Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008387.1 Hibiscus syriacus cultivar Beakdansim tig00111151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2491990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:625642 original size:30 final size:31
Alignment explanation
Indices: 625608--625672 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
625598 AATATTTGAC
625608 CACTTTC-GTTTTATTTAATTAAAATGTGGT
1 CACTTTCAGTTTTATTTAATTAAAATGTGGT
* *
625638 CACTTTCATTTTTATTTAATTAAGATGTGGT
1 CACTTTCAGTTTTATTTAATTAAAATGTGGT
625669 CACT
1 CACT
625673 GAGGGTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (31 bp):
CACTTTCAGTTTTATTTAATTAAAATGTGGT
Found at i:627364 original size:23 final size:22
Alignment explanation
Indices: 627330--627408 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
627320 TATTTAAATT
627330 TAAAACATAAAATATAAAAATAC
1 TAAAA-ATAAAATATAAAAATAC
* * *
627353 TAAAAATAAAA-ATTAAATTAT
1 TAAAAATAAAATATAAAAATAC
* *
627374 TAAAAATATACTATAAAAAGTATC
1 TAAAAATAAAATATAAAAA-TA-C
*
627398 AAAAAATAAAA
1 TAAAAATAAAA
627409 ATACCACAAG
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 16 0.38
22 11 0.26
23 7 0.17
24 8 0.19
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (22 bp):
TAAAAATAAAATATAAAAATAC
Found at i:627851 original size:21 final size:23
Alignment explanation
Indices: 627825--627872 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
627815 GTCCCCTCAA
* *
627825 AATTAT-ATTAAATTT-TAAGTT
1 AATTATCATAAAATTTATAACTT
627846 AATTATCATAAAATTTATAACTT
1 AATTATCATAAAATTTATAACTT
627869 AATT
1 AATT
627873 TCGACTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTATCATAAAATTTATAACTT
Found at i:629414 original size:5 final size:5
Alignment explanation
Indices: 629399--629430 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
629389 GTATCATGTT
629399 TATAA -ATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
629431 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:629422 original size:15 final size:14
Alignment explanation
Indices: 629399--629442 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
629389 GTATCATGTT
629399 TATAAATAATATAA
1 TATAAATAATATAA
629413 TATAATATAATATAA
1 TATAA-ATAATATAA
*
629428 TATGAA-AA-ATAA
1 TATAAATAATATAA
629440 TAT
1 TAT
629443 TATGATCTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 7 0.25
13 2 0.07
14 6 0.21
15 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TATAAATAATATAA
Found at i:629589 original size:17 final size:17
Alignment explanation
Indices: 629561--629610 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 17
629551 TTTCACCTCA
*
629561 TAAAATTATAAAATAAT
1 TAAAAATATAAAATAAT
* *
629578 TATATATAT-AAAT-AT
1 TAAAAATATAAAATAAT
629593 TAAAAATATAAAATAAT
1 TAAAAATATAAAATAAT
629610 T
1 T
629611 TTAACTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAATATAAAATAAT
Found at i:631927 original size:3 final size:3
Alignment explanation
Indices: 631873--631908 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
631863 TTTATTTATT
631873 ATA ATA ATA ATA TATA TATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA A
631909 ATATTAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 25 0.78
4 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:632036 original size:32 final size:32
Alignment explanation
Indices: 631973--632036 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
631963 TGTTGCGGTC
* * * **
631973 ATTTTTTTTTATATATTTTGACCATTTATTTG
1 ATTTTATTTTATATATTTTCAACATAAATTTG
*
632005 ATTTTATTTTATATATTTTCAAGATAAATTTG
1 ATTTTATTTTATATATTTTCAACATAAATTTG
632037 CAATTGAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (32 bp):
ATTTTATTTTATATATTTTCAACATAAATTTG
Found at i:633147 original size:2 final size:2
Alignment explanation
Indices: 633140--633169 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
633130 ATATTAAAAT
633140 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
633170 AGGATGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:633265 original size:3 final size:3
Alignment explanation
Indices: 633257--633286 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
633247 CACTTATTTA
*
633257 AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
633287 TAAAAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:633953 original size:31 final size:31
Alignment explanation
Indices: 633895--633956 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
633885 GCTCGAACAA
*
633895 AATAAATATACAAATATTAGAACCAAATCAT
1 AATAAATATACAAATATCAGAACCAAATCAT
* *
633926 AATAAATATA-AAATTATCAGGATCAAATCAT
1 AATAAATATACAAA-TATCAGAACCAAATCAT
633957 GCCGAATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.27
Consensus pattern (31 bp):
AATAAATATACAAATATCAGAACCAAATCAT
Found at i:634880 original size:2 final size:2
Alignment explanation
Indices: 634868--634916 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
634858 CATTAAACCC
*
634868 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
634910 TA TA TA T
1 TA TA TA T
634917 CCAGGGCCGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:635246 original size:2 final size:2
Alignment explanation
Indices: 635234--635265 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
635224 AAAGATTAGT
*
635234 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
635266 ATTCATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:635809 original size:29 final size:28
Alignment explanation
Indices: 635750--635803 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
635740 AGAGACAGAG
* *
635750 ATGAATATAGAAATTTATATAAAAAAAT
1 ATGAATATAAAAAATTATATAAAAAAAT
* *
635778 ATGAATTTAAAAAATTATATTAAAAA
1 ATGAATATAAAAAATTATATAAAAAA
635804 TTTATGTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (28 bp):
ATGAATATAAAAAATTATATAAAAAAAT
Found at i:636188 original size:32 final size:32
Alignment explanation
Indices: 636151--636211 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
636141 TAGATTACTT
636151 AAAAATTATCTTACGTAAAATGAATTATATGA
1 AAAAATTATCTTACGTAAAATGAATTATATGA
* * * *
636183 AAAAATTGTTTTACTTAAAATTAATTATA
1 AAAAATTATCTTACGTAAAATGAATTATA
636212 ATTTTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (32 bp):
AAAAATTATCTTACGTAAAATGAATTATATGA
Found at i:637843 original size:19 final size:19
Alignment explanation
Indices: 637819--637863 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
637809 AAAAGTAGTC
637819 AATATCACAGTTTACTATA
1 AATATCACAGTTTACTATA
*
637838 AATATCACATTTTACTATA
1 AATATCACAGTTTACTATA
*
637857 AAAATCA
1 AATATCA
637864 AGGACATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (19 bp):
AATATCACAGTTTACTATA
Found at i:640174 original size:67 final size:70
Alignment explanation
Indices: 640047--640175 Score: 158
Period size: 67 Copynumber: 1.9 Consensus size: 70
640037 ATTAGGTCAT
*** * * *
640047 AATTTCAATTTAATTTAATAAATTTATTTCTCCAATCAAAGTGTGACACATTTTATCTTTTGTAC
1 AATTTCAATTTAATTTAATAAATTTATCAATCCAATCAAAGTGTGACACATGTCACCTTTTGTAC
640112 AATGA
66 AATGA
*
640117 AATTT-AA-TTAATTTAATAAATTT-TCAATCCGATCAAAAG-GTGACACATGTCACCTTTTG
1 AATTTCAATTTAATTTAATAAATTTATCAATCCAATC-AAAGTGTGACACATGTCACCTTTTG
640176 AATTGAAGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
67 24 0.47
68 20 0.39
69 2 0.04
70 5 0.10
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (70 bp):
AATTTCAATTTAATTTAATAAATTTATCAATCCAATCAAAGTGTGACACATGTCACCTTTTGTAC
AATGA
Found at i:646544 original size:28 final size:28
Alignment explanation
Indices: 646513--646592 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 28
646503 GTTTTTGATT
646513 TTTTTATCCTTTATTTTTCTTTTCAGCA
1 TTTTTATCCTTTATTTTTCTTTTCAGCA
**
646541 -TTTTA---TTTATTTTT-TCGT--G-A
1 TTTTTATCCTTTATTTTTCTTTTCAGCA
*
646561 ATTTTATCCTTTATTTTTCTTTTCAGCA
1 TTTTTATCCTTTATTTTTCTTTTCAGCA
646589 TTTT
1 TTTT
646593 ATTTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
20 1 0.03
21 6 0.15
23 2 0.05
24 18 0.46
25 2 0.05
27 6 0.15
28 4 0.10
ACGTcount: A:0.15, C:0.14, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTTTATCCTTTATTTTTCTTTTCAGCA
Found at i:646554 original size:24 final size:24
Alignment explanation
Indices: 646522--646602 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
646512 TTTTTTATCC
646522 TTTATTTTTCTTTTCAGCATTTTA
1 TTTATTTTTCTTTTCAGCATTTTA
** *
646546 TTTATTTTT-TCGT--GAATTTTA
1 TTTATTTTTCTTTTCAGCATTTTA
646567 TCCTTTATTTTTCTTTTCAGCATTTTA
1 ---TTTATTTTTCTTTTCAGCATTTTA
646594 TTTATTTTT
1 TTTATTTTT
646603 TCGTGAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 7 0.16
23 2 0.04
24 27 0.60
25 2 0.04
27 7 0.16
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTATTTTTCTTTTCAGCATTTTA
Found at i:646555 original size:20 final size:21
Alignment explanation
Indices: 646522--646604 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 21
646512 TTTTTTATCC
646522 TTTATTT-TTCTTTTCAGCAT
1 TTTATTTATTCTTTTCAGCAT
* *
646542 TTTATTTATT-TTTTCGTGAAT
1 TTTATTTATTCTTTTC-AGCAT
646563 TTTATCCTTTATTTTTCTTTTCAGCAT
1 TTTA---TTTA---TTCTTTTCAGCAT
646590 TTTATTTATT-TTTTC
1 TTTATTTATTCTTTTC
646605 GTGAATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
20 17 0.34
21 11 0.22
24 8 0.16
27 9 0.18
28 5 0.10
ACGTcount: A:0.16, C:0.12, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTTATTCTTTTCAGCAT
Found at i:646566 original size:21 final size:21
Alignment explanation
Indices: 646540--646613 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 21
646530 TCTTTTCAGC
646540 ATTTTATTTATTTTTTCGTGA
1 ATTTTATTTATTTTTTCGTGA
** *
646561 ATTTTATCCTTTATTTTTCTTTTCAGC
1 ATTTTA---TTTATTTTT-TCGT--GA
646588 ATTTTATTTATTTTTTCGTGA
1 ATTTTATTTATTTTTTCGTGA
646609 ATTTT
1 ATTTT
646614 TCAGGTGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
21 12 0.29
23 2 0.05
24 18 0.44
25 2 0.05
27 7 0.17
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.66
Consensus pattern (21 bp):
ATTTTATTTATTTTTTCGTGA
Found at i:646568 original size:48 final size:48
Alignment explanation
Indices: 646514--646613 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
646504 TTTTTGATTT
646514 TTTTATCCTTTATTTTTCTTTTCAGCATTTTATTTATTTTTTCGTGAA
1 TTTTATCCTTTATTTTTCTTTTCAGCATTTTATTTATTTTTTCGTGAA
646562 TTTTATCCTTTATTTTTCTTTTCAGCATTTTATTTATTTTTTCGTGAA
1 TTTTATCCTTTATTTTTCTTTTCAGCATTTTATTTATTTTTTCGTGAA
646610 TTTT
1 TTTT
646614 TCAGGTGTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.66
Consensus pattern (48 bp):
TTTTATCCTTTATTTTTCTTTTCAGCATTTTATTTATTTTTTCGTGAA
Found at i:647560 original size:12 final size:12
Alignment explanation
Indices: 647543--647575 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
647533 GTGTTCCACA
647543 AAGAAAAAGAAG
1 AAGAAAAAGAAG
*
647555 AAGAAAAAAAAG
1 AAGAAAAAGAAG
647567 AA-AAAAAGA
1 AAGAAAAAGA
647576 GTTCAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:650126 original size:23 final size:23
Alignment explanation
Indices: 650082--650130 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
650072 ATAAAAAACC
*
650082 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
650105 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
650128 AAA
1 AAA
650131 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:651302 original size:9 final size:10
Alignment explanation
Indices: 651269--651304 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
651259 ACTACACATT
651269 TTTTTTCTTA
1 TTTTTTCTTA
**
651279 TTTTTTCACA
1 TTTTTTCTTA
651289 TTTTTTCTTA
1 TTTTTTCTTA
651299 TTTTTT
1 TTTTTT
651305 TTACGCTGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTCTTA
Found at i:651305 original size:22 final size:22
Alignment explanation
Indices: 651263--651306 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
651253 TCACTTACTA
*
651263 CACATTTTTTTTCTTATTTTTT
1 CACATTTTTTTTATTATTTTTT
651285 CACATTTTTTCTTATT-TTTTTT
1 CACATTTTTT-TTATTATTTTTT
651307 ACGCTGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (22 bp):
CACATTTTTTTTATTATTTTTT
Found at i:655747 original size:23 final size:23
Alignment explanation
Indices: 655703--655751 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
655693 ATAAAAAACC
*
655703 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
655726 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
655749 AAA
1 AAA
655752 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:664043 original size:62 final size:63
Alignment explanation
Indices: 663953--664098 Score: 190
Period size: 62 Copynumber: 2.3 Consensus size: 63
663943 ATAAAATTTA
* * * *
663953 TATTTTATCTAAATTTC-AGGAGATAAATTGATATTTTATTTAAAGTTAAGAGATCAAATTAG
1 TATTTTATCTAAAGTTCAAGGAGATAAATTGATATTTCATCTAAAATTAAGAGATCAAATTAG
* * *
664015 TATTTTATCTAAAGTTCAAGG-G-TCAAATTGATATTTCATCTAAAATTTAGAGGTTAAATTAG
1 TATTTTATCTAAAGTTCAAGGAGAT-AAATTGATATTTCATCTAAAATTAAGAGATCAAATTAG
*
664077 TATTTTATCTAAAGTTTAAGGA
1 TATTTTATCTAAAGTTCAAGGA
664099 CCAAATTAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
61 1 0.01
62 69 0.95
63 3 0.04
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (63 bp):
TATTTTATCTAAAGTTCAAGGAGATAAATTGATATTTCATCTAAAATTAAGAGATCAAATTAG
Found at i:664105 original size:31 final size:31
Alignment explanation
Indices: 663953--664132 Score: 148
Period size: 31 Copynumber: 6.0 Consensus size: 31
663943 ATAAAATTTA
*
663953 TATTTTATCTAAA-TTTCAGGAGAT-AAATT-G
1 TATTTTATCTAAAGTTT-AAG-GATCAAATTAG
*
663983 ATATTTTATTTAAAG-TTAAGAGATCAAATTAG
1 -TATTTTATCTAAAGTTTAAG-GATCAAATTAG
* *
664015 TATTTTATCTAAAGTTCAAGGGTCAAATT-G
1 TATTTTATCTAAAGTTTAAGGATCAAATTAG
* * *
664045 ATATTTCATCTAAAATTTAGAGG-TTAAATTAG
1 -TATTTTATCTAAAGTTTA-AGGATCAAATTAG
*
664077 TATTTTATCTAAAGTTTAAGGACCAAATTA-
1 TATTTTATCTAAAGTTTAAGGATCAAATTAG
*
664107 -A---TATCTAAAGTTTAAGGACCAAATTA
1 TATTTTATCTAAAGTTTAAGGATCAAATTA
664133 ATGATTAATC
Statistics
Matches: 128, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
26 25 0.20
29 1 0.01
30 10 0.08
31 83 0.65
32 9 0.07
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (31 bp):
TATTTTATCTAAAGTTTAAGGATCAAATTAG
Found at i:664111 original size:26 final size:26
Alignment explanation
Indices: 664082--664134 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
664072 ATTAGTATTT
664082 TATCTAAAGTTTAAGGACCAAATTAA
1 TATCTAAAGTTTAAGGACCAAATTAA
664108 TATCTAAAGTTTAAGGACCAAATTAA
1 TATCTAAAGTTTAAGGACCAAATTAA
664134 T
1 T
664135 GATTAATCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (26 bp):
TATCTAAAGTTTAAGGACCAAATTAA
Found at i:669656 original size:36 final size:36
Alignment explanation
Indices: 669606--669681 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
669596 GTTATAGCAA
*
669606 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
669642 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
669678 AAAA
1 AAAA
669682 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:671396 original size:30 final size:30
Alignment explanation
Indices: 671362--671418 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
671352 ACAAAACCAT
671362 TGATGTGACAAATTTTAATTTTTTCAACGA
1 TGATGTGACAAATTTTAATTTTTTCAACGA
* *
671392 TGATGTGATAATTTTTAATTTTTTCAA
1 TGATGTGACAAATTTTAATTTTTTCAA
671419 TGTAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (30 bp):
TGATGTGACAAATTTTAATTTTTTCAACGA
Found at i:675575 original size:29 final size:29
Alignment explanation
Indices: 675541--675599 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
675531 CCTAAATTAA
675541 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
675570 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
675599 T
1 T
675600 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:676227 original size:91 final size:91
Alignment explanation
Indices: 676072--676250 Score: 349
Period size: 91 Copynumber: 2.0 Consensus size: 91
676062 TAGTCAAAGC
*
676072 CTTGCCGTTAAGATGGGTGATCTTCAAGTAGTTGGAGGGATCAAGAAGCTCAATAACAAAAACTA
1 CTTGCCGTTAAGATGGGTGATCTTCAAGTAGTTGGAGGGATCAAGAAGCTCAACAACAAAAACTA
676137 CAACACGTGGGCAACATGTATGGAGT
66 CAACACGTGGGCAACATGTATGGAGT
676163 CTTGCCGTTAAGATGGGTGATCTTCAAGTAGTTGGAGGGATCAAGAAGCTCAACAACAAAAACTA
1 CTTGCCGTTAAGATGGGTGATCTTCAAGTAGTTGGAGGGATCAAGAAGCTCAACAACAAAAACTA
676228 CAACACGTGGGCAACATGTATGG
66 CAACACGTGGGCAACATGTATGG
676251 GTGATCTTAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (91 bp):
CTTGCCGTTAAGATGGGTGATCTTCAAGTAGTTGGAGGGATCAAGAAGCTCAACAACAAAAACTA
CAACACGTGGGCAACATGTATGGAGT
Found at i:684604 original size:78 final size:78
Alignment explanation
Indices: 684516--684664 Score: 219
Period size: 78 Copynumber: 1.9 Consensus size: 78
684506 ATATAGTAAG
* * *
684516 TAAACATTAAAATAATGTAATTCTGATTAAAACTATTTTAATGGATATTTAATTTGGAA-TAATT
1 TAAACATTAAAAGAATATAATTCAGATTAAAACTATTTTAATGGATATTT-ATTTGGAATTAATT
684580 AAATAAGGATAAAA
65 AAATAAGGATAAAA
* * *
684594 TAAACATTAAAAGAATATAATTCAGATTATAACTCTTTTAATGGATATTTATTTTGAATTAATTA
1 TAAACATTAAAAGAATATAATTCAGATTAAAACTATTTTAATGGATATTTATTTGGAATTAATTA
*
684659 ATTAAG
66 AATAAG
684665 AGTTTAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
77 7 0.11
78 56 0.89
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (78 bp):
TAAACATTAAAAGAATATAATTCAGATTAAAACTATTTTAATGGATATTTATTTGGAATTAATTA
AATAAGGATAAAA
Found at i:698552 original size:18 final size:18
Alignment explanation
Indices: 698512--698553 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
698502 GGGGTTTTAG
*
698512 TAAAAAGAGATTAAATAA
1 TAAAAAGAGATTAAAGAA
*
698530 TAAAAAGTGATTTAAAGAA
1 TAAAAAGAGA-TTAAAGAA
698549 -AAAAA
1 TAAAAA
698554 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (18 bp):
TAAAAAGAGATTAAAGAA
Found at i:699460 original size:27 final size:26
Alignment explanation
Indices: 699418--699470 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
699408 TTCCAGAAGG
*
699418 CGCTGACTAGATCTTCTAGAAAACTGC
1 CGCTGACTAGACCTTCTAG-AAACTGC
*
699445 CGCTGACTGGACCTTCTAGAAACTGC
1 CGCTGACTAGACCTTCTAGAAACTGC
699471 TACGTCAGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
CGCTGACTAGACCTTCTAGAAACTGC
Found at i:700781 original size:210 final size:210
Alignment explanation
Indices: 700457--700834 Score: 756
Period size: 210 Copynumber: 1.8 Consensus size: 210
700447 AATCCCCAAT
700457 TTAAAACCCTAGAAATTGTGAAAATTTGACCTAAGTTTTTAATTGAGATTAGTGACTAAATTATA
1 TTAAAACCCTAGAAATTGTGAAAATTTGACCTAAGTTTTTAATTGAGATTAGTGACTAAATTATA
700522 AATCCATAAAGTTATAAGCTATTTTCCTAAAACCCTATACAACTGGATGACCAACTTTGTAATTA
66 AATCCATAAAGTTATAAGCTATTTTCCTAAAACCCTATACAACTGGATGACCAACTTTGTAATTA
700587 AACCAATTTTATTTTAAGCAAACTCCCTGTGCGGTGCCCTCCCTATTTTTTTTCTCAAAACCTTA
131 AACCAATTTTATTTTAAGCAAACTCCCTGTGCGGTGCCCTCCCTATTTTTTTTCTCAAAACCTTA
700652 GCAACCATATACAAC
196 GCAACCATATACAAC
700667 TTAAAACCCTAGAAATTGTGAAAATTTGACCTAAGTTTTTAATTGAGATTAGTGACTAAATTATA
1 TTAAAACCCTAGAAATTGTGAAAATTTGACCTAAGTTTTTAATTGAGATTAGTGACTAAATTATA
700732 AATCCATAAAGTTATAAGCTATTTTCCTAAAACCCTATACAACTGGATGACCAACTTTGTAATTA
66 AATCCATAAAGTTATAAGCTATTTTCCTAAAACCCTATACAACTGGATGACCAACTTTGTAATTA
700797 AACCAATTTTATTTTAAGCAAACTCCCTGTGCGGTGCC
131 AACCAATTTTATTTTAAGCAAACTCCCTGTGCGGTGCC
700835 ATCCAGCTCA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 168 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (210 bp):
TTAAAACCCTAGAAATTGTGAAAATTTGACCTAAGTTTTTAATTGAGATTAGTGACTAAATTATA
AATCCATAAAGTTATAAGCTATTTTCCTAAAACCCTATACAACTGGATGACCAACTTTGTAATTA
AACCAATTTTATTTTAAGCAAACTCCCTGTGCGGTGCCCTCCCTATTTTTTTTCTCAAAACCTTA
GCAACCATATACAAC
Found at i:704479 original size:6 final size:6
Alignment explanation
Indices: 704468--704529 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
704458 CACAATACAA
* * *
704468 CACATT CACATTT CATATT CACGTCT CACATT CACATT CCACATT CATATTT
1 CACATT CACA-TT CACATT CACAT-T CACATT CACATT -CACATT CACA-TT
*
704520 CACTTT CACA
1 CACATT CACA
704530 AAAAATAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
6 24 0.55
7 20 0.45
ACGTcount: A:0.29, C:0.32, G:0.02, T:0.37
Consensus pattern (6 bp):
CACATT
Found at i:704489 original size:13 final size:13
Alignment explanation
Indices: 704468--704529 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
704458 CACAATACAA
704468 CACATTCACATTT
1 CACATTCACATTT
* * *
704481 CATATTCACGTCT
1 CACATTCACATTT
*
704494 CACATTCACATTC
1 CACATTCACATTT
*
704507 CACATTCATATTT
1 CACATTCACATTT
*
704520 CACTTTCACA
1 CACATTCACA
704530 AAAAATAAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.29, C:0.32, G:0.02, T:0.37
Consensus pattern (13 bp):
CACATTCACATTT
Found at i:716179 original size:81 final size:81
Alignment explanation
Indices: 716036--716271 Score: 253
Period size: 81 Copynumber: 2.9 Consensus size: 81
716026 AGATGAAACT
** * ** * *
716036 GATTTATCTCCTC-ATCGGAAACTAAGGGTTTGGAATGACATGCCATCACCTGAATCTTTAGTAA
1 GATTTATCTCCTCTAT-GGAAACGGAGGGTTCGGAATGACACACCATCACCAGAACCTTTAGTAA
* * *
716100 GCAGGGTAGACGGTACC
65 ACAGAGCAGACGGTACC
*
716117 GATTTATCTCCTCTATGAAAACGGAGGGTTCGGAATGACACACCATCACCAGAA-CTTATAGTAA
1 GATTTATCTCCTCTATGGAAACGGAGGGTTCGGAATGACACACCATCACCAGAACCTT-TAGTAA
* *
716181 ACAGAGCAGATGGTACT
65 ACAGAGCAGACGGTACC
* * ** *
716198 GATTTATCTCCT-TCACGGAAACGGATGGTTCGGAATGATTCACCTTCACCAGAACCTTTAGTAA
1 GATTTATCTCCTCT-ATGGAAACGGAGGGTTCGGAATGACACACCATCACCAGAACCTTTAGTAA
*
716262 ATAGAGCAGA
65 ACAGAGCAGA
716272 TGCCGATTTA
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.03
81 123 0.93
82 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (81 bp):
GATTTATCTCCTCTATGGAAACGGAGGGTTCGGAATGACACACCATCACCAGAACCTTTAGTAAA
CAGAGCAGACGGTACC
Found at i:722996 original size:347 final size:337
Alignment explanation
Indices: 722370--723054 Score: 1223
Period size: 347 Copynumber: 2.0 Consensus size: 337
722360 ACAGGTGCAC
722370 GCATAAGCATGTCACACAAAGGGTCTGAGTACGAAGGATCTTCTCGATCATTTGACTTTCCAACT
1 GCATAAGCATGTCACACAAAGGGTCTGAGTACGAAGGATCTTCTCGATCATTTGACTTTCCAACT
722435 CTAACTCCTTATTGCATGGATGGCAAATACTTGAGCAAGAAACTCACAGGCATACCGGAGGGAAT
66 CTAACTCCTTATTGCATGGATGGCAAATACTTGAGCAAGAAACTCACAGGCATACCGGAGGGAAT
722500 GGAACAACCTAGGGTAGTGTTGGCATCAACCAAACCCACAATCTCTTTCTTTTTTTGTTGCGACT
131 GGAACAACCTAGGGTAGTGTTGGCATCAACCAAACCCACAATCTCTTTCTTTTTTTGTTGCGACT
722565 GTGGGGGAATCAGTGTTATCACCTCGTCATCTCCATCATTGATGATAACAGCCATAACCAGAGAA
196 GT-GGGGAATCAGTGTTATCACCTCGTCATCTCCATCATTGATGATAACAGCCATAACCAGAGAA
722630 GCAATAGAATTCATGTTCTCCATATACTGTAAATGGCAGCTGTGTGGAGCCCTGAGGGTTGAACC
260 GCAATAGAATTCATGTTCTCCATATACTGTAAATGGCAGCTGTGTGGAGCCCTGAGGGTTGAACC
722695 ACAAAATGTTAGG
325 ACAAAATGTTAGG
722708 GCATAAGCATGTCACACAAAGGGTCTGAGTACGAAGGATATTCTTCTCGATCATTTGACTTTCCA
1 GCATAAGCATGTCACACAAAGGGTCTGAGTACGAAGG--A-TCTTCTCGATCATTTGACTTTCCA
722773 ACTCTAACTCCTTATTGACATGGATGGCAAATACTTGAGCAAGAAACTCACAGGCATACCGGAGA
63 ACTCTAACTCCTTATTG-CATGGATGGCAAATACTTGAGCAAGAAACTCACAGGCATACC-G-GA
722838 GGGAATGGAACAAACCTAGGAGTAG-GTTGTGGCATACAACCAAACCCCACAATCTCTTTC-TTT
125 GGGAATGGAAC-AACCTAGG-GTAGTG-T-TGGCAT-CAACCAAA-CCCACAATCTCTTTCTTTT
722901 TTTGTTGCGACTGT-GGGAATCAGTGTTATCACCCTCGTCATCTCCATCATTGATGATAACAGCC
184 TTTGTTGCGACTGTGGGGAATCAGTGTTATCA-CCTCGTCATCTCCATCATTGATGATAACAGCC
722965 ATAACCAGAGAAGCAATAGAATTCATGTTCTCCATATACTGTAAATGGCAGCTGTGTGGAGCCCT
248 ATAACCAGAGAAGCAATAGAATTCATGTTCTCCATATACTGTAAATGGCAGCTGTGTGGAGCCCT
723030 GAGGGTTGAACCACAAAATGTTAGG
313 GAGGGTTGAACCACAAAATGTTAGG
723055 TCAAAAGGAA
Statistics
Matches: 334, Mismatches: 0, Indels: 17
0.95 0.00 0.05
Matches are distributed among these distances:
338 37 0.11
340 1 0.00
341 41 0.12
342 42 0.13
343 1 0.00
344 13 0.04
345 9 0.03
346 22 0.07
347 128 0.38
348 25 0.07
349 15 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (337 bp):
GCATAAGCATGTCACACAAAGGGTCTGAGTACGAAGGATCTTCTCGATCATTTGACTTTCCAACT
CTAACTCCTTATTGCATGGATGGCAAATACTTGAGCAAGAAACTCACAGGCATACCGGAGGGAAT
GGAACAACCTAGGGTAGTGTTGGCATCAACCAAACCCACAATCTCTTTCTTTTTTTGTTGCGACT
GTGGGGAATCAGTGTTATCACCTCGTCATCTCCATCATTGATGATAACAGCCATAACCAGAGAAG
CAATAGAATTCATGTTCTCCATATACTGTAAATGGCAGCTGTGTGGAGCCCTGAGGGTTGAACCA
CAAAATGTTAGG
Found at i:725994 original size:134 final size:133
Alignment explanation
Indices: 725733--726003 Score: 492
Period size: 133 Copynumber: 2.0 Consensus size: 133
725723 GTAAGAGTCA
*
725733 GTGGTCACATTGTAAATGGACAGGATTTGGGGCGTAGCAGAATCCAAAGAGGTTTGGTTGGCTTG
1 GTGGTCACATTGTAAATGGACAGGATTTGGGGCGTAGCAGAATCCAAAGAGGCTTGGTTGGCTTG
725798 ATGAGTGGGGTCCATGCCTAGTTTCCCACTTTCCTCCTAACCCTATCCCTTCATCCAATTTTTTC
66 ATGAGT-GGGTCCATGCCTAGTTTCCCACTTTCCTCCTAACCCTATCCCTTCATCCAATTTTTTC
725863 AGAC
130 AGAC
725867 GTGGTCACATTGTAAATGGACAGGATTTGGGG-GATAGCAGAATCCAAAGAGGCTTGGTTTGGCT
1 GTGGTCACATTGTAAATGGACAGGATTTGGGGCG-TAGCAGAATCCAAAGAGGCTTGG-TTGGCT
725931 TGATGAGT-GGTCCATGCCTAGTTTCCCACTTTCCTCCTAACCCTATCCCTTCATCCAATTTTTT
64 TGATGAGTGGGTCCATGCCTAGTTTCCCACTTTCCTCCTAACCCTATCCCTTCATCCAATTTTTT
725995 CAGAC
129 CAGAC
726000 GTGG
1 GTGG
726004 AAGATAGGTA
Statistics
Matches: 134, Mismatches: 1, Indels: 5
0.96 0.01 0.04
Matches are distributed among these distances:
133 66 0.49
134 54 0.40
135 14 0.10
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (133 bp):
GTGGTCACATTGTAAATGGACAGGATTTGGGGCGTAGCAGAATCCAAAGAGGCTTGGTTGGCTTG
ATGAGTGGGTCCATGCCTAGTTTCCCACTTTCCTCCTAACCCTATCCCTTCATCCAATTTTTTCA
GAC
Found at i:728073 original size:12 final size:12
Alignment explanation
Indices: 728058--728124 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
728048 TTTCTAATAT
728058 TTAATATATTTA
1 TTAATATATTTA
*
728070 TTAATATA-ATA
1 TTAATATATTTA
* *
728081 TGAATATA-TAA
1 TTAATATATTTA
*
728092 TATAAAATATTATA
1 T-TAATATATT-TA
728106 TTAATATATTTA
1 TTAATATATTTA
728118 TTAATAT
1 TTAATAT
728125 GATGCAAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 11 0.25
12 22 0.50
13 9 0.20
14 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
TTAATATATTTA
Found at i:728089 original size:25 final size:25
Alignment explanation
Indices: 728059--728124 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
728049 TTCTAATATT
728059 TAATATATTTATTAATATAATATGAA
1 TAATATATTTATTAATATAATAT-AA
* * * *
728085 T-ATATA-ATA-TAAAATATTATAT
1 TAATATATTTATTAATATAATATAA
728107 TAATATATTTATTAATAT
1 TAATATATTTATTAATAT
728125 GATGCAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
22 2 0.06
23 14 0.45
24 4 0.13
25 10 0.32
26 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TAATATATTTATTAATATAATATAA
Found at i:730533 original size:15 final size:14
Alignment explanation
Indices: 730498--730538 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
730488 GAAAGAAAAA
*
730498 CTAGTTCTCTCTTT
1 CTAGTTCTCTCCTT
730512 CTA-TTCTCTCCTT
1 CTAGTTCTCTCCTT
730525 CTAGTT-TCTCCTT
1 CTAGTTCTCTCCTT
730538 C
1 C
730539 GTTCTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.07, C:0.34, G:0.05, T:0.54
Consensus pattern (14 bp):
CTAGTTCTCTCCTT
Found at i:731579 original size:20 final size:20
Alignment explanation
Indices: 731554--731592 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
731544 AATTGATCCA
*
731554 GCCGAGCCAAGCTGAGTCGC
1 GCCGAGCCAAGCTAAGTCGC
*
731574 GCCGAGTCAAGCTAAGTCG
1 GCCGAGCCAAGCTAAGTCG
731593 TTTGACCAAA
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:0.23, C:0.31, G:0.33, T:0.13
Consensus pattern (20 bp):
GCCGAGCCAAGCTAAGTCGC
Found at i:731652 original size:23 final size:23
Alignment explanation
Indices: 731620--731665 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
731610 ACTATCGTCG
731620 TTGACAGTTGACC-AGTGTTGACT
1 TTGACAGTTGACCGA-TGTTGACT
*
731643 TTGACCGTTGACCGATGTTGACT
1 TTGACAGTTGACCGATGTTGACT
731666 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (23 bp):
TTGACAGTTGACCGATGTTGACT
Found at i:733207 original size:18 final size:18
Alignment explanation
Indices: 733184--733231 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
733174 TTTGCACTAC
733184 TTCATCTGCTTGAACTGT
1 TTCATCTGCTTGAACTGT
733202 TTCATCTGCTTGAACTGT
1 TTCATCTGCTTGAACTGT
733220 TTCATCTGCTTG
1 TTCATCTGCTTG
733232 GTTGTCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (18 bp):
TTCATCTGCTTGAACTGT
Found at i:735912 original size:21 final size:21
Alignment explanation
Indices: 735871--735912 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
735861 CTACTGTTAT
*
735871 TATTATTATTATAATATTAAA
1 TATTATTATTATAATACTAAA
735892 TATTATTATTTATAA-ACTAAA
1 TATTATTA-TTATAATACTAAA
735913 AAATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTATTATTATAATACTAAA
Found at i:737553 original size:20 final size:20
Alignment explanation
Indices: 737516--737567 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
737506 TACATTTTAT
*
737516 CATTTGTTTACTTTTATGTG
1 CATTTGTTCACTTTTATGTG
*
737536 CATTTGTTCA--TTTATATG
1 CATTTGTTCACTTTTATGTG
*
737554 CATTTATTC-CTTTT
1 CATTTGTTCACTTTT
737568 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 15 0.56
19 3 0.11
20 9 0.33
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (20 bp):
CATTTGTTCACTTTTATGTG
Found at i:737630 original size:18 final size:20
Alignment explanation
Indices: 737593--737630 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
737583 TTCCATAAAA
737593 AGTTCATTTCCCATCATTTT
1 AGTTCATTTCCCATCATTTT
*
737613 AGTT-ATTTCTCA-CATTTT
1 AGTTCATTTCCCATCATTTT
737631 GGTTTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (20 bp):
AGTTCATTTCCCATCATTTT
Found at i:742925 original size:17 final size:17
Alignment explanation
Indices: 742905--742937 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
742895 CCTGTTCGAG
742905 ATCGAAATGTAAATATT
1 ATCGAAATGTAAATATT
742922 ATCGAAATGTAAATAT
1 ATCGAAATGTAAATAT
742938 GATCATCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
ATCGAAATGTAAATATT
Found at i:746539 original size:2 final size:2
Alignment explanation
Indices: 746534--746584 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
746524 ATAAACGTTA
746534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
746576 AT AT AT AT A
1 AT AT AT AT A
746585 CTTTAAATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:748478 original size:41 final size:39
Alignment explanation
Indices: 748429--748534 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 39
748419 ACTTTATAGT
*
748429 ACTTTAGTGGCATTTTTATACAAATGTCGCAATAGGGTT-C
1 ACTTTAGTGGC-TTTTT-TACAAATGTCGCAATAGAGTTCC
* *
748469 A-TTCATAGTGGTGTTTTCTTAACAAATGTCGCGATAGAGTTCC
1 ACTT--TAGTGG-CTTTT-TT-ACAAATGTCGCAATAGAGTTCC
748512 ACTTTAGTGGCTTTTTTTACAAA
1 ACTTTAGTGGC-TTTTTTACAAA
748535 CACTGCAACA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
39 2 0.04
40 6 0.11
41 13 0.24
42 29 0.54
43 2 0.04
44 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (39 bp):
ACTTTAGTGGCTTTTTTACAAATGTCGCAATAGAGTTCC
Found at i:752686 original size:16 final size:16
Alignment explanation
Indices: 752665--752698 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
752655 TCTTTGTCAC
752665 GAAGCTCCCATCAGCA
1 GAAGCTCCCATCAGCA
*
752681 GAAGCTGCCATCAGCA
1 GAAGCTCCCATCAGCA
752697 GA
1 GA
752699 TGCTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (16 bp):
GAAGCTCCCATCAGCA
Found at i:754205 original size:14 final size:14
Alignment explanation
Indices: 754186--754237 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
754176 ACCCACACTA
*
754186 AGTCAACTCGGTTG
1 AGTCAACTCGATTG
* * *
754200 AGTCAACTCACACTA
1 AGTCAACTC-GATTG
754215 AGTCAACTCGATTG
1 AGTCAACTCGATTG
754229 AGTCAACTC
1 AGTCAACTC
754238 ACTGGGTCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (14 bp):
AGTCAACTCGATTG
Found at i:754211 original size:29 final size:29
Alignment explanation
Indices: 754166--754239 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
754156 CGCTTGACCT
*
754166 GATTGAGTCAACCCACACTAAGTCAACTC
1 GATTGAGTCAACTCACACTAAGTCAACTC
*
754195 GGTTGAGTCAACTCACACTAAGTCAACTC
1 GATTGAGTCAACTCACACTAAGTCAACTC
754224 GATTGAGTCAACTCAC
1 GATTGAGTCAACTCAC
754240 TGGGTCAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (29 bp):
GATTGAGTCAACTCACACTAAGTCAACTC
Found at i:754220 original size:15 final size:15
Alignment explanation
Indices: 754171--754223 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
754161 GACCTGATTG
*
754171 AGTCAACCCACACTA
1 AGTCAACTCACACTA
*** *
754186 AGTCAACTC-GGTTG
1 AGTCAACTCACACTA
754200 AGTCAACTCACACTA
1 AGTCAACTCACACTA
754215 AGTCAACTC
1 AGTCAACTC
754224 GATTGAGTCA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (15 bp):
AGTCAACTCACACTA
Found at i:754248 original size:13 final size:14
Alignment explanation
Indices: 754186--754249 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
754176 ACCCACACTA
**
754186 AGTCAACTCGGTTG
1 AGTCAACTCGACTG
* *
754200 AGTCAACTCACACTA
1 AGTCAACTC-GACTG
*
754215 AGTCAACTCGATTG
1 AGTCAACTCGACTG
754229 AGTCAACTC-ACTG
1 AGTCAACTCGACTG
*
754242 GGTCAACT
1 AGTCAACT
754250 TGTTGACTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 10 0.25
14 20 0.50
15 10 0.25
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (14 bp):
AGTCAACTCGACTG
Found at i:754248 original size:27 final size:28
Alignment explanation
Indices: 754166--754249 Score: 107
Period size: 29 Copynumber: 3.0 Consensus size: 28
754156 CGCTTGACCT
*
754166 GATTGAGTCAACCCACACTAAGTCAACTC
1 GATTGAGTCAA-CTACACTAAGTCAACTC
*
754195 GGTTGAGTCAACTCACACTAAGTCAACTC
1 GATTGAGTCAACT-ACACTAAGTCAACTC
**
754224 GATTGAGTCAACT-CACTGGGTCAACT
1 GATTGAGTCAACTACACTAAGTCAACT
754250 TGTTGACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 11 0.22
28 1 0.02
29 37 0.76
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (28 bp):
GATTGAGTCAACTACACTAAGTCAACTC
Found at i:756253 original size:24 final size:24
Alignment explanation
Indices: 756226--756293 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
756216 TTCCAATTGA
* * * *
756226 ATTCTATTATGATACCTGATATGG
1 ATTCTGTTCTGATATCTGACATGG
*
756250 ATTCTGTTCTGATATCTGACCTGG
1 ATTCTGTTCTGATATCTGACATGG
756274 ATTCTGTTCTGATATCTGAC
1 ATTCTGTTCTGATATCTGAC
756294 TTGAATTATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (24 bp):
ATTCTGTTCTGATATCTGACATGG
Found at i:756305 original size:24 final size:24
Alignment explanation
Indices: 756254--756310 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
756244 ATATGGATTC
* *
756254 TGTTCTGATATCTGACCTGGATTC
1 TGTTCTGATATCTGACCTGAATTA
*
756278 TGTTCTGATATCTGACTTGAATTA
1 TGTTCTGATATCTGACCTGAATTA
*
756302 TGTTTTGAT
1 TGTTCTGAT
756311 TTTTGATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.47
Consensus pattern (24 bp):
TGTTCTGATATCTGACCTGAATTA
Found at i:756637 original size:156 final size:155
Alignment explanation
Indices: 756337--756642 Score: 495
Period size: 156 Copynumber: 2.0 Consensus size: 155
756327 TACGGACGGA
*
756337 AAATGTTTTATTTGGTGGTATTGTTGGAGGAAGAATACTTGAAGGCTCCTCGGCTTTGTGCCCAA
1 AAATGTTTTATTTGGGGGTATTGTTGGAGGAAGAATACTTGAAGGCTCCTCGGCTTTGTGCCCAA
* * *
756402 GGCCTTACTCGATGTGACGGAGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGGT
66 GGCCTTACTCGATGTGACGGAGGGTGTATGGTTCCGGGAAACCTACACATTATGATGTGTTCGGC
756467 TGGAGGGATTACTATGGTTTTTGAT
131 TGGAGGGATTACTATGGTTTTTGAT
* * * *
756492 AAATGTTTTATTTGGGGGGTATTGTTGGAGGAAGTATACTTGTAGTCTCCTCGGCTTTGTGCTCA
1 AAATGTTTTATTT-GGGGGTATTGTTGGAGGAAGAATACTTGAAGGCTCCTCGGCTTTGTGCCCA
* * * *
756557 GGGCCTTACTGGATGTGACGGTGGGTGTATGGTTCCGGGAAACCTACACATTATGATGTGTTGGG
65 AGGCCTTACTCGATGTGACGGAGGGTGTATGGTTCCGGGAAACCTACACATTATGATGTGTTCGG
756622 CTGGAGGGATTACTATGGTTT
130 CTGGAGGGATTACTATGGTTT
756643 CTGAATTTTA
Statistics
Matches: 138, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
155 13 0.09
156 125 0.91
ACGTcount: A:0.20, C:0.13, G:0.32, T:0.35
Consensus pattern (155 bp):
AAATGTTTTATTTGGGGGTATTGTTGGAGGAAGAATACTTGAAGGCTCCTCGGCTTTGTGCCCAA
GGCCTTACTCGATGTGACGGAGGGTGTATGGTTCCGGGAAACCTACACATTATGATGTGTTCGGC
TGGAGGGATTACTATGGTTTTTGAT
Found at i:757301 original size:34 final size:34
Alignment explanation
Indices: 757263--757348 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
757253 CTGTATAATT
* * * *
757263 TCTTTTATTATACTATTTCTCTTATTGTATTGTA
1 TCTTTTATTATACTATATATCTTACTGAATTGTA
* * *
757297 TCTTTTATTGTTCTATATATTTTACTGAATTGTA
1 TCTTTTATTATACTATATATCTTACTGAATTGTA
*
757331 TCTTTTGTTATACTATAT
1 TCTTTTATTATACTATAT
757349 CTTTCACTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.60
Consensus pattern (34 bp):
TCTTTTATTATACTATATATCTTACTGAATTGTA
Found at i:757304 original size:17 final size:17
Alignment explanation
Indices: 757284--757336 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
757274 ACTATTTCTC
757284 TTATTGTATTGTATCTT
1 TTATTGTATTGTATCTT
* *
757301 TTATTGT-TCTATATATT
1 TTATTGTAT-TGTATCTT
* *
757318 TTACTGAATTGTATCTT
1 TTATTGTATTGTATCTT
757335 TT
1 TT
757337 GTTATACTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 1 0.04
17 26 0.93
18 1 0.04
ACGTcount: A:0.21, C:0.08, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATTGTATTGTATCTT
Found at i:758865 original size:21 final size:20
Alignment explanation
Indices: 758826--758865 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
758816 GTCTAATTTT
*
758826 ACATTCTTACATCAAATTCA
1 ACATTCTAACATCAAATTCA
*
758846 ACATTCTAAGATCTAAATTC
1 ACATTCTAACATC-AAATTC
758866 CAGCTTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (20 bp):
ACATTCTAACATCAAATTCA
Found at i:768330 original size:14 final size:14
Alignment explanation
Indices: 768311--768344 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
768301 ATCAAAAAAT
*
768311 ATATGTGTGTATAC
1 ATATGTGTATATAC
*
768325 ATATGTGTATATAT
1 ATATGTGTATATAC
768339 ATATGT
1 ATATGT
768345 ATCATGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (14 bp):
ATATGTGTATATAC
Found at i:770351 original size:18 final size:19
Alignment explanation
Indices: 770316--770352 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
770306 CACGGAATGT
770316 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
770336 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
770353 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:773044 original size:114 final size:114
Alignment explanation
Indices: 772844--773072 Score: 458
Period size: 114 Copynumber: 2.0 Consensus size: 114
772834 AGCTTGATAA
772844 GTGGGTATTGTGCAAGATATATGTGGCGAGGAATAAGGTTAAGAACAATGTGCATGAAAATGGAG
1 GTGGGTATTGTGCAAGATATATGTGGCGAGGAATAAGGTTAAGAACAATGTGCATGAAAATGGAG
772909 ATCCATATGCTTGTTCTACCTCTCAAGATGTTGATGGACTATCTTCAAG
66 ATCCATATGCTTGTTCTACCTCTCAAGATGTTGATGGACTATCTTCAAG
772958 GTGGGTATTGTGCAAGATATATGTGGCGAGGAATAAGGTTAAGAACAATGTGCATGAAAATGGAG
1 GTGGGTATTGTGCAAGATATATGTGGCGAGGAATAAGGTTAAGAACAATGTGCATGAAAATGGAG
773023 ATCCATATGCTTGTTCTACCTCTCAAGATGTTGATGGACTATCTTCAAG
66 ATCCATATGCTTGTTCTACCTCTCAAGATGTTGATGGACTATCTTCAAG
773072 G
1 G
773073 GCAGATTCTT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (114 bp):
GTGGGTATTGTGCAAGATATATGTGGCGAGGAATAAGGTTAAGAACAATGTGCATGAAAATGGAG
ATCCATATGCTTGTTCTACCTCTCAAGATGTTGATGGACTATCTTCAAG
Found at i:777535 original size:264 final size:264
Alignment explanation
Indices: 777053--777575 Score: 870
Period size: 264 Copynumber: 2.0 Consensus size: 264
777043 TGGGAGAGAG
777053 TGTTCTCAAGAATTTGGGGTATAATTCTTGAGGAATTTGTAAGGTTACTCTTTGTCCTCAAAAGA
1 TGTTCTCAAGAATTTGGGGTATAATTCTTGAGGAATTTGTAAGGTTACTCTTTGTCCTCAAAAGA
*
777118 AAGACAAATTAGTGAATTTGTGGAAAATCCTTAATGGGATAGCTAAGGTAGTGGACATAGACTTT
66 AAGACAAATTAGTGAATTTGTGGAAAATACTTAATGGGATAGCTAAGGTAGTGGACATAGACTTT
**
777183 GGTTGAGAAAGTCGAACCACACTAAATTGTTGTGCAATTATTTTCTATTTTCTGCAAAAGCTTCC
131 GGTTGAGAAAGTCGAACCACACTAAACCGTTGTGCAATTATTTTCTATTTTCTGCAAAAGCTTCC
* * * *
777248 ACCAAATTTTTAATTTTCAATTCACCCCCTCTTGGCTATTTCGTCGATCGATTAACTTAATAATA
196 ACCAAATTTTCAATTGTCAATTCACCCCCTCTTAGCTATTTCGTCGATCGATTAACTCAATAATA
777313 ACTA
261 ACTA
* *
777317 TGTTCTTAAGATTTTGGGGTATAATTCTTGA-GAGATTTGTAAGGTTACTCTTTGTCCTCAAAAG
1 TGTTCTCAAGAATTTGGGGTATAATTCTTGAGGA-ATTTGTAAGGTTACTCTTTGTCCTCAAAAG
* * *
777381 AAAGACAAATTAGTGAATTTGTGGAAAATATTTAGTGTGGATAGCTAAGGTAGTGGACGTAGACT
65 AAAGACAAATTAGTGAATTTGTGGAAAATACTTAATG-GGATAGCTAAGGTAGTGGACATAGACT
* * * *
777446 TTGGTTGAGAAAGTTGAACCACTCTAAACCGTTGTGTAATTATTTTCTATTTTTTGCAAAAGCTT
129 TTGGTTGAGAAAGTCGAACCACACTAAACCGTTGTGCAATTATTTTCTATTTTCTGCAAAAGCTT
777511 CCACCAAA-TTTCAATTGTCAATTCACCCCCTCTTAGCTATTTCGTCGATCGATTAACTCAATAA
194 CCACCAAATTTTCAATTGTCAATTCACCCCCTCTTAGCTATTTCGTCGATCGATTAACTCAATAA
777575 T
259 T
777576 TGGTATCAGA
Statistics
Matches: 241, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
263 2 0.01
264 146 0.61
265 93 0.39
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (264 bp):
TGTTCTCAAGAATTTGGGGTATAATTCTTGAGGAATTTGTAAGGTTACTCTTTGTCCTCAAAAGA
AAGACAAATTAGTGAATTTGTGGAAAATACTTAATGGGATAGCTAAGGTAGTGGACATAGACTTT
GGTTGAGAAAGTCGAACCACACTAAACCGTTGTGCAATTATTTTCTATTTTCTGCAAAAGCTTCC
ACCAAATTTTCAATTGTCAATTCACCCCCTCTTAGCTATTTCGTCGATCGATTAACTCAATAATA
ACTA
Found at i:786456 original size:23 final size:23
Alignment explanation
Indices: 786421--786467 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
786411 GAGCTTTAGA
786421 ACTTGACTCGTTCAACATTCTCC
1 ACTTGACTCGTTCAACATTCTCC
* *
786444 ACTTGGCTGGTTCAACATTCTCC
1 ACTTGACTCGTTCAACATTCTCC
786467 A
1 A
786468 AACTGCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (23 bp):
ACTTGACTCGTTCAACATTCTCC
Found at i:790280 original size:2 final size:2
Alignment explanation
Indices: 790270--790306 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
790260 AATGAAAAAA
790270 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
790307 TCTGCCGTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:791154 original size:29 final size:27
Alignment explanation
Indices: 791113--791167 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
791103 AACTTATGTC
*
791113 ATTTTTTCAGTTTAGTACCTAACGTTT
1 ATTTTTTCAGTTTAATACCTAACGTTT
*
791140 ATTTTATTCCAGTTTAATGCCTAACGTT
1 ATTTT-TT-CAGTTTAATACCTAACGTT
791168 CCATTACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 2 0.08
29 17 0.71
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTTTCAGTTTAATACCTAACGTTT
Found at i:791699 original size:25 final size:24
Alignment explanation
Indices: 791650--791699 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
791640 TGTTAGATTG
*
791650 TAAAAAAAATAAAAAAATATGAAA
1 TAAAAAAAATAAAAAAATATAAAA
* *
791674 TAAAAAAATTAAATTAAATATAAAA
1 TAAAAAAAATAAA-AAAATATAAAA
791699 T
1 T
791700 CACGTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (24 bp):
TAAAAAAAATAAAAAAATATAAAA
Found at i:791887 original size:17 final size:16
Alignment explanation
Indices: 791865--791898 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
791855 CCAAAAGGGA
791865 AAAAAGTCAAAAGGTTG
1 AAAAAG-CAAAAGGTTG
*
791882 AAAAAGGAAAAGGTTG
1 AAAAAGCAAAAGGTTG
791898 A
1 A
791899 GCAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (16 bp):
AAAAAGCAAAAGGTTG
Found at i:800394 original size:15 final size:15
Alignment explanation
Indices: 800370--800415 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
800360 ATTTAGTGGA
*
800370 CGGGCGGATGTGGGG
1 CGGGCGGATGCGGGG
* *
800385 CGGGCAGATGCGAGG
1 CGGGCGGATGCGGGG
800400 CGGGCGGATGCGGGG
1 CGGGCGGATGCGGGG
800415 C
1 C
800416 TGGTAAGGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.11, C:0.20, G:0.61, T:0.09
Consensus pattern (15 bp):
CGGGCGGATGCGGGG
Found at i:800992 original size:5 final size:5
Alignment explanation
Indices: 800982--801011 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
800972 ACCCTCTTTT
*
800982 TGTTC TGTTC TGTTT TGTTC TGTTC TGTTC
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC
801012 ATTTTCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.20, T:0.63
Consensus pattern (5 bp):
TGTTC
Found at i:800997 original size:15 final size:15
Alignment explanation
Indices: 800979--801010 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
800969 ATGACCCTCT
800979 TTTTGTTCTGTTCTG
1 TTTTGTTCTGTTCTG
800994 TTTTGTTCTGTTCTG
1 TTTTGTTCTGTTCTG
801009 TT
1 TT
801011 CATTTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.19, T:0.69
Consensus pattern (15 bp):
TTTTGTTCTGTTCTG
Found at i:801590 original size:12 final size:12
Alignment explanation
Indices: 801570--801601 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
801560 GTTGTCCAAC
801570 TGGAGAAAATCT
1 TGGAGAAAATCT
*
801582 TGTAGAAAATCT
1 TGGAGAAAATCT
801594 TGGAGAAA
1 TGGAGAAA
801602 TTGCCGGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (12 bp):
TGGAGAAAATCT
Found at i:807009 original size:14 final size:13
Alignment explanation
Indices: 806990--807028 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
806980 TATATGGATA
806990 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
807004 TTTTATTATTTAT
1 TTTTATTATTTAT
807017 ATTATTATTATT
1 -TT-TTATTATT
807029 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:809375 original size:8 final size:8
Alignment explanation
Indices: 809362--809400 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
809352 GAACATTTCA
*
809362 TGCATTCT
1 TGCATTTT
809370 TGCA-TTT
1 TGCATTTT
809377 TGCATTTT
1 TGCATTTT
*
809385 TGCCTTTT
1 TGCATTTT
809393 TGCATTTT
1 TGCATTTT
809401 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:810597 original size:13 final size:13
Alignment explanation
Indices: 810576--810614 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
810566 ATCAGAATAA
810576 AAAAGGCAAAAAA-
1 AAAA-GCAAAAAAC
810589 AAGAAGCAAAAAAC
1 AA-AAGCAAAAAAC
810603 AAAAGCAAAAAA
1 AAAAGCAAAAAA
810615 GAACAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAGCAAAAAAC
Found at i:810619 original size:16 final size:16
Alignment explanation
Indices: 810586--810633 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
810576 AAAAGGCAAA
810586 AAAAAGAAGCAAAA-AAC
1 AAAAAGAA--AAAAGAAC
810603 -AAAAGCAAAAAAGAAC
1 AAAAAG-AAAAAAGAAC
810619 AAAAAGAAAAAAGAA
1 AAAAAGAAAAAAGAA
810634 AAAGGGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 17 0.61
17 7 0.25
ACGTcount: A:0.79, C:0.08, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAC
Found at i:810643 original size:23 final size:24
Alignment explanation
Indices: 810585--810647 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
810575 AAAAAGGCAA
*
810585 AAAAAAGAAGCAAAAA-ACAAAAGC
1 AAAAAAGAA-CAAAAAGAAAAAAGC
810609 AAAAAAGAACAAAAAGAAAAAAG-
1 AAAAAAGAACAAAAAGAAAAAAGC
* *
810632 AAAAAGGGACAAAAAG
1 AAAAAAGAACAAAAAG
810648 CACATGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.57
24 15 0.43
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAGAACAAAAAGAAAAAAGC
Found at i:811267 original size:22 final size:22
Alignment explanation
Indices: 811239--811282 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
811229 AGCTACCCCA
811239 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
811261 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
811283 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:811740 original size:17 final size:17
Alignment explanation
Indices: 811718--811751 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
811708 TCAACATCAA
*
811718 ATATTGGGGCATTTTTG
1 ATATTGGGGCATCTTTG
811735 ATATTGGGGCATCTTTG
1 ATATTGGGGCATCTTTG
811752 GGGATTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (17 bp):
ATATTGGGGCATCTTTG
Found at i:812354 original size:36 final size:36
Alignment explanation
Indices: 812246--812369 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
812236 ATTGAAAACA
* * *
812246 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
812282 TTTCCCTTGGAACTAAGTTTT-GTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
812319 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
812355 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
812370 AACCTTTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:812432 original size:65 final size:65
Alignment explanation
Indices: 812328--812502 Score: 208
Period size: 68 Copynumber: 2.6 Consensus size: 65
812318 GTTTCTCTTG
** * **
812328 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAATTTATTTCCCCT
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCT
812392 A
65 A
* * *
812393 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACAAAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC--AAAACCTTCAAATTTATTTCCCC
812458 TA
64 TA
* * *
812460 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
812503 CAGATATCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
65 29 0.31
66 8 0.09
67 26 0.28
68 31 0.33
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCTA
Found at i:813329 original size:105 final size:105
Alignment explanation
Indices: 813145--813868 Score: 1140
Period size: 105 Copynumber: 7.0 Consensus size: 105
813135 GCACTCGAGG
* * ** *
813145 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
813210 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
813251 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
813316 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
813356 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
813418 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
813458 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
813523 GCCATTTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* **
813563 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
813628 GCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
813668 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATATCATA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
813733 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
813773 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * * *
813833 TTCAATTTCAACTTCACGATGGAGGATATTGGACTC
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTC
813869 TGAACAATGC
Statistics
Matches: 582, Mismatches: 33, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
100 35 0.06
101 1 0.00
102 101 0.17
103 2 0.00
104 2 0.00
105 402 0.69
106 39 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:813509 original size:207 final size:208
Alignment explanation
Indices: 813145--813868 Score: 1116
Period size: 207 Copynumber: 3.5 Consensus size: 208
813135 GCACTCGAGG
* * ** *
813145 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--AC-AACAACTTCTCAATTTCAG
813210 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
63 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
813275 AAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAG
128 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
813340 GATATTGGACTTCAGA
193 GATATTGGACTTCAGA
* *
813356 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT-CAACAACTTCTCAATTTCAGAAC
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
* *
813420 CAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAG
66 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
813485 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCATTTTCAACTTCACAACGAAGGAT
131 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
813550 ATTGGACTTCAGA
196 ATTGGACTTCAGA
* **
813563 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--ACAACAACTTCTCAATTTCAGA
* *
813628 GCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGA
64 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* * *
813693 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATATCATAGCCAATTTCAACTTCACAACGAAGG
129 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
813758 ATATTGGACTCCAGA
194 ATATTGGACTTCAGA
* *
813773 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT-CAACAAAATT-TC-A-TTCAGAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAAC-AACTTCTCAATTTCAGAG
* * * *
813834 TCAATTTCAACTTCACGATGGAGGATATTGGACTC
65 CCAATTTCAACTTCACAACGAAGGATATTGGACTC
813869 TGAACAATGC
Statistics
Matches: 473, Mismatches: 36, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
205 34 0.07
206 1 0.00
207 204 0.43
208 5 0.01
210 194 0.41
211 35 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (208 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTTCAGA
Found at i:815042 original size:14 final size:13
Alignment explanation
Indices: 815023--815061 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
815013 TATATGGATA
815023 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
815037 TTTTATTATTTAT
1 TTTTATTATTTAT
815050 ATTATTATTATT
1 -TT-TTATTATT
815062 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:815074 original size:2 final size:2
Alignment explanation
Indices: 815061--815117 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
815051 TTATTATTAT
*
815061 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
815103 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
815118 TTCTTTAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:815589 original size:9 final size:9
Alignment explanation
Indices: 815568--815601 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
815558 ATTTTTTTCC
815568 TTTATCTTA-
1 TTTAT-TTAT
815577 TTTATTTAT
1 TTTATTTAT
815586 TTTATTTAT
1 TTTATTTAT
815595 TTTATTT
1 TTTATTT
815602 TTCCCTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:815590 original size:13 final size:14
Alignment explanation
Indices: 815568--815602 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
815558 ATTTTTTTCC
*
815568 TTTATCTTATTTA-
1 TTTATTTTATTTAT
815581 TTTATTTTATTTAT
1 TTTATTTTATTTAT
815595 TTTATTTT
1 TTTATTTT
815603 TCCCTTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:817609 original size:175 final size:176
Alignment explanation
Indices: 817316--817666 Score: 668
Period size: 175 Copynumber: 2.0 Consensus size: 176
817306 TGATTTTACC
*
817316 TATGTACAGTCGAGTAGTTAAGAGAGGAAAGAAAGCCTTTTTCACCCTCGATCAAGTCGAGTTGA
1 TATGTACAGTCGAGTAGTTAAGAGAGGAAAGAAAGCCTTTTTCACCCTCAATCAAGTCGAGTTGA
*
817381 GCGAAGAAATTTAGAATTATTTTAGTTGACAAGTCGTATTTTATAATTCAAACTTAACTTAAAAA
66 GCGAAGAAATTTAGAATTATTTTAGTTGACAAGTCGTATTTTATAACTCAAACTTAACTTAAAAA
817446 AATTTCGAGTCGAGTTTAAGAAATTTAAGTCAAGTTATTCGAGTTT
131 AATTTCGAGTCGAGTTTAAGAAATTTAAGTCAAGTTATTCGAGTTT
817492 TATGTACAGTCGAGTAGTTAAGAGAGGAAAGAAAGCC-TTTTCACCCTCAATCAAGTCGAGTTGA
1 TATGTACAGTCGAGTAGTTAAGAGAGGAAAGAAAGCCTTTTTCACCCTCAATCAAGTCGAGTTGA
*
817556 GCGAAGAAATTTGGAATTATTTTAGTTGACAAGTCGTATTTTATAACTCAAACTTAACTTAAAAA
66 GCGAAGAAATTTAGAATTATTTTAGTTGACAAGTCGTATTTTATAACTCAAACTTAACTTAAAAA
817621 AATTTCGAGTCGAGTTTAAGAAATTTAAGTCAAGTTATTCGAGTTT
131 AATTTCGAGTCGAGTTTAAGAAATTTAAGTCAAGTTATTCGAGTTT
817667 CTATACTAAT
Statistics
Matches: 172, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
175 135 0.78
176 37 0.22
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (176 bp):
TATGTACAGTCGAGTAGTTAAGAGAGGAAAGAAAGCCTTTTTCACCCTCAATCAAGTCGAGTTGA
GCGAAGAAATTTAGAATTATTTTAGTTGACAAGTCGTATTTTATAACTCAAACTTAACTTAAAAA
AATTTCGAGTCGAGTTTAAGAAATTTAAGTCAAGTTATTCGAGTTT
Found at i:818032 original size:21 final size:21
Alignment explanation
Indices: 818006--818046 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
817996 CGTTTTATGA
*
818006 ACAGTAACATGCTATAGTACT
1 ACAGTAACATGCTACAGTACT
*
818027 ACAGTAACCTGCTACAGTAC
1 ACAGTAACATGCTACAGTAC
818047 AATGCATCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
ACAGTAACATGCTACAGTACT
Found at i:818425 original size:3 final size:3
Alignment explanation
Indices: 818417--818469 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
818407 TTAGTGAGGC
*
818417 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
818465 ATA AT
1 ATA AT
818470 TATTAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:818481 original size:13 final size:12
Alignment explanation
Indices: 818417--818475 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
818407 TTAGTGAGGC
*
818417 ATAATAATAATA
1 ATAATATTAATA
*
818429 ATAATAATAATA
1 ATAATATTAATA
*
818441 ATAATAATAATA
1 ATAATATTAATA
818453 ATAATATTAATA
1 ATAATATTAATA
818465 ATAATTATTAA
1 ATAA-TATTAA
818476 ATATAAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
12 39 0.87
13 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:818766 original size:23 final size:23
Alignment explanation
Indices: 818700--818785 Score: 104
Period size: 23 Copynumber: 3.7 Consensus size: 23
818690 TCGTATAAAT
818700 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
818723 TTTGTC-CCGAAG-GACCGCGTAGAA
1 -TTG-CACCGAAGTG-CCACGTAGAA
*
818747 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
818770 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
818786 TATAATATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
22 1 0.02
23 32 0.60
24 19 0.36
25 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:825231 original size:21 final size:21
Alignment explanation
Indices: 825205--825245 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
825195 TATGATATGA
*
825205 ACAGTAACCTGCTATAGTACT
1 ACAGTAACCTGCTACAGTACT
825226 ACAGTAACCTGCTACAGTAC
1 ACAGTAACCTGCTACAGTAC
825246 AATGCATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (21 bp):
ACAGTAACCTGCTACAGTACT
Found at i:825344 original size:21 final size:21
Alignment explanation
Indices: 825301--825344 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
825291 AATGGCAATT
*
825301 GTGCATCGATGCACTGCTACA
1 GTGCATCGATGCACTGATACA
*
825322 GTGCATCGATGCACTGATGCA
1 GTGCATCGATGCACTGATACA
825343 GT
1 GT
825345 ACTGTTACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCACTGATACA
Found at i:829163 original size:21 final size:23
Alignment explanation
Indices: 829137--829182 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
829127 AATGAAAATG
*
829137 TTTTTTTAAGTTAAAGATTATTA
1 TTTTTATAAGTTAAAGATTATTA
*
829160 TTTTTCATAAGTTAGAGATTATT
1 TTTTT-ATAAGTTAAAGATTATT
829183 TGTTTTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (23 bp):
TTTTTATAAGTTAAAGATTATTA
Found at i:835484 original size:22 final size:20
Alignment explanation
Indices: 835459--835501 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
835449 TTTTTCTTCG
835459 ATTGAGATTCACTCTATGAGGC
1 ATTGAGA-T-ACTCTATGAGGC
*
835481 ATTGAGATGCTCTATGAGGC
1 ATTGAGATACTCTATGAGGC
835501 A
1 A
835502 CTCGATCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (20 bp):
ATTGAGATACTCTATGAGGC
Found at i:837031 original size:23 final size:23
Alignment explanation
Indices: 837005--837074 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
836995 AACCGAAGTT
*
837005 CCACATAGATTTGTCCCGAATGA
1 CCACATAGAATTGTCCCGAATGA
* * *
837028 CCACTTAGAATTGTACCAAAT-A
1 CCACATAGAATTGTCCCGAATGA
* *
837050 CCAAATAGAATTATCCCGAATGA
1 CCACATAGAATTGTCCCGAATGA
837073 CC
1 CC
837075 GCGTTGAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 17 0.46
23 20 0.54
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAATGA
Found at i:837203 original size:15 final size:15
Alignment explanation
Indices: 837185--837267 Score: 66
Period size: 15 Copynumber: 5.7 Consensus size: 15
837175 AAGTATCATT
837185 TATTCACATAAAACA
1 TATTCACATAAAACA
*
837200 TATTCACCTAGAAA-A
1 TATTCACATA-AAACA
* *
837215 TTTTCACATAGAACA
1 TATTCACATAAAACA
*
837230 TTTTCA-AGT-AAACA
1 TATTCACA-TAAAACA
* *
837244 CATTCACAT-TAACA
1 TATTCACATAAAACA
837258 TATTCACATA
1 TATTCACATA
837268 CTAATAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 24 0.44
15 27 0.50
16 3 0.06
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (15 bp):
TATTCACATAAAACA
Found at i:838090 original size:74 final size:76
Alignment explanation
Indices: 837993--838185 Score: 261
Period size: 74 Copynumber: 2.6 Consensus size: 76
837983 TGTACAAGGT
* * *
837993 GGGAATCGGTACCCCCT-TGGGGGGAATCGGTTCCCTCCGAGCATACT-GAATTCTC-GGAG-CA
1 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGG-GCCA
**
838054 AAACTGTTTAGGG
65 AAACCATTTA-GG
* *
838067 GGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCAAGCATTCTGGAAATCTCAGGGCCAA
1 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGGGCCAA
838131 AACCATTTAGG
66 AACCATTTAGG
*
838142 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
838186 ATCTGTAATT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
74 41 0.39
75 30 0.29
76 34 0.32
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (76 bp):
GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGGGCCAA
AACCATTTAGG
Found at i:838404 original size:27 final size:28
Alignment explanation
Indices: 838366--838418 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
838356 TCATTGGAAA
838366 ATCTTAAAATCC-TTTAACTTAATTTGT
1 ATCTTAAAATCCATTTAACTTAATTTGT
838393 ATCTTAAAATCCATTTAACTTAATTT
1 ATCTTAAAATCCATTTAACTTAATTT
838419 TTTATATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (28 bp):
ATCTTAAAATCCATTTAACTTAATTTGT
Found at i:840273 original size:38 final size:36
Alignment explanation
Indices: 840197--840273 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
840187 ATTTTATATT
*
840197 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
840233 TTTAATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAA-AAAATTATATAAATATTAT-CAA
840271 TTT
1 TTT
840274 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 5 0.14
37 21 0.60
38 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:840453 original size:20 final size:20
Alignment explanation
Indices: 840417--840454 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
840407 ATCCTATTCC
**
840417 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
840437 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
840455 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:841131 original size:9 final size:9
Alignment explanation
Indices: 841089--841140 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
841079 AAAATAATAT
841089 TATATTATTA
1 TATATT-TTA
*
841099 TATATTTAA
1 TATATTTTA
*
841108 T-TATTAATAA
1 TATATT--TTA
841118 TATATTTTA
1 TATATTTTA
841127 TATATTTTA
1 TATATTTTA
841136 TATAT
1 TATAT
841141 ATAATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 4 0.11
9 19 0.51
10 10 0.27
11 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATATTTTA
Found at i:841159 original size:27 final size:26
Alignment explanation
Indices: 841085--841182 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 26
841075 ATATAAAATA
* *
841085 ATATTATATTATTATA-TATTTAATT
1 ATATAATATTATTATATTATTTTATT
*
841110 AT-TAATAATATATTTTATATATTTTATAT
1 ATATAAT-AT-TATTATAT-TATTTTAT-T
841139 ATATAATATTATTATATTATTAATTATT
1 ATATAATATTATTATATTATT--TTATT
841167 A-ATAATATTATATATA
1 ATATAATATTAT-TATA
841183 CATTTAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.05
25 4 0.07
26 6 0.10
27 14 0.23
28 20 0.33
29 9 0.15
30 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATAATATTATTATATTATTTTATT
Found at i:841169 original size:24 final size:25
Alignment explanation
Indices: 841086--841179 Score: 95
Period size: 24 Copynumber: 3.7 Consensus size: 25
841076 TATAAAATAA
841086 TATT-ATATTATTATA-TATTTAAT
1 TATTAATATTATTATATTATTTAAT
* *
841109 TATTAATAATATATTTTATATATTTTAT
1 TATTAAT-AT-TATTATAT-TATTTAAT
841137 ATATATAATATTATTATATTA-TTAAT
1 -TAT-TAATATTATTATATTATTTAAT
*
841163 TATTAATAATATTATAT
1 TATTAATATTATTATAT
841180 ATACATTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.07
24 15 0.25
25 5 0.08
26 10 0.17
27 2 0.03
28 14 0.24
29 5 0.08
30 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTAATATTATTATATTATTTAAT
Found at i:841181 original size:7 final size:7
Alignment explanation
Indices: 841085--841181 Score: 60
Period size: 7 Copynumber: 13.6 Consensus size: 7
841075 ATATAAAATA
841085 ATATTAT
1 ATATTAT
841092 ATTATTAT
1 A-TATTAT
841100 ATATT-T
1 ATATTAT
841106 A-ATTATT
1 ATATTA-T
*
841113 AATAATAT
1 -ATATTAT
*
841121 ATTTTAT
1 ATATTAT
*
841128 ATATTTT
1 ATATTAT
841135 ATA-TAT
1 ATATTAT
*
841141 ATAATAT
1 ATATTAT
841148 -TATTAT
1 ATATTAT
841154 ATTATTA-
1 A-TATTAT
841161 ATTATTAAT
1 A-TATT-AT
841170 AATATTAT
1 -ATATTAT
841178 ATAT
1 ATAT
841182 ACATTTAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
5 3 0.04
6 12 0.17
7 32 0.44
8 17 0.24
9 7 0.10
10 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:841885 original size:2 final size:2
Alignment explanation
Indices: 841833--841872 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
841823 CTAAAATGAC
841833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
841873 ATTTAACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:850043 original size:121 final size:121
Alignment explanation
Indices: 849796--850043 Score: 363
Period size: 121 Copynumber: 2.0 Consensus size: 121
849786 GTTTTTACTG
*
849796 GTTAAATAAGTGTCTAACGTTTTCACCGTTACCATTTTAAGGTCAACTTCGTCATGATCGTTTTA
1 GTTAAATAAGTGTCTAACGTTTTCACCGTTACCATTTTAAGGCCAACTTCGTCATGATCGTTTTA
** * *
849861 AAAAAAATCAACCACTCAAAACATGACACACGGTGTGTTTAAAGGGTTTTTTTTTT
66 AAAAAAATCAACCACTCAAAACATGACACACGGTGTGTTTAAAGGAATATTTTGTT
*
849917 GTTAAATAAGTGTCTAACGTTTTCACCGTTATCATTTTAAGGCCAACTTCGTCATGATCGTTTTT
1 GTTAAATAAGTGTCTAACGTTTTCACCGTTACCATTTTAAGGCCAACTTCGTCATGATCG-TTTT
** * * * **
849982 TTAAAAAATTAAGCACTCAAAACATGACACATGGTGTGTTTAATTGAATATTTTGTT
65 AAAAAAAATCAACCACTCAAAACATGACACACGGTGTGTTTAAAGGAATATTTTGTT
850039 -TTAAA
1 GTTAAA
850044 AAACTTAAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
121 63 0.56
122 50 0.44
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (121 bp):
GTTAAATAAGTGTCTAACGTTTTCACCGTTACCATTTTAAGGCCAACTTCGTCATGATCGTTTTA
AAAAAAATCAACCACTCAAAACATGACACACGGTGTGTTTAAAGGAATATTTTGTT
Found at i:851976 original size:18 final size:18
Alignment explanation
Indices: 851955--851990 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
851945 GAAAGAGGGT
851955 CGTTGAGGAGCCGAGGAC
1 CGTTGAGGAGCCGAGGAC
**
851973 CGTTGAGGTTCCGAGGAC
1 CGTTGAGGAGCCGAGGAC
851991 GGAGTACCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.42, T:0.17
Consensus pattern (18 bp):
CGTTGAGGAGCCGAGGAC
Found at i:854805 original size:27 final size:30
Alignment explanation
Indices: 854765--854831 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 30
854755 GATGATGTAG
* *
854765 AGAAAAATGAAAAAGAAAA-AGAAATA-GA
1 AGAAAAAGGAAAAAGAAAAGAGAAAGAGGA
*
854793 AGAAGAAGGAAAAAGAAAAGAGAAAGAGGA
1 AGAAAAAGGAAAAAGAAAAGAGAAAGAGGA
854823 AGAAAAAGG
1 AGAAAAAGG
854832 GAAGATTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 17 0.52
29 6 0.18
30 10 0.30
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (30 bp):
AGAAAAAGGAAAAAGAAAAGAGAAAGAGGA
Found at i:854836 original size:23 final size:24
Alignment explanation
Indices: 854779--854830 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
854769 AAATGAAAAA
*
854779 GAAAAAG-AAATAG-AAGAAGAAG
1 GAAAAAGAAAAGAGAAAGAAGAAG
*
854801 GAAAAAGAAAAGAGAAAGAGGAA-
1 GAAAAAGAAAAGAGAAAGAAGAAG
854824 GAAAAAG
1 GAAAAAG
854831 GGAAGATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (24 bp):
GAAAAAGAAAAGAGAAAGAAGAAG
Found at i:862398 original size:29 final size:29
Alignment explanation
Indices: 862365--862459 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
862355 AATTGGTCCT
862365 TAAACTTTTGAATATTCCAATTTCATCCC
1 TAAACTTTTGAATATTCCAATTTCATCCC
* * * * *
862394 TAAAC-TATGACTTTCATTCTAAATT-AGTCCT
1 TAAACTTTTGA--AT-ATTCCAATTTCA-TCCC
*
862425 TAAACTTTTGAACATTCCAATTTCATCCC
1 TAAACTTTTGAATATTCCAATTTCATCCC
*
862454 CAAACT
1 TAAACT
862460 GTGTCCCTCA
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
28 4 0.08
29 21 0.44
30 3 0.06
31 16 0.33
32 4 0.08
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAACTTTTGAATATTCCAATTTCATCCC
Done.