 CTCGAAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (18 bp):
TACATATACATATATATA
Found at i:623334 original size:2 final size:2
Alignment explanation
Indices: 623303--623354 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
623293 AAATACGTAC
* * * *
623303 AT AT AC AT AT AC AT AT AC AT AT AC 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
623345 AT AT AT AT AT
1 AT AT AT AT AT
623355 CTCGAAACAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:624513 original size:38 final size:37
Alignment explanation
Indices: 624457--624529 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
624447 TTACTGAAAT
624457 AATTTTTTAAATTAAATAA-AAATAATGTATTTAATATA
1 AATTTTTTAAATTAAATAATAAATAAT-T-TTTAATATA
624495 AATTTTTTAAAATT-AATAATTAAATAATTTTTAAT
1 AATTTTTT-AAATTAAATAA-TAAATAATTTTTAAT
624530 TAATCAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
38 19 0.59
39 6 0.19
40 7 0.22
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (37 bp):
AATTTTTTAAATTAAATAATAAATAATTTTTAATATA
Found at i:626833 original size:14 final size:15
Alignment explanation
Indices: 626804--626837 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
626794 TAACCACCAT
626804 AAAAAATTTGAGTTG
1 AAAAAATTTGAGTTG
*
626819 AAAAAATTT-ATTTG
1 AAAAAATTTGAGTTG
626833 AAAAA
1 AAAAA
626838 GGTAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAAAAATTTGAGTTG
Found at i:627028 original size:17 final size:18
Alignment explanation
Indices: 626985--627029 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
626975 GTTAAAAAGT
626985 ATTTA-TTT-TTTTGAGA
1 ATTTACTTTCTTTTGAGA
*
627001 ATGTAACTTTCTTTTGA-A
1 AT-TTACTTTCTTTTGAGA
627019 ATTTACTTTCT
1 ATTTACTTTCT
627030 CATAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 2 0.08
17 10 0.42
18 6 0.25
19 6 0.25
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (18 bp):
ATTTACTTTCTTTTGAGA
Found at i:627231 original size:21 final size:21
Alignment explanation
Indices: 627207--627263 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
627197 ATCATAAATG
*
627207 TTTAATTAATTTTAAAATT-AT
1 TTTAATTAATTAT-AAATTAAT
627228 TTTAATT-ATTATAAATTAAAT
1 TTTAATTAATTATAAATT-AAT
627249 TTTAATTAAATTATA
1 TTTAATT-AATTATA
627264 TTATAGTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 5 0.16
20 4 0.13
21 16 0.52
23 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATTAATTATAAATTAAT
Found at i:628225 original size:17 final size:17
Alignment explanation
Indices: 628179--628226 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
628169 TTATTTATGT
628179 ATAATAAA-TA-ATTAA
1 ATAATAAATTATATTAA
628194 A-AATAATATTTATATTAA
1 ATAATAA-A-TTATATTAA
628212 ATAATAAATTATATT
1 ATAATAAATTATATT
628227 TATGTTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.18
15 2 0.07
17 9 0.32
18 7 0.25
19 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATAAATTATATTAA
Found at i:628225 original size:23 final size:23
Alignment explanation
Indices: 628194--628241 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
628184 AAATAATTAA
628194 AAATAATATTTATATTAAATAAT
1 AAATAATATTTATATTAAATAAT
* * *
628217 AAATTATATTTATGTTGAATAAT
1 AAATAATATTTATATTAAATAAT
628240 AA
1 AA
628242 CTAAAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
AAATAATATTTATATTAAATAAT
Found at i:635447 original size:20 final size:21
Alignment explanation
Indices: 635396--635449 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
635386 TTCTACAATT
* *
635396 TGCATTGATACAAATAGTAAA
1 TGCATCGATACATATAGTAAA
* * *
635417 TGTATCAATACATA-AGTGAA
1 TGCATCGATACATATAGTAAA
635437 TGCATCGATACAT
1 TGCATCGATACAT
635450 GCCCAAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (21 bp):
TGCATCGATACATATAGTAAA
Found at i:641258 original size:15 final size:16
Alignment explanation
Indices: 641238--641267 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
641228 TTCACTCTTT
641238 TTTTTTATTT-TTTTA
1 TTTTTTATTTATTTTA
641253 TTTTTTATTTATTTT
1 TTTTTTATTTATTTT
641268 GAAAAAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTATTTATTTTA
Found at i:656336 original size:10 final size:10
Alignment explanation
Indices: 656321--656348 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
656311 TCAATTGACA
656321 TTTTAATACT
1 TTTTAATACT
656331 TTTTAATACT
1 TTTTAATACT
656341 TTTTAATA
1 TTTTAATA
656349 AAATAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTAATACT
Found at i:657928 original size:2 final size:2
Alignment explanation
Indices: 657921--657958 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
657911 TATAAACTTT
657921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
657959 TAAAACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:664577 original size:11 final size:11
Alignment explanation
Indices: 664561--664607 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
664551 ACAATTTATG
664561 TATTTATATTA
1 TATTTATATTA
*
664572 TATTTATATCA
1 TATTTATATTA
*
664583 TATTTGTATATTT
1 TA-TT-TATATTA
664596 TA-TTATATTA
1 TATTTATATTA
664606 TA
1 TA
664608 ATCGTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 8 0.27
11 13 0.43
12 2 0.07
13 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTATATTA
Found at i:664678 original size:24 final size:25
Alignment explanation
Indices: 664633--664704 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 25
664623 TTTTATAAAT
*
664633 ATATAAATTATATATAAA--TTAATA
1 ATATACATT-TATATAAATTTTAATA
* *
664657 ATTTATA-TTATATAAATTTTAA-A
1 ATATACATTTATATAAATTTTAATA
*
664680 ATATACATTTATATTATATTTTAAT
1 ATATACATTTATA-TAAATTTTAAT
664705 TACTTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 8 0.21
23 7 0.18
24 14 0.37
25 9 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATACATTTATATAAATTTTAATA
Found at i:664683 original size:19 final size:19
Alignment explanation
Indices: 664616--664683 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
664606 TAATCGTATT
*
664616 TAAAATATTTTATAAATATA
1 TAAAATATTATATAAAT-TA
*
664636 TAAATTA-TATATAAATTAA
1 TAAAATATTATATAAATT-A
* *
664655 TAATTTATATTATATAAATTT
1 TAA--AATATTATATAAATTA
664676 TAAAATAT
1 TAAAATAT
664684 ACATTTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.42
20 6 0.16
21 5 0.13
22 10 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAAATATTATATAAATTA
Found at i:667491 original size:50 final size:50
Alignment explanation
Indices: 667432--667640 Score: 357
Period size: 50 Copynumber: 4.2 Consensus size: 50
667422 TATACTTAGA
667432 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
* *
667482 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
*
667532 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
* *
667582 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATT
667632 GTCAACAAT
1 GTCAACAAT
667641 GACAACAACT
Statistics
Matches: 150, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 149 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
Found at i:672644 original size:1 final size:1
Alignment explanation
Indices: 672638--672664 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
672628 TCCAAAGCAC
672638 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
672665 GAAATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:673144 original size:113 final size:114
Alignment explanation
Indices: 672940--673170 Score: 356
Period size: 113 Copynumber: 2.0 Consensus size: 114
672930 AAATAAATAT
* *
672940 AAATTACTTATTAATTTTATAAATGACAAAAAATCTAAAAAATTATTTTATATTTTAAGAGTTTC
1 AAATGACTTATTAATTTTATAAATGACAAAAAATCTAAAAAATTATTTTATATTTTAAGAGTTTA
* * *
673005 TAATTTATTTATTGTGACAATATATATACTTATATATTGTTAGTGAATC
66 TAATTGATTTATTGTGACAATATATATACTTATATATTATTAATGAATC
* * *
673054 AAATGACTTATTAATTTTATAAATGA-TAAAAATTTAAAAAATTGTTTTATATTTTAAGAGTTTA
1 AAATGACTTATTAATTTTATAAATGACAAAAAATCTAAAAAATTATTTTATATTTTAAGAGTTTA
* * *
673118 TAATTGATTTATTGTGATAATGTATATATTTATATATTATTAATGAATC
66 TAATTGATTTATTGTGACAATATATATACTTATATATTATTAATGAATC
673167 AAAT
1 AAAT
673171 AACGTTACTA
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 81 0.76
114 25 0.24
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (114 bp):
AAATGACTTATTAATTTTATAAATGACAAAAAATCTAAAAAATTATTTTATATTTTAAGAGTTTA
TAATTGATTTATTGTGACAATATATATACTTATATATTATTAATGAATC
Found at i:673220 original size:113 final size:113
Alignment explanation
Indices: 672940--673221 Score: 282
Period size: 113 Copynumber: 2.5 Consensus size: 113
672930 AAATAAATAT
* * * * * * * * *
672940 AAATTACTTATTAATTTTATAAATGACAAAAAATCTAAAAAATTATTTTATATTTTAAGAGTTTC
1 AAATAACTTACTAATATTAAAAATGA-TAAAAATTTAAAAAAATAATTTATATTTTAAGAGTTTA
* * *
673005 TAATTTATTTATTGTGACAATATATATACTTATATATTGTTAGTGAATC
65 TAATTGATTTATTGTGACAATATATATACTTATATATTATTAATGAATC
* * * * * **
673054 AAATGACTTATTAATTTTATAAATGATAAAAATTTAAAAAATTGTTTTATATTTTAAGAGTTTAT
1 AAATAACTTACTAATATTAAAAATGATAAAAATTTAAAAAAATAATTTATATTTTAAGAGTTTAT
* * *
673119 AATTGATTTATTGTGATAATGTATATATTTATATATTATTAATGAATC
66 AATTGATTTATTGTGACAATATATATACTTATATATTATTAATGAATC
** *
673167 AAATAACGTTACT-ATATTAAAAATTTTTAAAA-TTAAATAAAGATAATTT-TATTTT
1 AAATAAC-TTACTAATATTAAAAATGATAAAAATTTAAA-AAA-ATAATTTATATTTT
673222 TATTGACAGA
Statistics
Matches: 144, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
112 5 0.03
113 106 0.74
114 33 0.23
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (113 bp):
AAATAACTTACTAATATTAAAAATGATAAAAATTTAAAAAAATAATTTATATTTTAAGAGTTTAT
AATTGATTTATTGTGACAATATATATACTTATATATTATTAATGAATC
Found at i:674359 original size:18 final size:17
Alignment explanation
Indices: 674332--674366 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
674322 TATATAAACA
674332 TTTTTTCTTTTTCTTTT
1 TTTTTTCTTTTTCTTTT
*
674349 TTTTTTCCTTTTTGTTTT
1 TTTTTT-CTTTTTCTTTT
674367 CTCATTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTTTCTTTTTCTTTT
Found at i:675924 original size:17 final size:17
Alignment explanation
Indices: 675899--675979 Score: 57
Period size: 17 Copynumber: 5.0 Consensus size: 17
675889 TAAATTTTTT
*
675899 TAATGTAAATATAATTA
1 TAATATAAATATAATTA
675916 TAATATAAAT-T-ATTA
1 TAATATAAATATAATTA
* *
675931 -AATAT-ATTAAAATT-
1 TAATATAAATATAATTA
*
675945 TAAATGTAAATATAA-TA
1 T-AATATAAATATAATTA
*
675962 TTATAATAAATATAATTA
1 TAAT-ATAAATATAATTA
675980 ATTATATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
13 2 0.04
14 5 0.10
15 7 0.15
16 8 0.17
17 24 0.50
18 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATATAAATATAATTA
Found at i:675928 original size:12 final size:12
Alignment explanation
Indices: 675906--675969 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
675896 TTTTAATGTA
675906 AATAT-AATTAT
1 AATATAAATTAT
675917 AATATAAATTATT
1 AATATAAATTA-T
* *
675930 AA-ATATATTAA
1 AATATAAATTAT
*
675941 AATTTAAATGTA-
1 AATATAAAT-TAT
675953 AATATAATATTAT
1 AATATAA-ATTAT
675966 AATA
1 AATA
675970 AATATAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
11 7 0.17
12 24 0.57
13 11 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
AATATAAATTAT
Found at i:675959 original size:47 final size:49
Alignment explanation
Indices: 675900--675992 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
675890 AAATTTTTTT
*
675900 AATGTAAATAT-A-ATTATAATATAA-ATTATTAAATATATTAAAATTTA
1 AATGTAAATATAATATTATAATA-AATATAATTAAATATATTAAAATTTA
* *
675947 AATGTAAATATAATATTATAATAAATATAATTAATTATATTTAAAT
1 AATGTAAATATAATATTATAATAAATATAATTAAATATATTAAAAT
675993 ATATCATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 11 0.28
48 3 0.08
49 26 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (49 bp):
AATGTAAATATAATATTATAATAAATATAATTAAATATATTAAAATTTA
Found at i:676389 original size:13 final size:14
Alignment explanation
Indices: 676366--676396 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
676356 CTTTTTTAAT
676366 TTTTAATTATTTTA
1 TTTTAATTATTTTA
676380 TTTT-ATTATTTTA
1 TTTTAATTATTTTA
676393 TTTT
1 TTTT
676397 TAAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTATTTTA
Found at i:676425 original size:16 final size:15
Alignment explanation
Indices: 676404--676435 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
676394 TTTTAAAATA
676404 ATAATAATTATTTAAT
1 ATAATAATT-TTTAAT
676420 ATAATAATTTTTAAT
1 ATAATAATTTTTAAT
676435 A
1 A
676436 CCCTCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATAATTTTTAAT
Found at i:676539 original size:28 final size:27
Alignment explanation
Indices: 676477--676562 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
676467 AATAACAATT
*
676477 ACTTTTAATATAAATAATATTTAAATT
1 ACTTTTAATATAAATAATATTTAAATA
* *
676504 ATTATTTAATATAAAT-ATAATTTTAATAA
1 ACT-TTTAATATAAATAAT-ATTTAAAT-A
* * *
676533 ACTTTTATTATATACTATTATTTAATATA
1 ACTTTTAATATA-AATAATATTTAA-ATA
676562 A
1 A
676563 ATATAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
27 4 0.09
28 27 0.60
29 11 0.24
30 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (27 bp):
ACTTTTAATATAAATAATATTTAAATA
Found at i:679285 original size:2 final size:2
Alignment explanation
Indices: 679278--679303 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
679268 TATATGTATA
679278 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
679304 ATTCTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:683126 original size:38 final size:38
Alignment explanation
Indices: 683075--683151 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
683065 AGCATTTGGT
683075 AAACAATTAAGGTTAATGCAACAAAAACATGTTTATTA
1 AAACAATTAAGGTTAATGCAACAAAAACATGTTTATTA
683113 AAACAATTAAGGTTAATGCAACAAAAACATGTTTATTA
1 AAACAATTAAGGTTAATGCAACAAAAACATGTTTATTA
683151 A
1 A
683152 CTATGGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (38 bp):
AAACAATTAAGGTTAATGCAACAAAAACATGTTTATTA
Found at i:685492 original size:26 final size:24
Alignment explanation
Indices: 685441--685508 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
685431 TATATTTTTA
*
685441 AAATTTTAATTTAATTTAAATTATTT
1 AAATTTT-ATTTAA-TAAAATTATTT
685467 AAATTTTATTTAATAAAATATAATTT
1 AAATTTTATTTAATAAAAT-T-ATTT
* *
685493 TAATTTT-TTTACTAAA
1 AAATTTTATTTAATAAA
685509 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.14
25 15 0.41
26 17 0.46
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (24 bp):
AAATTTTATTTAATAAAATTATTT
Found at i:685519 original size:25 final size:26
Alignment explanation
Indices: 685463--685520 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
685453 AATTTAAATT
685463 ATTTAAATTTTATTTAATAAAATATAA
1 ATTT-AATTTTATTTAATAAAATATAA
* * * *
685490 TTTTAATTTT-TTTACTAAATTTTAA
1 ATTTAATTTTATTTAATAAAATATAA
685515 ATTTAA
1 ATTTAA
685521 GTATTTATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 17 0.65
26 6 0.23
27 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTAATTTTATTTAATAAAATATAA
Found at i:686910 original size:14 final size:13
Alignment explanation
Indices: 686874--686908 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
686864 GAACATTAAA
*
686874 TTAATAAATTATT
1 TTAATAAAATATT
*
686887 TTAAGAAAATATT
1 TTAATAAAATATT
686900 TTAATAAAA
1 TTAATAAAA
686909 ATGAATATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TTAATAAAATATT
Found at i:686982 original size:54 final size:53
Alignment explanation
Indices: 686874--686982 Score: 127
Period size: 54 Copynumber: 2.0 Consensus size: 53
686864 GAACATTAAA
*
686874 TTAATAAATTATTTTAAGAAAATATTTTAATAAAAATGAATATCTAAAATTATT
1 TTAATAAATTATTTTAAGAAAATATTTT-ATAAAAATGAATATCTAAAAATATT
686928 TTAATAAATT-TTATTAA-AATAATATTTT-TAAAATAT-AATATGCTAAACAATATT
1 TTAATAAATTATT-TTAAGAA-AATATTTTATAAAA-ATGAATAT-CTAAA-AATATT
686982 T
1 T
686983 ATGAAATATA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
52 10 0.20
53 11 0.22
54 28 0.57
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (53 bp):
TTAATAAATTATTTTAAGAAAATATTTTATAAAAATGAATATCTAAAAATATT
Found at i:688424 original size:17 final size:18
Alignment explanation
Indices: 688397--688435 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
688387 GAAAAGCAAA
688397 ATTTATTATTTATTCCAT
1 ATTTATTATTTATTCCAT
* *
688415 ATTT-TTATTTCTTCTAT
1 ATTTATTATTTATTCCAT
688432 ATTT
1 ATTT
688436 CTAACATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATTATTTATTCCAT
Found at i:692095 original size:31 final size:32
Alignment explanation
Indices: 692057--692117 Score: 115
Period size: 31 Copynumber: 1.9 Consensus size: 32
692047 AAACCACCCA
692057 TATTGAAGATTGCAAGAGATAT-GATACGAAG
1 TATTGAAGATTGCAAGAGATATCGATACGAAG
692088 TATTGAAGATTGCAAGAGATATCGATACGA
1 TATTGAAGATTGCAAGAGATATCGATACGA
692118 CTAGATCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (32 bp):
TATTGAAGATTGCAAGAGATATCGATACGAAG
Found at i:702512 original size:17 final size:16
Alignment explanation
Indices: 702490--702539 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
702480 CTGGTTATGT
*
702490 AAGAAAAAAAGAAGATG
1 AAGAAAAAAAGAAGA-A
*
702507 AAGAAAAAAGGAAGAA
1 AAGAAAAAAAGAAGAA
*
702523 AAAAAAAAAAGAA-AA
1 AAGAAAAAAAGAAGAA
702538 AA
1 AA
702540 CATATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 14 0.48
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (16 bp):
AAGAAAAAAAGAAGAA
Found at i:704213 original size:97 final size:97
Alignment explanation
Indices: 704101--704308 Score: 283
Period size: 97 Copynumber: 2.1 Consensus size: 97
704091 TTATGGAGAT
* **
704101 ACTCCAACCCTATTCCTCCGAGGGGATACTTTAATCC-CGCTTTTAAACACATCAAAGATTAAAT
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAA-CCTCGCTTTTAAACACATCAAAGATTAAAT
704165 CTTATTCTCACTTAAATTGTCACCATCGGGGAC
65 CTTATTCTCACTTAAATTGTCACCATCGGGGAC
** * * * * * *
704198 ACTTTAACCCCATTCCTTCGAGGGGATACTCCAACCTCGCTTTTAAACGCATCAGAGTTTACATT
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAAGATTAAATC
**
704263 TTATTCTCACTTAAATTGTCATTATCGGGGAC
66 TTATTCTCACTTAAATTGTCACCATCGGGGAC
704295 ACTCCAACCCCATT
1 ACTCCAACCCCATT
704309 TTTCAATCAA
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 2 0.02
97 93 0.98
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (97 bp):
ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAAGATTAAATC
TTATTCTCACTTAAATTGTCACCATCGGGGAC
Found at i:705441 original size:103 final size:103
Alignment explanation
Indices: 705261--705525 Score: 300
Period size: 103 Copynumber: 2.6 Consensus size: 103
705251 CTATCAATGG
* * * * **
705261 CACCAAGTCACCCAATTCTGATCGCCAACAAGGCATCATCACTTTAAATGACACCAAGTTACTCA
1 CACCAAATCACCCAATTTTGATCGCCACCAAGGCATCATCACTTTAAGTGACACCAAGCCACTCA
* * *
705326 ACATCTAATCGCCATCAAGGCGTTATTATCGTCAGTGA
66 ACATCTAATCGCCACCAAGGCGTTATCATCATCAGTGA
* * *
705364 CACCAAATCACCCAATTTTGATCGCCACCATGGCATCATCACTTTAAGTGACACTAAGCCGCTCC
1 CACCAAATCACCCAATTTTGATCGCCACCAAGGCATCATCACTTTAAGTGACACCAAGCCACT-C
* * *
705429 AA-GTCTAGTCGCCACCAAGGCGTTATCATTATCAGTGA
65 AACATCTAATCGCCACCAAGGCGTTATCATCATCAGTGA
* * * * * *
705467 CACCAAATCATTCAAATTTCGATCGCCTCTAAGGCATCA-CGACTTTCAGTGACACCAAG
1 CACCAAATCA-CCCAATTTTGATCGCCACCAAGGCATCATC-ACTTTAAGTGACACCAAG
705526 TCACCCCAAT
Statistics
Matches: 136, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
103 95 0.70
104 41 0.30
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.24
Consensus pattern (103 bp):
CACCAAATCACCCAATTTTGATCGCCACCAAGGCATCATCACTTTAAGTGACACCAAGCCACTCA
ACATCTAATCGCCACCAAGGCGTTATCATCATCAGTGA
Found at i:705553 original size:104 final size:102
Alignment explanation
Indices: 705252--705571 Score: 259
Period size: 103 Copynumber: 3.1 Consensus size: 102
705242 GTATTATCGC
* * * * * *
705252 TATCAATGGCACCAAGTCACCCAA-TTCTGATCGCCAACAAGGCATCATCACTTTAAATGACACC
1 TATCAGTGACACCAAATCACCAAATTTC-GATCGCCACCAAGGCATCATCACTTTAAGTGACACC
** * * * *
705316 AAGTTA-CTCAACATCTAATCGCCATCAAGGCGTTATTAT
65 AAGCCACCCCAA-GTC-GATCGCCATCAAGGCGTTATCAT
** * * * *
705355 CGTCAGTGACACCAAATCACCCAATTTTGATCGCCACCATGGCATCATCACTTTAAGTGACACTA
1 TATCAGTGACACCAAATCACCAAATTTCGATCGCCACCAAGGCATCATCACTTTAAGTGACACCA
* * * *
705420 AGCCGCTCCAAGTCTAGTCGCCACCAAGGCGTTATCAT
66 AGCCACCCCAAGTCGA-TCGCCATCAAGGCGTTATCAT
* * * *
705458 TATCAGTGACACCAAATCATTCAAATTTCGATCGCCTCTAAGGCATCA-CGACTTTCAGTGACAC
1 TATCAGTGACACCAAATCA-CCAAATTTCGATCGCCACCAAGGCATCATC-ACTTTAAGTGACAC
* * * * * *
705522 CAAGTCACCCCAATTTCGATCGCCATTAAGGCATCATCAC
64 CAAGCCACCCCAA-GTCGATCGCCATCAAGGCGTTATCAT
*
705562 TATTAGTGAC
1 TATCAGTGAC
705572 TACAAGTCAT
Statistics
Matches: 171, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
102 1 0.01
103 93 0.54
104 74 0.43
105 3 0.02
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (102 bp):
TATCAGTGACACCAAATCACCAAATTTCGATCGCCACCAAGGCATCATCACTTTAAGTGACACCA
AGCCACCCCAAGTCGATCGCCATCAAGGCGTTATCAT
Found at i:705570 original size:52 final size:52
Alignment explanation
Indices: 705261--705580 Score: 192
Period size: 52 Copynumber: 6.2 Consensus size: 52
705251 CTATCAATGG
* *
705261 CACCAAGTCA-CCCAA-TTCTGATCGCCAACAAGGCATCATCACTTTAAATGA
1 CACCAAGTCACCCCAATTTC-GATCGCCACCAAGGCATCATCACTTTAAGTGA
* * ** * * * * * * *
705312 CACCAAGTTA-CTCAACATCTAATCGCCATCAAGGCGTTATTA-TCGTCAGTGA
1 CACCAAGTCACCCCAATTTC-GATCGCCACCAAGGCATCATCACT-TTAAGTGA
* * *
705364 CACCAAATCA-CCCAATTTTGATCGCCACCATGGCATCATCACTTTAAGTGA
1 CACCAAGTCACCCCAATTTCGATCGCCACCAAGGCATCATCACTTTAAGTGA
* * * * * * * * *
705415 CACTAAGCCGCTCCAA-GTCTAGTCGCCACCAAGGCGTTATCA-TTATCAGTGA
1 CACCAAGTCACCCCAATTTCGA-TCGCCACCAAGGCATCATCACTT-TAAGTGA
* ** * * * *
705467 CACCAAATCATTCAAATTTCGATCGCCTCTAAGGCATCA-CGACTTTCAGTGA
1 CACCAAGTCACCCCAATTTCGATCGCCACCAAGGCATCATC-ACTTTAAGTGA
**
705519 CACCAAGTCACCCCAATTTCGATCGCCATTAAGGCATCATCACTATT-AGTGA
1 CACCAAGTCACCCCAATTTCGATCGCCACCAAGGCATCATCACT-TTAAGTGA
705571 CTA-CAAGTCA
1 C-ACCAAGTCA
705581 TTACAGTTCT
Statistics
Matches: 202, Mismatches: 55, Indels: 23
0.72 0.20 0.08
Matches are distributed among these distances:
51 47 0.23
52 146 0.72
53 9 0.04
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (52 bp):
CACCAAGTCACCCCAATTTCGATCGCCACCAAGGCATCATCACTTTAAGTGA
Found at i:709805 original size:24 final size:23
Alignment explanation
Indices: 709777--709823 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
709767 ATATATTTAT
*
709777 ATTTTTATTAATATA-AAAATATA
1 ATTTTT-TAAATATATAAAATATA
709800 ATTTTTTAAATATATAAAATATA
1 ATTTTTTAAATATATAAAATATA
709823 A
1 A
709824 AATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTTTAAATATATAAAATATA
Found at i:710575 original size:21 final size:19
Alignment explanation
Indices: 710535--710584 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
710525 CATACGTATC
*
710535 AATATTTTATTAATATTTA
1 AATATTTTTTTAATATTTA
710554 AATATTTTTTTAATATTATTA
1 AATATTTTTTTAATA-T-TTA
*
710575 ATTATTTTTT
1 AATATTTTTT
710585 ATTTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 14 0.52
20 1 0.04
21 12 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATATTTTTTTAATATTTA
Found at i:710598 original size:17 final size:20
Alignment explanation
Indices: 710538--710600 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
710528 ACGTATCAAT
*
710538 ATTTTATTAATATT-TAAATA
1 ATTTT-TTAATATTATTAATA
* *
710558 TTTTTTTAATATTATTAATT
1 ATTTTTTAATATTATTAATA
710578 ATTTTTT-AT-TTATT-ATA
1 ATTTTTTAATATTATTAATA
710595 ATTTTT
1 ATTTTT
710601 AAAATATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 8 0.22
18 5 0.14
19 10 0.27
20 14 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTTAATATTATTAATA
Found at i:710600 original size:18 final size:19
Alignment explanation
Indices: 710538--710600 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
710528 ACGTATCAAT
* *
710538 ATTTTATTAATATT-TAAA
1 ATTTTTTTAATATTATTAA
710556 TATTTTTTTAATATTATT-A
1 -ATTTTTTTAATATTATTAA
*
710575 ATTATTTTTTAT-TTATTATA
1 ATT-TTTTTAATATTATTA-A
710595 ATTTTT
1 ATTTTT
710601 AAAATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.22
19 24 0.65
20 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTTAATATTATTAA
Found at i:710616 original size:14 final size:14
Alignment explanation
Indices: 710599--710650 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
710589 ATTATAATTT
710599 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* *
710613 TTAAAATACT-CAAT
1 TTAAAATA-TAAAAA
710627 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
710642 TTAAAATAT
1 TTAAAATAT
710651 TCTATTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:710882 original size:21 final size:22
Alignment explanation
Indices: 710842--710887 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
710832 ATTAATATTT
710842 ATATATTTTATAAATAAATTTAA
1 ATATATTTTATAAATAAA-TTAA
*
710865 ATATATTTT-T-AATTAATTAA
1 ATATATTTTATAAATAAATTAA
710885 ATA
1 ATA
710888 ATAATTCGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 5 0.23
22 1 0.05
23 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATATTTTATAAATAAATTAA
Found at i:713848 original size:40 final size:40
Alignment explanation
Indices: 713793--713870 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
713783 GAGCAATCAT
713793 AATATTCCTTAGTATAAGGTATGAACCTAGTCCAACCTGG
1 AATATTCCTTAGTATAAGGTATGAACCTAGTCCAACCTGG
*
713833 AATATTCCTTAGTATAAGGTATGAGCCTAGTCCAACCT
1 AATATTCCTTAGTATAAGGTATGAACCTAGTCCAACCT
713871 TGACTTGTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (40 bp):
AATATTCCTTAGTATAAGGTATGAACCTAGTCCAACCTGG
Found at i:714609 original size:3 final size:3
Alignment explanation
Indices: 714601--714631 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
714591 TGCTTGTAAG
*
714601 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
714632 AGTATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:721606 original size:49 final size:48
Alignment explanation
Indices: 721544--721770 Score: 267
Period size: 49 Copynumber: 4.6 Consensus size: 48
721534 ATATTAAAGA
721544 TGCCAATATGCTGATTCAAGGCCAACGATATCGAATTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCG-ATTTAAAGATGAAGG
* *
721593 TGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGAT-TTAAAGATGAAGG
* * * * * * *
721642 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTATAAAGATAAAGT
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGATT-TAAAGATGAAGG
* * *
721691 TGCCAATATACTGATTCAAGG-CAAGCAATATCGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAA-CGATATC-GATTTAAAGATGAAGG
* * *
721740 TACCAATATGCTGATTTAAGGCCAGCGATAT
1 TGCCAATATGCTGATTCAAGGCCAACGATAT
721771 TGGGCTTGTG
Statistics
Matches: 151, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
48 4 0.03
49 143 0.95
50 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATCGATTTAAAGATGAAGG
Found at i:721659 original size:98 final size:94
Alignment explanation
Indices: 721508--722166 Score: 474
Period size: 98 Copynumber: 7.0 Consensus size: 94
721498 TGTGCTGAGA
* * * * *
721508 CAAGGCCAGCGGCATTGGGCTTAGGAATATTAAAGATGCCAATATGCTGATTCAAGGCCAACGAT
1 CAAGGCCAGCGACATTGGTCTTA--AAGA-TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA-
721573 ATCGAATTTAAAGATGAAGGTGCCAATATGCTGATT
62 AT-G-A-TTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
721609 CAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA-A-T
* * * *
721674 GGTTATAAAGATAAAGTTGCCAATATACTGATT
64 -GAT-TAAAGATGAAGGTGCCAATATGCTGATT
* * * * * * * *
721707 CAAGGCAAGCAATATCGGACTTAAAGATGAAGGTACCAATATGCTGATTTAAGGCCAGCG-AT-A
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAATGA
* *** * *
721770 TT---G-GGCTTGTGCCAATGTACTGATT
66 TTAAAGATGAAGGTGCCAATATGCTGATT
* * *
721795 CAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGTCAATATGCTGATTCAAGGTCAGCG-AT-A
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAATGA
* *** * *
721858 TT---G-GGCTTGTGCCAATGTGCTAATT
66 TTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
721883 CAAGGCCAGCAATATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTTAAGG-C--C-AATGA
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAATGA
* * ***
721943 -TATAG-GGCTTGTGCCAATATGCTGATT
66 TTAAAGATGAAGGTGCCAATATGCTGATT
* * *
721970 CAAGGCCAGCGACATTGGTCTTAAGGATAAAGGCGCCAATGTGCTGATTTCAAGGCCAGCGACAT
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGA-TTCAAGGCCAGCGA-A-
* * * ** *
722035 TGGTCATAAAGATAAAGGCGCCAATGCGCTAATT
63 TGAT--TAAAGATGAAGGTGCCAATATGCTGATT
* * * *
722069 CAAGGCCAGCGACAATGGTCATAAAGATAAAGCTGCCAATATGCTGATTCAAGGTCAGCGATATC
1 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA-AT-
*
722134 GGACTTAAAGATGAAGGTACCAATATGCTGATT
64 -GA-TTAAAGATGAAGGTGCCAATATGCTGATT
722167 TAACGTACCA
Statistics
Matches: 451, Mismatches: 85, Indels: 47
0.77 0.15 0.08
Matches are distributed among these distances:
84 4 0.01
85 1 0.00
86 1 0.00
87 68 0.15
88 130 0.29
89 7 0.02
90 1 0.00
92 2 0.00
93 2 0.00
94 1 0.00
95 3 0.01
96 1 0.00
97 2 0.00
98 148 0.33
99 60 0.13
100 1 0.00
101 19 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (94 bp):
CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAATGA
TTAAAGATGAAGGTGCCAATATGCTGATT
Found at i:721800 original size:39 final size:39
Alignment explanation
Indices: 721742--721987 Score: 168
Period size: 39 Copynumber: 5.8 Consensus size: 39
721732 GATGAAGGTA
*
721742 CCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* * * * *
721781 CCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTG
* *
721830 TCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
* * * *
721869 CCAATGTGCTAATTCAAGGCCAGCAATATTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---------GTG
* ** *
721917 CCAATATGCTGATTTAAGGCCAATGATATAGGGCTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
*
721956 CCAATATGCTGATTCAAGGCCAGCGACATTGG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGG
721988 TCTTAAGGAT
Statistics
Matches: 156, Mismatches: 32, Indels: 38
0.69 0.14 0.17
Matches are distributed among these distances:
39 91 0.58
40 1 0.01
43 1 0.01
45 1 0.01
48 32 0.21
49 30 0.19
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (39 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTG
Found at i:721840 original size:88 final size:88
Alignment explanation
Indices: 721691--722037 Score: 444
Period size: 88 Copynumber: 3.9 Consensus size: 88
721681 AAGATAAAGT
* * * * * *
721691 TGCCAATATACTGATTCAAGGCAAGCAATATCGGACTTAAAGATGAAGGTACCAATATGCTGATT
1 TGCCAATATACTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
721756 TAAGGCCAGCGATATTGGGCTTG
66 TAAGGCCAGCGATATTGGGCTTG
* ** *
721779 TGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGTCAATATGCTGATT
1 TGCCAATATACTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
721844 CAAGGTCAGCGATATTGGGCTTG
66 TAAGGCCAGCGATATTGGGCTTG
* * * * *
721867 TGCCAATGTGCTAATTCAAGGCCAGCAATATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATATACTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
** *
721931 TAAGGCCAATGATATAGGGCTTG
66 TAAGGCCAGCGATATTGGGCTTG
* * * * *
721954 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGATAAAGGCGCCAATGTGCTGATT
1 TGCCAATATACTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
722019 TCAAGGCCAGCGACATTGG
66 T-AAGGCCAGCGATATTGG
722038 TCATAAAGAT
Statistics
Matches: 221, Mismatches: 36, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
87 75 0.34
88 133 0.60
89 13 0.06
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (88 bp):
TGCCAATATACTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
TAAGGCCAGCGATATTGGGCTTG
Found at i:721861 original size:49 final size:49
Alignment explanation
Indices: 721778--722166 Score: 307
Period size: 49 Copynumber: 8.3 Consensus size: 49
721768 TATTGGGCTT
* * *
721778 GTGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
* * * *
721827 GTGTCAATATGCTGATTCAAGGTCAGCGATATTGGGC-T-----T----
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
* * * * *
721866 GTGCCAATGTGCTAATTCAAGGCCAGCAATATTGGTCTTAAAGA-CAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
* ** * * *
721914 GTGCCAATATGCTGATTTAAGGCCAATGATATAGGGC-T-----T----
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
*
721953 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
* * *
722002 GCGCCAATGTGCTGATTTCAAGGCCAGCGACATTGGTCATAAAGATAAAG
1 GTGCCAATATGCTGA-TTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
* ** * * *
722052 GCGCCAATGCGCTAATTCAAGGCCAGCGACAATGGTCATAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
* * * * * *
722101 CTGCCAATATGCTGATTCAAGGTCAGCGATATCGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
*
722150 GTACCAATATGCTGATT
1 GTGCCAATATGCTGATT
722167 TAACGTACCA
Statistics
Matches: 270, Mismatches: 48, Indels: 44
0.75 0.13 0.12
Matches are distributed among these distances:
39 62 0.23
40 2 0.01
43 1 0.00
45 1 0.00
47 1 0.00
48 30 0.11
49 128 0.47
50 45 0.17
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
Found at i:721986 original size:175 final size:177
Alignment explanation
Indices: 721704--722037 Score: 501
Period size: 175 Copynumber: 1.9 Consensus size: 177
721694 CAATATACTG
* *
721704 ATTCAAGGCAAGCAATATCGGACTTAAAGATGAAGGTACCAATATGCTGATTTAAGGCCAGCGAT
1 ATTCAAGGCAAGCAATATCGGACTTAAAGATCAAGGTACCAATATGCTGATTTAAGGCCAACGAT
* * * * *
721769 ATTGGGCTTGTGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGTCAA
66 ATAGGGCTTGTGCCAATATACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGCGCCAA
* *
721834 TATGCTGA-TTCAAGGTCAGCGATATTGGGCTTGTGCCAATGTGCTA
131 TATGCTGATTTCAAGGCCAGCGACATTGGGCTTGTGCCAATGTGCTA
* * * * *
721880 ATTCAAGGCCAGCAATATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTTAAGGCCAATGAT
1 ATTCAAGGCAAGCAATATCGGACTTAAAGATCAAGGTACCAATATGCTGATTTAAGGCCAACGAT
* *
721944 ATAGGGCTTGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGATAAAGGCGCCAA
66 ATAGGGCTTGTGCCAATATACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGCGCCAA
*
722009 TGTGCTGATTTCAAGGCCAGCGACATTGG
131 TATGCTGATTTCAAGGCCAGCGACATTGG
722038 TCATAAAGAT
Statistics
Matches: 140, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 95 0.68
176 45 0.32
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (177 bp):
ATTCAAGGCAAGCAATATCGGACTTAAAGATCAAGGTACCAATATGCTGATTTAAGGCCAACGAT
ATAGGGCTTGTGCCAATATACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGCGCCAA
TATGCTGATTTCAAGGCCAGCGACATTGGGCTTGTGCCAATGTGCTA
Found at i:728053 original size:30 final size:30
Alignment explanation
Indices: 728019--728110 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
728009 GTATGTTGTG
728019 TGAAACGGAAGAATTTTTCTCTAAGACTTT
1 TGAAACGGAAGAATTTTTCTCTAAGACTTT
** *
728049 TGAAAC---A-AA-TGAT-T-TAAGTATGTTGT
1 TGAAACGGAAGAATTTTTCTCTAAG-A-CTT-T
728075 GTGAAACGGAAGAATTTTTCTCTAAGACTTT
1 -TGAAACGGAAGAATTTTTCTCTAAGACTTT
728106 TGAAA
1 TGAAA
728111 TGAAAGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 22
0.62 0.08 0.30
Matches are distributed among these distances:
23 4 0.09
24 2 0.04
25 4 0.09
26 3 0.07
27 7 0.16
30 12 0.27
31 3 0.07
32 4 0.09
33 2 0.04
34 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (30 bp):
TGAAACGGAAGAATTTTTCTCTAAGACTTT
Found at i:728084 original size:57 final size:57
Alignment explanation
Indices: 727996--728110 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
727986 TTTACTTGCT
727996 ACAAATGATTTAAGTATGTTGTGTGAAACGGAAGAATTTTTCTCTAAGACTTTTGAA
1 ACAAATGATTTAAGTATGTTGTGTGAAACGGAAGAATTTTTCTCTAAGACTTTTGAA
728053 ACAAATGATTTAAGTATGTTGTGTGAAACGGAAGAATTTTTCTCTAAGACTTTTGAA
1 ACAAATGATTTAAGTATGTTGTGTGAAACGGAAGAATTTTTCTCTAAGACTTTTGAA
728110 A
1 A
728111 TGAAAGATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.37
Consensus pattern (57 bp):
ACAAATGATTTAAGTATGTTGTGTGAAACGGAAGAATTTTTCTCTAAGACTTTTGAA
Found at i:729206 original size:24 final size:24
Alignment explanation
Indices: 729179--729228 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
729169 AGCATGCTTA
729179 GATAGAAGGATCGAAAGGTATAGG
1 GATAGAAGGATCGAAAGGTATAGG
*
729203 GATAGAGGGATCGAAAGGTATAGG
1 GATAGAAGGATCGAAAGGTATAGG
729227 GA
1 GA
729229 CAAATATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.40, T:0.16
Consensus pattern (24 bp):
GATAGAAGGATCGAAAGGTATAGG
Found at i:731991 original size:79 final size:75
Alignment explanation
Indices: 731859--732616 Score: 524
Period size: 79 Copynumber: 9.6 Consensus size: 75
731849 TCATGGATGT
* *
731859 TTTTATTTCTAAAATACTGATTTTTCACCATC-GAGGATACTCTAACCCTGTTATTT-TCGAGGG
1 TTTTATTT-TAAAA-ACTGATTTTTCACAATCAG-GGATACTCCAACCC-GTTATTTCT-GAGGG
*
731922 GATACTCAAATCCCGA
61 GATACTCCAA-CCCGA
* * *
731938 TTTTATTTCTAAAATACTGATTTTTCACAATCAGGGATACTTCAATCTCGTTATTT-TCGAGGGA
1 TTTTATTT-TAAAA-ACTGATTTTTCACAATCAGGGATACTCCAA-CCCGTTATTTCT-GAGGGG
* *
732002 ATACTCCAATCCTA
62 ATACTCCAACCCGA
* * *
732016 GTTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGG
1 -TTTTATTTTAAAAAC-T-GATTTTTCACAATCAGGGATACTCCAA-CCCGTTATTTCTGAGGGG
732081 ATACTCCAACCCCGA
62 ATACTCCAA-CCCGA
* * * * *
732096 TTTTATTTTCAAAACATCAATTTTTCATAATC-GGAGATACTCTAACCCTATTATTT-TCGAGGG
1 TTTTATTTTAAAAAC-T-GATTTTTCACAATCAGG-GATACTCCAACCC-GTTATTTCT-GAGGG
*
732159 GATACTCCAACCCTGG
61 GATACTCCAACCC-GA
* * * * * *
732175 TTTTATTTTTAAAATACTGATTTTCCTCCAT-TGGGATACTCCAACCTTGTTATTTCTGAAGGGA
1 TTTTA-TTTTAAAA-ACTGATTTTTCACAATCAGGGATACTCCAACC-CGTTATTTCTGAGGGGA
* *
732239 TACTTCAACCCTA
63 TACTCCAACCCGA
** * * * * * * *
732252 GTTTTATGTCCAAAACACCGAGTTTCCACAATCAAGGATACTTCAATCCCATTATTT-TCAAGGG
1 -TTTTAT-TTTAAAA-ACTGATTTTTCACAATCAGGGATACTCCAA-CCCGTTATTTCT-GAGGG
*
732316 GATACTCCAACCTCGG
61 GATACTCCAACC-CGA
* * ** * *
732332 TTTTATTTTCAAAACACCGATTTTCCACAATTGGGGATACTCCAACTTCGCTATTTCTGAGGGGA
1 TTTTATTTT-AAAA-ACTGATTTTTCACAATCAGGGATACTCCAAC-CCGTTATTTCTGAGGGGA
*
732397 TACTCCAACCCCA
63 TACTCCAACCCGA
* * *
732410 GTTTTATTTTCAAAACATCGATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTCTGAGGGA
1 -TTTTATTTTAAAAAC-T-GATTTTTCACAATCAGGGATACTCCAA-CCCGTTATTTCTGAGGGG
* *
732475 ATACTCTAACCCTGG
62 ATACTCCAACCC-GA
* * * ** **
732490 TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATACACCAACTCTATTATTTCCAAGGGTG
1 TTTTATTTTAAAAAC-T-GATTTTTCACAATCAGGGATACTCCAAC-CCGTTATTTCTGAGGG-G
* *
732555 -TACTTCAACCCCA
62 ATACTCCAACCCGA
* * *
732568 GTTTTATTTTCAAAAATTTGATTTTTCATAATCGGGGATACTCCAACCC
1 -TTTTATTTT-AAAAA-CTGATTTTTCACAATCAGGGATACTCCAACCC
732617 TGGTTTTATT
Statistics
Matches: 551, Mismatches: 93, Indels: 71
0.77 0.13 0.10
Matches are distributed among these distances:
77 5 0.01
78 81 0.15
79 438 0.79
80 25 0.05
81 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (75 bp):
TTTTATTTTAAAAACTGATTTTTCACAATCAGGGATACTCCAACCCGTTATTTCTGAGGGGATAC
TCCAACCCGA
Found at i:732150 original size:158 final size:157
Alignment explanation
Indices: 731877--732617 Score: 722
Period size: 158 Copynumber: 4.7 Consensus size: 157
731867 CTAAAATACT
* * * * *
731877 GATTTTTCACCATCGAGGATACTCTAACCCTGTTATTT-TCGAGGGGATACTCAAATCCC-GATT
1 GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCT-GAGGGGATACTCCAACCCCAG-TT
* * *
731940 TTA-TTTCTAAA-ATACTGATTTTTCACAATCAGGGATACT-TCAA-TCTCGTTATTTTCGAGGG
64 TTATTTTCAAAACAT-C-GATTTTTCACAATC-GGGATACTCT-AACCCT-ATTATTTTCGAGGG
* *
732001 AATACTCCAATCCTAGTTTTATTTTCAAAACATC
124 AATACTCCAACCCTGGTTTTATTTTCAAAACATC
* *
732035 GATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCC-GATTT
1 GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCAG-TTT
* * *
732099 TATTTTCAAAACATCAATTTTTCATAATCGGAGATACTCTAACCCTATTATTTTCGAGGGGATAC
65 TATTTTCAAAACATCGATTTTTCACAATCGG-GATACTCTAACCCTATTATTTTCGAGGGAATAC
* *
732164 TCCAACCCTGGTTTTATTTTTAAAATA-C
129 TCCAACCCTGGTTTTATTTTCAAAACATC
* * * * * * * *
732192 TGATTTTCCTCCAT-TGGGATACTCCAACCTTGTTATTTCTGAAGGGATACTTCAACCCTAGTTT
1 -GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCAGTTT
* * * * * * * *
732256 TATGTCCAAAACACCGAGTTTCCACAATCAAGGATACT-TCAATCCC-ATTATTTTCAAGGGGAT
65 TATTTTCAAAACATCGATTTTTCACAATC-GGGATACTCT-AA-CCCTATTATTTTCGAGGGAAT
*
732319 ACTCCAA-CCTCGGTTTTATTTTCAAAACACC
127 ACTCCAACCCT-GGTTTTATTTTCAAAACATC
* * * *
732350 GATTTTCCACAATTGGGGATACTCCAA-CTTCGCTATTTCTGAGGGGATACTCCAACCCCAGTTT
1 GATTTTTCACAATCGGGGATACTCCAACCCT-GTTATTTCTGAGGGGATACTCCAACCCCAGTTT
* * **
732414 TATTTTCAAAACATCGATTTTTCACCATCAGGGATACTCCAACCCCGTTA-TTTCTGAGGGAATA
65 TATTTTCAAAACATCGATTTTTCACAATC-GGGATACTCTAACCCTATTATTTTC-GAGGGAATA
*
732478 CTCTAACCCTGGTTTTATTTTCAAAACATC
128 CTCCAACCCTGGTTTTATTTTCAAAACATC
* * * ** *
732508 GATTTTTCACAATCGGGGATACACCAACTCTATTATTTCCAAGGGTG-TACTTCAACCCCAGTTT
1 GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGG-GATACTCCAACCCCAGTTT
* * *
732572 TATTTTCAAAA-ATTTGATTTTTCATAATCGGGGATACTCCAACCCT
65 TATTTTCAAAACA-TCGATTTTTCACAATC-GGGATACTCTAACCCT
732618 GGTTTTATTT
Statistics
Matches: 488, Mismatches: 73, Indels: 44
0.81 0.12 0.07
Matches are distributed among these distances:
156 4 0.01
157 136 0.28
158 329 0.67
159 17 0.03
160 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (157 bp):
GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCAGTTTT
ATTTTCAAAACATCGATTTTTCACAATCGGGATACTCTAACCCTATTATTTTCGAGGGAATACTC
CAACCCTGGTTTTATTTTCAAAACATC
Found at i:732488 original size:315 final size:316
Alignment explanation
Indices: 731859--732545 Score: 852
Period size: 315 Copynumber: 2.2 Consensus size: 316
731849 TCATGGATGT
* * * *
731859 TTTTATTTCTAAAATACTGATTTTTCACCATCGAGGATACTCTAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTTTAAAATACTGATTTTCCACCATCGAGGATACTCCAACCCTGTTATTTTCGAAGGGA
* * * * * * * * *
731924 TACTCAAATCCCGATTTTATTTCTAAAATACTGATTTTTCACAATCAGGGATACTTCAATCTCGT
66 TACTCAAATCCCGATTTTATGTCCAAAACACCGAGTTTCCACAATCAAGGATACTTCAATCCCAT
* * * *
731989 TATTTTCGAGGGAATACTCCAATCCTAGTTTTATTTTCAAAACATCGATTTTTCATAATCGGGGA
131 TATTTTCAAGGGAATACTCCAATCCTAGTTTTATTTTCAAAACACCGATTTTCCACAATCGGGGA
*
732054 TACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTT
196 TACTCCAACCCCGCTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTT
* * * *
732119 TTCATAATCGGAGATACTCTAACCCTATTATTTTCGAGGGGATACTCCAACCCTGG
261 TTCACAATCGGAGATACTCCAACCCCATTATTTTCGAGGGAATACTCCAACCCTGG
* * *
732175 TTTTATTTTTAAAATACTGATTTTCCTCCATTG-GGATACTCCAACCTTGTTA-TTTCTGAAGGG
1 TTTTATTTTTAAAATACTGATTTTCCACCATCGAGGATACTCCAACCCTGTTATTTTC-GAAGGG
*
732238 ATACTTC-AA-CCCTAGTTTTATGTCCAAAACACCGAGTTTCCACAATCAAGGATACTTCAATCC
65 ATAC-TCAAATCCCGA-TTTTATGTCCAAAACACCGAGTTTCCACAATCAAGGATACTTCAATCC
* * *
732301 CATTATTTTCAAGGGGATACTCCAA-CCTCGGTTTTATTTTCAAAACACCGATTTTCCACAATTG
128 CATTATTTTCAAGGGAATACTCCAATCCT-AGTTTTATTTTCAAAACACCGATTTTCCACAATCG
**
732365 GGGATACTCCAACTTCGCTATTTCTGAGGGGATACTCCAACCCC-AGTTTTATTTTCAAAACATC
192 GGGATACTCCAACCCCGCTATTTCTGAGGGGATACTCCAACCCCGA-TTTTATTTTCAAAACATC
* * * *
732429 GATTTTTCACCATCAGG-GATACTCCAACCCCGTTA-TTTCTGAGGGAATACTCTAACCCTGG
256 AATTTTTCACAATC-GGAGATACTCCAACCCCATTATTTTC-GAGGGAATACTCCAACCCTGG
* * * * * * * *
732490 TTTTATTTTCAAAACA-TCGATTTTTCACAATCGGGGATACACCAACTCTATTATTT
1 TTTTATTTTTAAAATACT-GATTTTCCACCATCGAGGATACTCCAACCCTGTTATTT
732546 CCAAGGGTGT
Statistics
Matches: 316, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
314 17 0.05
315 249 0.79
316 48 0.15
317 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (316 bp):
TTTTATTTTTAAAATACTGATTTTCCACCATCGAGGATACTCCAACCCTGTTATTTTCGAAGGGA
TACTCAAATCCCGATTTTATGTCCAAAACACCGAGTTTCCACAATCAAGGATACTTCAATCCCAT
TATTTTCAAGGGAATACTCCAATCCTAGTTTTATTTTCAAAACACCGATTTTCCACAATCGGGGA
TACTCCAACCCCGCTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTT
TTCACAATCGGAGATACTCCAACCCCATTATTTTCGAGGGAATACTCCAACCCTGG
Found at i:732722 original size:130 final size:130
Alignment explanation
Indices: 732475--732723 Score: 281
Period size: 130 Copynumber: 1.9 Consensus size: 130
732465 TTCTGAGGGA
* *** *
732475 ATACTCTAACCCTGGTTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATACACCAACTCTA
1 ATACTCCAACCCTGGTTTTATTTTCAAAACATCGATTTTTCACAATCAAAGATACACCAACCCTA
* * * * *
732540 TTATTTCCAAGGGTGTACTTCAACCCCAGTTTTATTTTCAAAAATTTGATTTTTCATAATCGGGG
66 TTATTTCCAAGGGTGTACTCCAACCCCAGTTTTATCTCCAAAAATGTAATTTTTCATAATCGGGG
* **
732605 ATACTCCAACCCTGGTTTTA-TTTCTAAAACA-CTGATTTTTCACCATCAAAGATACTTCAACCC
1 ATACTCCAACCCTGGTTTTATTTTC-AAAACATC-GATTTTTCACAATCAAAGATACACCAACCC
* * * *
732668 TATTATTTCCGAGGG-GATACTCCAACCCTATTTTTATCTCC-ATAATAGTAATTTTT
64 TATTATTTCCAAGGGTG-TACTCCAACCCCAGTTTTATCTCCAAAAAT-GTAATTTTT
732724 TCATTGGGGA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
129 10 0.10
130 88 0.90
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (130 bp):
ATACTCCAACCCTGGTTTTATTTTCAAAACATCGATTTTTCACAATCAAAGATACACCAACCCTA
TTATTTCCAAGGGTGTACTCCAACCCCAGTTTTATCTCCAAAAATGTAATTTTTCATAATCGGGG
Found at i:734679 original size:20 final size:19
Alignment explanation
Indices: 734651--734706 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
734641 ATATATTTAT
* *
734651 TTAAATATTAAATTAATTAA
1 TTAATTATTATATTAATT-A
734671 TTAATTATTATA-TAATTA
1 TTAATTATTATATTAATTA
734689 TATACATTATTATATTAA
1 T-TA-ATTATTATATTAA
734707 ATATAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 19 0.61
21 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATTATTATATTAATTA
Found at i:736066 original size:21 final size:23
Alignment explanation
Indices: 736042--736083 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
736032 TCAACCAATT
736042 ATAATAAT-C-AAAGAAAAGAGC
1 ATAATAATCCAAAAGAAAAGAGC
*
736063 ATAATTATCCAAAAGAAAAGA
1 ATAATAATCCAAAAGAAAAGA
736084 AAAGAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.17
Consensus pattern (23 bp):
ATAATAATCCAAAAGAAAAGAGC
Found at i:736725 original size:18 final size:17
Alignment explanation
Indices: 736698--736731 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
736688 TTTAAATTTT
736698 ACAAATATATTCAAATG
1 ACAAATATATTCAAATG
*
736715 ACAATATATATTTAAAT
1 ACAA-ATATATTCAAAT
736732 TTAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (17 bp):
ACAAATATATTCAAATG
Found at i:737141 original size:2 final size:2
Alignment explanation
Indices: 737134--737168 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
737124 TCCACTCTTT
737134 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
737169 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:737917 original size:225 final size:222
Alignment explanation
Indices: 737412--738064 Score: 855
Period size: 225 Copynumber: 2.9 Consensus size: 222
737402 ATCTCGAAAG
* * * * * * *
737412 ATAACTTATTTAGACTAAAGTATTTATGGATATGGTTGAATTAATTTTAGTTGATACTTTTAAAT
1 ATAACTTATCTAGACTAAAGTATTTATGAATCTGGTTGAATCAAGTCTAGTTGATACTTTTAAAC
* * * * *
737477 GTCAACTCAAATCTTAAATTAAAATCATTTAAGTTTGTTTTTATAATTATTTAAAATTATTAAAA
66 ATTAAATCAAATCTTAAA-TCAAATTATTTAAGTTTGTTTTTATAATTATTTAAAATTATTAAAA
* * * * *
737542 TATTGAAAATAATTTTTAAATTAATATTTTACTGATTTAATATATATTAAATTTGAAACAATTCT
130 TATTAAAAATAATTTTTATATTAAAATTTTACTGATTTAATATATATTAAAATTAAAACAATTCT
* *
737607 TTTAATAATTATAATGCAAAGGTGGTAG
195 TTTAATAATTATAATGCAAAGATGGTAA
* * * *
737635 ATAATTTATCTAGATTAAAAGTATTTAT-AGATCTGATTGAATCAAGTCGAGTTGATACTTTTAA
1 ATAACTTATCTAGACT-AAAGTATTTATGA-ATCTGGTTGAATCAAGTCTAGTTGATACTTTTAA
*
737699 ACATTAAATCAAATCTTAAATCAAATTATTTAAGTTTATTTTTATAATTATTTAAAATTATTAAA
64 ACATTAAATCAAATCTTAAATCAAATTATTTAAGTTTGTTTTTATAATTATTTAAAATTATTAAA
737764 ATATTAAAAATAATTTTTATATTAAAATTTTACTGATTTAATATATATATTAAAATTAAAACAAT
129 ATATTAAAAATAATTTTTATATTAAAATTTTACTGATTT-A-ATATATATTAAAATTAAAACAAT
737829 TCTTTTAATAATTATAATGCGAAA-ATGGTAA
192 TCTTTTAATAATTATAATGC-AAAGATGGTAA
* * *
737860 ATAACTTATCTAGACTAGAAGTATTTATGAACCTGGTTGAATCAAGTCTAATTGATACTTCTAAA
1 ATAACTTATCTAGACTA-AAGTATTTATGAATCTGGTTGAATCAAGTCTAGTTGATACTTTTAAA
* * * *
737925 CTTTAAGTCAAATCTTAAATCAAAATTATTTAAGTTTGTTTCTATAATTATTTAAAATAATTAAA
65 CATTAAATCAAATCTTAAATC-AAATTATTTAAGTTTGTTTTTATAATTATTTAAAATTATTAAA
** * * * * *
737990 ATACAAAAAATAAGTTTTATATTAAAA-TCTACTAATTTAATATATATTAAAGTTAAAATAATT-
129 ATATTAAAAATAATTTTTATATTAAAATTTTACTGATTTAATATATATTAAAATTAAAACAATTC
738053 TTTGTAATAATT
194 TTT-TAATAATT
738065 GTAAAGTTGA
Statistics
Matches: 378, Mismatches: 43, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
222 3 0.01
223 121 0.32
224 58 0.15
225 128 0.34
226 68 0.18
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (222 bp):
ATAACTTATCTAGACTAAAGTATTTATGAATCTGGTTGAATCAAGTCTAGTTGATACTTTTAAAC
ATTAAATCAAATCTTAAATCAAATTATTTAAGTTTGTTTTTATAATTATTTAAAATTATTAAAAT
ATTAAAAATAATTTTTATATTAAAATTTTACTGATTTAATATATATTAAAATTAAAACAATTCTT
TTAATAATTATAATGCAAAGATGGTAA
Found at i:740726 original size:20 final size:20
Alignment explanation
Indices: 740701--740739 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
740691 TACTTATAAA
*
740701 TTAAAATAAAAAATAATTTT
1 TTAAAACAAAAAATAATTTT
*
740721 TTAAAACAATAAATAATTT
1 TTAAAACAAAAAATAATTT
740740 AATAAATATT
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:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAACAAAAAATAATTTT
Found at i:742515 original size:19 final size:18
Alignment explanation
Indices: 742492--742570 Score: 88
Period size: 18 Copynumber: 4.3 Consensus size: 18
742482 ATTATTTTAA
*
742492 AAAAAATCTGTGATTCTT
1 AAAAAATCTATGATTCTT
*
742510 AAAAAATTTAATGATTCTT
1 AAAAAATCT-ATGATTCTT
742529 AAAAAATCTATGATT-TCT
1 AAAAAATCTATGATTCT-T
** *
742547 AAAAAATCTAAAATTCCT
1 AAAAAATCTATGATTCTT
742565 AAAAAA
1 AAAAAA
742571 ACTGTGATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.02
18 35 0.67
19 16 0.31
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAAAATCTATGATTCTT
Found at i:742536 original size:37 final size:36
Alignment explanation
Indices: 742492--742580 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 36
742482 ATTATTTTAA
* * *
742492 AAAAAATCTGTGA-TTCTTAAAAAATTTAATGATTCTT
1 AAAAAATCTGTGATTTC-TAAAAAATCTAA-AATTCCT
*
742529 AAAAAATCTATGATTTCTAAAAAATCTAAAATTCCT
1 AAAAAATCTGTGATTTCTAAAAAATCTAAAATTCCT
*
742565 AAAAAAACTGTGATTT
1 AAAAAATCTGTGATTT
742581 ATGTTGATCC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 19 0.42
37 23 0.51
38 3 0.07
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (36 bp):
AAAAAATCTGTGATTTCTAAAAAATCTAAAATTCCT
Found at i:743703 original size:18 final size:18
Alignment explanation
Indices: 743667--743706 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
743657 GGGCGTAACT
* **
743667 TCTTCGTCAAATATTGGC
1 TCTTCATCAAATACGGGC
743685 TCTTCATCAAATACGGGC
1 TCTTCATCAAATACGGGC
743703 TCTT
1 TCTT
743707 TGTCATTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (18 bp):
TCTTCATCAAATACGGGC
Found at i:745277 original size:18 final size:18
Alignment explanation
Indices: 745213--745278 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
745203 AAGAATATGT
* *
745213 GATTCTTAGAAAATTTAA
1 GATTCTTAAAAAATCTAA
745231 CGATTCTTAAAAAATCTAA
1 -GATTCTTAAAAAATCTAA
* * *
745250 AATTTTTAAAAAATCTAT
1 GATTCTTAAAAAATCTAA
*
745268 GATTCCTAAAA
1 GATTCTTAAAA
745279 TTTGTGATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 23 0.59
19 16 0.41
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (18 bp):
GATTCTTAAAAAATCTAA
Found at i:745991 original size:20 final size:21
Alignment explanation
Indices: 745942--745991 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
745932 CAATAAAATT
* *
745942 AATTTTTTATCAATTTAATCT
1 AATTTTTTATCAATTGAATCA
*
745963 AATTCTTTATCAATTGAA-CA
1 AATTTTTTATCAATTGAATCA
745983 AATTTTTTA
1 AATTTTTTA
745992 CAAGTTCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (21 bp):
AATTTTTTATCAATTGAATCA
Found at i:749706 original size:17 final size:17
Alignment explanation
Indices: 749692--749724 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
749682 AGTCAAAAGT
*
749692 AAAAATAAAAAAAAAAC
1 AAAAACAAAAAAAAAAC
749709 AAAAACAAAAAAAAAA
1 AAAAACAAAAAAAAAA
749725 ACACACACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAC
Found at i:749721 original size:20 final size:20
Alignment explanation
Indices: 749698--749740 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
749688 AAGTAAAAAT
749698 AAAAAAAAAACAAAAACAAA
1 AAAAAAAAAACAAAAACAAA
* * *
749718 AAAAAAAACACACACACAAA
1 AAAAAAAAAACAAAAACAAA
749738 AAA
1 AAA
749741 GAGTGCAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAACAAAAACAAA
Found at i:751189 original size:31 final size:30
Alignment explanation
Indices: 751017--751480 Score: 577
Period size: 31 Copynumber: 15.0 Consensus size: 30
751007 TCTTCAAATC
* *
751017 TCTCTTTTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
751047 TCTCTTTTCAAAGTCCACAACTCAGTGACA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
751077 TCTCTTTTCTCAAAGTCCACAACTCAGTGGCA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
* * * *
751109 TCTCTTTTCTCAAGGTCTACGACTTAATGGCA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
*
751141 TCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAA
1 TC--TCTTC-TCAAAGTCCACGACTCAGTGGC-A
751175 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
751205 TCTCTTCCCAAAGTTCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
751235 TCTTTTATTCAAAGTCCACGACTCAGTGGCAA
1 TCTCTT-CTCAAAGTCCACGACTCAGTGGC-A
*
751267 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
751297 TCTTTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
751327 TCTTTTCTTCAAAGTCCACGACTCAATGGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
751359 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
751389 TATTTTCTGCAAAGTCCACGACTCAGTGGCAA
1 TCTCTTCT-CAAAGTCCACGACTCAGTGGC-A
*
751421 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
751451 TCTCTTCCCAAAGTCCACGACTCCGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
751481 CCTTTTTCTT
Statistics
Matches: 384, Mismatches: 38, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
30 135 0.35
31 146 0.38
32 81 0.21
33 18 0.05
34 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:751272 original size:92 final size:91
Alignment explanation
Indices: 751025--751480 Score: 619
Period size: 92 Copynumber: 4.9 Consensus size: 91
751015 TCTCTCTTTT
* * * *
751025 CAAAGTCCACGACTTAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGAC-ATCTCTTTTCTCA
1 CAAAGTCCACGACTCAGTGGCATCTTTTTTCAAAGTCCACGACTCAGTGGCAATCTC--TTCTCA
* *
751089 AAGTCCACAACTCAGTGGCATCTCTTTTCT
64 AAGTCCACGACTCAGTGGCATCTC--TTCC
* * * *
751119 CAAGGTCTACGACTTAATGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 CAAAGTCCACGACTCAGTGGCATC--TTTT-TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
751184 AAAGTCCACGACTCAGTGGCATCTCTTCC
63 AAAGTCCACGACTCAGTGGCATCTCTTCC
*
751213 CAAAGTTCACGACTCAGTGGCATCTTTTATTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTT-TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
* *
751278 AGTCCATGACTCAGTGGCATCTTTTCC
65 AGTCCACGACTCAGTGGCATCTCTTCC
*
751305 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTCTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTT-TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
* * *
751370 AGTCCACGACTCAGTGGCATATTTTCTG
65 AGTCCACGACTCAGTGGCATCTCTTC-C
* *
751398 CAAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTCCCAA
1 CAAAGTCCACGACTCAGTGGC-ATCTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
*
751462 AGTCCACGACTCCGTGGCA
65 AGTCCACGACTCAGTGGCA
751481 CCTTTTTCTT
Statistics
Matches: 330, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
92 180 0.55
93 42 0.13
94 50 0.15
96 32 0.10
97 21 0.06
98 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (91 bp):
CAAAGTCCACGACTCAGTGGCATCTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAA
GTCCACGACTCAGTGGCATCTCTTCC
Found at i:751537 original size:34 final size:34
Alignment explanation
Indices: 751461--751617 Score: 179
Period size: 34 Copynumber: 4.9 Consensus size: 34
751451 TCTCTTCCCA
* *
751461 AAGTCCACGACTCCGTGGCAC-CTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
751494 AAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
*
751529 AAGTCCACAACTCTGTGGCA--C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
751556 AAGTCCATAACTCCGTGGCA-TCTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
751589 AAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAGTCCACAACTCCGTGGCACTCTTTTTC
751618 TTCAACTCTG
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
27 24 0.23
28 1 0.01
32 1 0.01
33 24 0.23
34 42 0.41
35 11 0.11
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:751554 original size:27 final size:27
Alignment explanation
Indices: 751523--751615 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 27
751513 CACTCTTTTT
*
751523 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
751550 CCTTTTAAGTCCATAACTCCGTGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
751578 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
751610 TCTTTT
1 CCTTTT
751616 TCTTCAACTC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
27 30 0.54
28 1 0.02
32 1 0.02
33 24 0.43
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:751760 original size:43 final size:44
Alignment explanation
Indices: 751699--751826 Score: 141
Period size: 49 Copynumber: 2.8 Consensus size: 44
751689 CATCTTCTTC
*
751699 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGA-CACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGATCACCTT
* * *
751742 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-A---TCACCTT
* * *
751791 CAAGTCCAATATCGCTAGCCTTGAATCAGCATATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
751827 GCGCATTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
43 32 0.46
44 1 0.01
45 1 0.01
48 1 0.01
49 35 0.50
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGATCACCTT
Found at i:752211 original size:13 final size:13
Alignment explanation
Indices: 752203--752227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
752193 TACGATATAG
752203 TGTATCGATACAA
1 TGTATCGATACAA
752216 TGTATCGATACA
1 TGTATCGATACA
752228 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:755836 original size:407 final size:407
Alignment explanation
Indices: 755081--755893 Score: 1599
Period size: 407 Copynumber: 2.0 Consensus size: 407
755071 GGGCGTCGCA
*
755081 AGGAGGTTCGTACCTCTTTGCGTGTAACCAACTCCCGAACCCAACCGGCGAATCTTTAAATTACG
1 AGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAATCTTTAAATTACG
755146 TAGACCACGGGATCGATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATC
66 TAGACCACGGGATCGATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATC
755211 ATACTTGGCCCGAAATAATCGGTGGCGACTCCAAGATTTCGGTCACTTCATAGTGACCATTGAAG
131 ATACTTGGCCCGAAATAATCGGTGGCGACTCCAAGATTTCGGTCACTTCATAGTGACCATTGAAG
755276 ATCAATTAGAAGGGCGATTCATCTACCGATCTTCCCCCTTTAATCAACATGCTTCCCATCATGCC
196 ATCAATTAGAAGGGCGATTCATCTACCGATCTTCCCCCTTTAATCAACATGCTTCCCATCATGCC
755341 ATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTACCCTATCGCCGGGGTC
261 ATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTACCCTATCGCCGGGGTC
755406 GAGCGCACGTTGCGACAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCAT
326 GAGCGCACGTTGCGACAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCAT
755471 CTTTAAGTCCAATATCT
391 CTTTAAGTCCAATATCT
755488 AGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAATCTTTAAATTACG
1 AGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAATCTTTAAATTACG
755553 TAGACCACGGGATCGATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATC
66 TAGACCACGGGATCGATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATC
755618 ATACTTGGCCCGAAATAATCGGTGGCGACTCCAAGATTTCGGTCACTTCATAGTGACCATTGAAG
131 ATACTTGGCCCGAAATAATCGGTGGCGACTCCAAGATTTCGGTCACTTCATAGTGACCATTGAAG
*
755683 ATCAATTAGAAGGGCGATTCATCTACCGATCTTCTCCCTTTAATCAACATGCTTCCCATCATGCC
196 ATCAATTAGAAGGGCGATTCATCTACCGATCTTCCCCCTTTAATCAACATGCTTCCCATCATGCC
*
755748 ATAAAAATCCCCAATTGCGAGGGATATTAAGTCGAGCGCGCCTCATTTACCCTATCGCCGGGGTC
261 ATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTACCCTATCGCCGGGGTC
755813 GAGCGCACGTTGCGACAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCAT
326 GAGCGCACGTTGCGACAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCAT
755878 CTTTAAGTCCAATATC
391 CTTTAAGTCCAATATC
755894 GTTGGCCTTG
Statistics
Matches: 403, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
407 403 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (407 bp):
AGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAATCTTTAAATTACG
TAGACCACGGGATCGATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATC
ATACTTGGCCCGAAATAATCGGTGGCGACTCCAAGATTTCGGTCACTTCATAGTGACCATTGAAG
ATCAATTAGAAGGGCGATTCATCTACCGATCTTCCCCCTTTAATCAACATGCTTCCCATCATGCC
ATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTACCCTATCGCCGGGGTC
GAGCGCACGTTGCGACAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCAT
CTTTAAGTCCAATATCT
Found at i:755887 original size:52 final size:50
Alignment explanation
Indices: 755830--756066 Score: 230
Period size: 49 Copynumber: 4.7 Consensus size: 50
755820 CGTTGCGACA
* **
755830 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATT-GCGCA-CCTTCATCTTT
* * *
755882 AAGTCCAATATCGTTGGCCTTGAATCAGCACATT-AGCACCTTCACCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGCGCACCTTCATCTTT
* *** *
755931 AAGTCCAATGTTATTGGCCATGAATCAGCACATTG-GCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGCGCACCTTCATCTTT
* *
755980 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGC-CTTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATT-GCGCAC-CT-TCATCTTT
** ** *
756032 AAACCCAACGTCGCTGG-CTTCGAATCAACACATTG
1 AAGTCCAATATCGCTGGCCTT-GAATCAGCACATTG
756067 GCTTTCTTCT
Statistics
Matches: 155, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
49 79 0.51
50 5 0.03
51 7 0.05
52 64 0.41
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (50 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGCGCACCTTCATCTTT
Found at i:755948 original size:49 final size:49
Alignment explanation
Indices: 755830--756021 Score: 231
Period size: 49 Copynumber: 3.9 Consensus size: 49
755820 CGTTGCGACA
* * * **
755830 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTTTCATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATT--AGCA-CCTTCATCTTT
*
755882 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCACCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCATCTTT
* ** * *
755931 AAGTCCAATGTTATTGGCCATGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCATCTTT
* * *
755980 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTT
756022 TGTCATCTTT
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
49 85 0.71
50 3 0.03
52 32 0.27
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
AAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCATCTTT
Found at i:756801 original size:13 final size:13
Alignment explanation
Indices: 756783--756808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
756773 ACATAAGTGT
756783 TGTATCGATACAA
1 TGTATCGATACAA
756796 TGTATCGATACAA
1 TGTATCGATACAA
756809 AGCTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:761880 original size:6 final size:6
Alignment explanation
Indices: 761869--761902 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
761859 GCTCCACACT
761869 TTTTTC TTTTTC TTTTT- TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
761903 CATTTGTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:761889 original size:11 final size:11
Alignment explanation
Indices: 761869--761902 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
761859 GCTCCACACT
761869 TTTTTCTTTTTC
1 TTTTT-TTTTTC
761881 TTTTTTTTTTC
1 TTTTTTTTTTC
761892 TTTTTTTTTTC
1 TTTTTTTTTTC
761903 CATTTGTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:761890 original size:17 final size:16
Alignment explanation
Indices: 761868--761901 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
761858 TGCTCCACAC
761868 TTTTTTCTTTTTCTTTT
1 TTTTTTCTTTTT-TTTT
761885 TTTTTTCTTTTTTTTT
1 TTTTTTCTTTTTTTTT
761901 T
1 T
761902 CCATTTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTT
Found at i:762228 original size:2 final size:2
Alignment explanation
Indices: 762221--762259 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
762211 AGCTCCCAAA
762221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
762260 AAGTCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:762372 original size:18 final size:19
Alignment explanation
Indices: 762349--762385 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
762339 ATATATTATA
*
762349 ATATAAATATA-AAATATG
1 ATATAAATAAATAAATATG
762367 ATATAAATAAATAAATATG
1 ATATAAATAAATAAATATG
762386 TCAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATAAATAAATAAATATG
Found at i:765197 original size:50 final size:50
Alignment explanation
Indices: 765138--765340 Score: 292
Period size: 50 Copynumber: 4.2 Consensus size: 50
765128 TATACTTAGA
*
765138 GTCAACAATTATGGTCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
*** *
765188 GTCAACAATTATAACCACCTCCTTTTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
765238 GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
765288 GTCAACAATTAT-G--A---CCATCTATTGTCAAAGGTTGGTGAAGGATA
1 GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
765332 GTCAACAAT
1 GTCAACAAT
765341 AACAACAACT
Statistics
Matches: 141, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
44 36 0.26
47 1 0.01
49 1 0.01
50 103 0.73
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:765491 original size:9 final size:9
Alignment explanation
Indices: 765477--765514 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
765467 CGATAAAATG
765477 AAAATAAAA
1 AAAATAAAA
765486 AAAATAAAAA
1 AAAAT-AAAA
*
765496 AAAATGAAA
1 AAAATAAAA
765505 AAAATAAAA
1 AAAATAAAA
765514 A
1 A
765515 TATATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAATAAAA
Found at i:765505 original size:19 final size:19
Alignment explanation
Indices: 765477--765514 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
765467 CGATAAAATG
765477 AAAATAAAAAAAATAAAAA
1 AAAATAAAAAAAATAAAAA
*
765496 AAAATGAAAAAAATAAAAA
1 AAAATAAAAAAAATAAAAA
765515 TATATTTTTT
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:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (19 bp):
AAAATAAAAAAAATAAAAA
Found at i:765684 original size:18 final size:19
Alignment explanation
Indices: 765655--765698 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
765645 ATAAATTAAA
765655 ATAAATAATAAATAATTTT
1 ATAAATAATAAATAATTTT
*
765674 TTAAA-AATAAATAATTTT
1 ATAAATAATAAATAATTTT
765692 ATAAATA
1 ATAAATA
765699 TTCATACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATAATAAATAATTTT
Found at i:767945 original size:21 final size:20
Alignment explanation
Indices: 767917--767956 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
767907 ATTACAATAA
* *
767917 AATCAATTTTTTATTAGTTT
1 AATCAATTCTTTATAAGTTT
767937 AATCTAATTCTTTATAAGTT
1 AATC-AATTCTTTATAAGTT
767957 GAACAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
AATCAATTCTTTATAAGTTT
Found at i:768903 original size:26 final size:26
Alignment explanation
Indices: 768849--768903 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
768839 TTTGTGAAAT
* *
768849 TATATTTAATATATTGATATTGTATA
1 TATATTTAATATATTGATAATGTAAA
768875 TATATTT-ATATTATTGATGAAT-TAAA
1 TATATTTAATA-TATTGAT-AATGTAAA
768901 TAT
1 TAT
768904 GTCATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 3 0.12
26 20 0.80
27 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (26 bp):
TATATTTAATATATTGATAATGTAAA
Found at i:769412 original size:24 final size:24
Alignment explanation
Indices: 769384--769429 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
769374 AATCTTTTTG
769384 CTCTTAAA-TCTTCTCTCTCTTTCT
1 CTCTTAAACTC-TCTCTCTCTTTCT
**
769408 CTCTTCGACTCTCTCTCTCTTT
1 CTCTTAAACTCTCTCTCTCTTT
769430 AACTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.09, C:0.37, G:0.02, T:0.52
Consensus pattern (24 bp):
CTCTTAAACTCTCTCTCTCTTTCT
Found at i:773551 original size:31 final size:31
Alignment explanation
Indices: 773516--773578 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
773506 TCCCTTATCA
773516 TTTTCTCTAATTAGCCTTTAATGCTAACTTC
1 TTTTCTCTAATTAGCCTTTAATGCTAACTTC
773547 TTTTCTCTAATTAGCCTTTAATGCTAACTTC
1 TTTTCTCTAATTAGCCTTTAATGCTAACTTC
773578 T
1 T
773579 CATCATCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.49
Consensus pattern (31 bp):
TTTTCTCTAATTAGCCTTTAATGCTAACTTC
Found at i:773596 original size:31 final size:30
Alignment explanation
Indices: 773519--773599 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
773509 CTTATCATTT
**
773519 TCTCTAATTAGCCTTTAATGCTAACTTCTTT
1 TCTCTAATTA-CCTTTAATGCTAACTTCTCA
773550 TCTCTAATTAGCCTTTAATGCTAACTTCTCA
1 TCTCTAATTA-CCTTTAATGCTAACTTCTCA
*
773581 TCATCTCGATT-CCTTTAAT
1 TC-TCT-AATTACCTTTAAT
773600 TGGTTCTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 39 0.87
32 3 0.07
33 3 0.07
ACGTcount: A:0.23, C:0.25, G:0.06, T:0.46
Consensus pattern (30 bp):
TCTCTAATTACCTTTAATGCTAACTTCTCA
Found at i:775349 original size:14 final size:15
Alignment explanation
Indices: 775330--775360 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
775320 ATCGTAGATC
775330 TTTATTCTTTTC-TT
1 TTTATTCTTTTCATT
775344 TTTATTCTTTTCATT
1 TTTATTCTTTTCATT
775359 TT
1 TT
775361 GTTAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTCTTTTCATT
Found at i:775752 original size:2 final size:2
Alignment explanation
Indices: 775745--775783 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
775735 AATAAAGTGT
775745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
775784 TGATGCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:776009 original size:12 final size:11
Alignment explanation
Indices: 775956--776010 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
775946 TATTGATTAG
*
775956 ATTTTTTTAAA
1 ATTTTTTTATA
*
775967 ATTTTTTTATC
1 ATTTTTTTATA
*
775978 ATGTTTTATATAA
1 AT-TTTTTTAT-A
775991 ATTTTTTTATA
1 ATTTTTTTATA
*
776002 ATTCTTTTA
1 ATTTTTTTA
776011 AGGTTTCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 20 0.56
12 14 0.39
13 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (11 bp):
ATTTTTTTATA
Found at i:776983 original size:2 final size:2
Alignment explanation
Indices: 776976--777020 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
776966 ATCATTGGAC
* * *
776976 AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
777018 AT A
1 AT A
777021 CATAGCTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:777163 original size:22 final size:24
Alignment explanation
Indices: 777123--777168 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
777113 ATTAACTCAA
* *
777123 ATATAAATTTAATTTAATTTAATT
1 ATATAAATTTAATTAAATTGAATT
777147 ATAT-AATTTAA-TAAATTGAATT
1 ATATAAATTTAATTAAATTGAATT
777169 CATCAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATAAATTTAATTAAATTGAATT
Found at i:777262 original size:15 final size:16
Alignment explanation
Indices: 777222--777261 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
777212 AAGTTATCGT
* *
777222 AATTTAAAATTATTTA
1 AATTTAAAATAATTAA
777238 AATTTAAAATAATTAA
1 AATTTAAAATAATTAA
777254 AATTTAAA
1 AATTTAAA
777262 TTAAGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAAATAATTAA
Found at i:779005 original size:38 final size:39
Alignment explanation
Indices: 778927--779005 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 39
778917 CCCAAAAGGA
* * * *
778927 AAGCCTTTTTATTCCAATGTAGGGTTCCAAGTGGATCAT
1 AAGCCTTTCTATTCCAATATAGGGATCCAAGTGGACCAT
778966 AAGCCTTTCTATTCCAATAT-GGGATCCAAGTGGACCAT
1 AAGCCTTTCTATTCCAATATAGGGATCCAAGTGGACCAT
779004 AA
1 AA
779006 CAATCGTCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 18 0.50
39 18 0.50
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (39 bp):
AAGCCTTTCTATTCCAATATAGGGATCCAAGTGGACCAT
Found at i:781746 original size:2 final size:2
Alignment explanation
Indices: 781739--781779 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
781729 CCATCAAATG
781739 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
781780 CCTGTTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:782259 original size:17 final size:18
Alignment explanation
Indices: 782223--782270 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
782213 TTTTAAATTT
*
782223 TTTATTTTTATTTTGAAAA
1 TTTATATTT-TTTTGAAAA
782242 TTTATATTTTTTTG-AAA
1 TTTATATTTTTTTGAAAA
782259 TTTATATTTTTT
1 TTTATATTTTTT
782271 ATTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 15 0.54
18 5 0.18
19 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTATATTTTTTTGAAAA
Found at i:783023 original size:18 final size:20
Alignment explanation
Indices: 782996--783050 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
782986 AACACAAAAA
*
782996 ATAATTAAAATATATA-TAAT
1 ATAA-TAAAATATACATTAAT
783016 ATAA-AAAATA-ACATTAAT
1 ATAATAAAATATACATTAAT
783034 ATAATACAAATATACAT
1 ATAATA-AAATATACAT
783051 AGCAAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.07
18 14 0.47
19 1 0.03
20 9 0.30
21 4 0.13
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAAAATATACATTAAT
Found at i:783333 original size:15 final size:15
Alignment explanation
Indices: 783313--783341 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
783303 TTTTAAAGTG
783313 AAATATAAATATAAA
1 AAATATAAATATAAA
783328 AAATATAAATATAA
1 AAATATAAATATAA
783342 TATGAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATATAAATATAAA
Found at i:783620 original size:14 final size:14
Alignment explanation
Indices: 783601--783627 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
783591 CAATAATTTA
783601 TTAATATAATAATT
1 TTAATATAATAATT
783615 TTAATATAATAAT
1 TTAATATAATAAT
783628 ATAAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATATAATAATT
Found at i:784151 original size:538 final size:535
Alignment explanation
Indices: 783447--784518 Score: 1311
Period size: 535 Copynumber: 2.0 Consensus size: 535
783437 ACTCATCCAA
* * *
783447 TAACTTATAACATCATTTAATATAATTTTTTTATTATTTAATTATCATAATATTTTTTCTTTTAA
1 TAACTTATAACATCATTTAACATAATTTTTTTACTATTTAATTATCATAATATTATTTCTTTTAA
* * * ** * *
783512 TTCAACACCTAATGTTTTTTTTTTAAAAATTTATTTACATCAATTTATTTCATAGTATTATTTTA
66 TTCAACACCCAATATTTTTTTTTT-AAAATTTACTTA-ATCAATCCATCTCATAGTATTATTCTA
*
783577 TATTTTAATTTTACCAATAATTTATTAATATAATAATTTTA-ATAT-AATAATATAAAA-ACAAA
129 TATTTTAATTTTACCAATAATTTATTAATATAATAATTTTATAT-TCAATAATATAAAAGAAAAA
* * * * ** * *
783639 AATCAATGTAACTTTTTT-TAAGAA-AAATAAACCAATTATTATACGATACATGATATAAAATTT
193 AATCAATATAACTTTTTTAGAAAAATAAAGAAAAAAATTATTATACGACACATGATAT---ATTG
* * * * *
783702 AAAGTTATATGAATAATATCACATACGAATTTTATATGAAAAATAACTAAAACACGATACGACAT
255 AAAGTTATATAAATAATAT----TACGAACTTTATATGAAAAATAAATAAAACACGACACAACAT
* * * * *
783767 AGAAAAATAATACAACCATAATACAAATATACAAACCT-ATTAAAATTTATATAAAATAAATATG
316 AGAAAAATAACACAACCATAATACAAATACACAAACATGA-TAAAATTTATATAAAACAAACATG
* *
783831 ATACAAAATTAAAAATTATTTTAATAATGCTAATTAGAGTTGATAATTCTAGATATGACGT-AGA
380 ATACAAAATTAAAAATAATTTTAATAATGCTAATTAGAGTTGATAATTCTAGACATGA-GTCAGA
* * * *
783895 AATGACTAAATACAATACAACACCAAATTT-AAACTAGCTAATATGAACAAATGCACAAAGGTAT
444 AATAAATAAACACAATACAACACCAAATTTGAAACTAGCTAATATGAACAAATGCACAAAGATAT
* *
783959 CAAAATCTGTAAAAATTTTAAAAAAAATT
509 AAAAATCTATAAAAA--TTAAAAAAAATT
*
783988 TAACTTATAACATTATTTAACATAATATTTTTTTACTATTTAATTATCATAATA-TATTTCTTTT
1 TAACTTATAACATCATTTAACAT-A-ATTTTTTTACTATTTAATTATCATAATATTATTTCTTTT
*
784052 AATTCAACACCCAATATTTTTTTTTT-AAATTTACTT-ATCAATCCATCTCATATTATTATTCTA
64 AATTCAACACCCAATATTTTTTTTTTAAAATTTACTTAATCAATCCATCTCATAGTATTATTCTA
*** *
784115 TATTTTAATTTTATTGATAATTTATTAATATAATAATTTTTTATTCAATAATATAAAAGAAAAAA
129 TATTTTAATTTTACCAATAATTTATTAATATAATAATTTTATATTCAATAATATAAAAGAAAAAA
* * * *
784180 ATTAATATAACTTTTTTAGAAAAATAAAGAAAAAAATTATTATATGACACATGATGTATTGAGAG
194 ATCAATATAACTTTTTTAGAAAAATAAAGAAAAAAATTATTATACGACACATGATATATTGAAAG
* * * * * *
784245 TTATCTAAATAGTATTATGAACTTTATATGAAAAATAAATAAAACATGACACAATATATAAAAAT
259 TTATATAAATAATATTACGAACTTTATATGAAAAATAAATAAAACACGACACAACATAGAAAAAT
* * ** * *
784310 AACATAACCATAATATAAATACATGAACATGATAAAATTTATATAAAACAAACGTGGTACAAAAT
324 AACACAACCATAATACAAATACACAAACATGATAAAATTTATATAAAACAAACATGATACAAAAT
* *
784375 TAAAAATAATTTTAATAATGCTAATTAGAGTTGATAATTTTAGACATGATTCAGAAATAAATAAA
389 TAAAAATAATTTTAATAATGCTAATTAGAGTTGATAATTCTAGACATGAGTCAGAAATAAATAAA
* * ** * * *
784440 CATAATACAACACGAAATTTGGCACTAGCTAATATGAACAAATGTATAAATATATAAAAATCTAT
454 CACAATACAACACCAAATTTGAAACTAGCTAATATGAACAAATGCACAAAGATATAAAAATCTAT
784505 AAAAATTAAAAAAA
519 AAAAATTAAAAAAA
784519 TAACTTTATA
Statistics
Matches: 453, Mismatches: 68, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
534 10 0.02
535 168 0.37
536 42 0.09
538 60 0.13
539 32 0.07
540 29 0.06
541 25 0.06
542 60 0.13
543 27 0.06
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (535 bp):
TAACTTATAACATCATTTAACATAATTTTTTTACTATTTAATTATCATAATATTATTTCTTTTAA
TTCAACACCCAATATTTTTTTTTTAAAATTTACTTAATCAATCCATCTCATAGTATTATTCTATA
TTTTAATTTTACCAATAATTTATTAATATAATAATTTTATATTCAATAATATAAAAGAAAAAAAT
CAATATAACTTTTTTAGAAAAATAAAGAAAAAAATTATTATACGACACATGATATATTGAAAGTT
ATATAAATAATATTACGAACTTTATATGAAAAATAAATAAAACACGACACAACATAGAAAAATAA
CACAACCATAATACAAATACACAAACATGATAAAATTTATATAAAACAAACATGATACAAAATTA
AAAATAATTTTAATAATGCTAATTAGAGTTGATAATTCTAGACATGAGTCAGAAATAAATAAACA
CAATACAACACCAAATTTGAAACTAGCTAATATGAACAAATGCACAAAGATATAAAAATCTATAA
AAATTAAAAAAAATT
Found at i:784306 original size:23 final size:23
Alignment explanation
Indices: 784279--784339 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
784269 TATATGAAAA
784279 ATAAATAA-AACATGACACAAT-AT
1 ATAAATAATAACAT-A-ACAATAAT
*
784302 ATAAA-AATAACATAACCATAAT
1 ATAAATAATAACATAACAATAAT
784324 ATAAATACATGAACAT
1 ATAAATA-AT-AACAT
784340 GATAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 4 0.12
22 10 0.31
23 11 0.34
24 2 0.06
25 5 0.16
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (23 bp):
ATAAATAATAACATAACAATAAT
Found at i:788465 original size:48 final size:48
Alignment explanation
Indices: 788379--788496 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 48
788369 TTAATAAGTA
* * * *
788379 TATCAATACATTTTAGAAA-CCTAGATATATTGATACATTATTCATTG
1 TATCAATATATTCTAAAAACCCCAGATATATTGATACATTATTCATTG
788426 TATCAATATATTCTAAAAACCCCAGATATATTGATACATTATTCATTG
1 TATCAATATATTCTAAAAACCCCAGATATATTGATACATTATTCATTG
* *
788474 CATCAATATATTCTTGAAAACCC
1 TATCAATATATTC-TAAAAACCC
788497 AAATGTACCA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 16 0.25
48 39 0.62
49 8 0.13
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (48 bp):
TATCAATATATTCTAAAAACCCCAGATATATTGATACATTATTCATTG
Found at i:788512 original size:48 final size:48
Alignment explanation
Indices: 788411--788514 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
788401 AGATATATTG
* * **
788411 ATACATTATTCATTGTATCAATATATTCTAAAAACCCCAGATATATTG
1 ATACATTATTCATTGCATCAATATATTCTAAAAACCCCAAATATATCC
* *
788459 ATACATTATTCATTGCATCAATATATTCTTGAAAA-CCCAAATGTA-CC
1 ATACATTATTCATTGCATCAATATATTC-TAAAAACCCCAAATATATCC
788506 ATTACATTA
1 A-TACATTA
788515 ATCAAAGTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 1 0.02
48 42 0.88
49 5 0.10
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (48 bp):
ATACATTATTCATTGCATCAATATATTCTAAAAACCCCAAATATATCC
Found at i:788676 original size:39 final size:38
Alignment explanation
Indices: 788633--788706 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 38
788623 CAAGTATGTA
788633 TCAAAAGATCAATCAAATTCATATATA-ACCAAATATTTG
1 TCAAAAGATCAATCAAA-TC-TATATAGACCAAATATTTG
788672 TCAAAAGATCAATCAAATCTATATAGACCAAATAT
1 TCAAAAGATCAATCAAATCTATATAGACCAAATAT
788707 GCATTTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 6 0.18
38 11 0.32
39 17 0.50
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.28
Consensus pattern (38 bp):
TCAAAAGATCAATCAAATCTATATAGACCAAATATTTG
Found at i:788717 original size:38 final size:39
Alignment explanation
Indices: 788622--788720 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 39
788612 TCCTAGGAAT
* *
788622 CCAAGTATGTATCAAAAGATCAATCAAATTCATATATAA
1 CCAAATATGCATCAAAAGATCAATCAAATTCATATATAA
***
788661 CCAAATATTTGTCAAAAGATCAATCAAA-TC-TATATAGA
1 CCAAATATGCATCAAAAGATCAATCAAATTCATATATA-A
**
788699 CCAAATATGCATTTAAAGATCA
1 CCAAATATGCATCAAAAGATCA
788721 TTATGAGCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 6 0.12
38 20 0.39
39 25 0.49
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.28
Consensus pattern (39 bp):
CCAAATATGCATCAAAAGATCAATCAAATTCATATATAA
Found at i:791471 original size:3 final size:3
Alignment explanation
Indices: 791463--791495 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
791453 TTCCTCAACT
791463 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
791496 CCACTTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:802497 original size:1 final size:1
Alignment explanation
Indices: 802487--802580 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
802477 TGGCAATTGG
* * ** ** * *
802487 AAAAAGAAAAAAAAAAACAAAAAAAAAAAGGAAAAAGGAAAAAGAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
802552 GGAAAAAGAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
802581 GTGAAGATTT
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:802576 original size:29 final size:28
Alignment explanation
Indices: 802487--802581 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 28
802477 TGGCAATTGG
* *
802487 AAAAAGAAAAAAAAAAACAAAAAAAAAAA
1 AAAAAGGAAAAAGAAAA-AAAAAAAAAAA
802516 GGAAAAAGGAAAAAGAAAAAAAAAAAACAAA
1 --AAAAAGGAAAAAGAAAAAAAAAAAA-AAA
802547 AAAAAGGAAAAAGAAAAAAAAAACAAAAA
1 AAAAAGGAAAAAGAAAAAAAAAA-AAAAA
802576 AAAAAG
1 AAAAAG
802582 TGAAGATTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 32 0.53
30 10 0.17
31 18 0.30
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (28 bp):
AAAAAGGAAAAAGAAAAAAAAAAAAAAA
Found at i:805762 original size:19 final size:20
Alignment explanation
Indices: 805732--805769 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
805722 TAAAGTCCGA
*
805732 AATTTTTGTTTTCATTTTAT
1 AATTTTTGTTTTCAATTTAT
805752 AATTTTT-TTTTCAATTTA
1 AATTTTTGTTTTCAATTTA
805770 GTACTCCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTTTTGTTTTCAATTTAT
Found at i:806190 original size:12 final size:12
Alignment explanation
Indices: 806175--806206 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
806165 CTTAGCATAC
*
806175 GACTACTCCTAT
1 GACTAATCCTAT
806187 GACTAATCCTAT
1 GACTAATCCTAT
806199 GACTAATC
1 GACTAATC
806207 GTCACTCGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (12 bp):
GACTAATCCTAT
Done.