Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold298
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: 1060864
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.35
Warning! 20344 characters in sequence are not A, C, G, or T
File 5 of 7
Found at i:622828 original size:36 final size:37
Alignment explanation
Indices: 622774--622867 Score: 140
Period size: 36 Copynumber: 2.6 Consensus size: 37
622764 TAAATTACAG
*
622774 ATTTTCTAAAAATC-TTAGATTTTTTAAGAATCACAA
1 ATTTTCTAAGAATCATTAGATTTTTTAAGAATCACAA
* *
622810 ATTTT-TAAGAATCATTAGATTTTTTAGGAATCACAG
1 ATTTTCTAAGAATCATTAGATTTTTTAAGAATCACAA
622846 ATTTTCTAAGAATCA-TAGATTT
1 ATTTTCTAAGAATCATTAGATTT
622868 CTATAATTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
35 7 0.13
36 37 0.70
37 9 0.17
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (37 bp):
ATTTTCTAAGAATCATTAGATTTTTTAAGAATCACAA
Found at i:622885 original size:17 final size:18
Alignment explanation
Indices: 622772--622885 Score: 108
Period size: 18 Copynumber: 6.4 Consensus size: 18
622762 CATAAATTAC
* *
622772 AGATTTTCTAAAAATCTT
1 AGATTTTCTAAGAATCAT
* *
622790 AGATTTTTTAAGAATCAC
1 AGATTTTCTAAGAATCAT
*
622808 AAATTTT-TAAGAATCATT
1 AGATTTTCTAAGAATCA-T
* * *
622826 AGATTTTTTAGGAATCAC
1 AGATTTTCTAAGAATCAT
622844 AGATTTTCTAAGAATCAT
1 AGATTTTCTAAGAATCAT
* *
622862 AGA-TTTCT-ATAATTAT
1 AGATTTTCTAAGAATCAT
622878 AGATTTTC
1 AGATTTTC
622886 AATTGCAATA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.11
17 18 0.23
18 44 0.56
19 8 0.10
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (18 bp):
AGATTTTCTAAGAATCAT
Found at i:627121 original size:27 final size:27
Alignment explanation
Indices: 627091--627172 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
627081 TTGAAGAAAA
627091 TAAAAATTTTAGGAAGCCTAATTATCC
1 TAAAAATTTTAGGAAGCCTAATTATCC
** * * * *
627118 T-AAAA-CCT-GTAA-CCTTA-TAGCT
1 TAAAAATTTTAGGAAGCCTAATTATCC
627140 TATAAAATTTTAGGAAGCCTAATTATCC
1 TA-AAAATTTTAGGAAGCCTAATTATCC
627168 TAAAA
1 TAAAA
627173 CCTGTAACCT
Statistics
Matches: 37, Mismatches: 12, Indels: 12
0.61 0.20 0.20
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 7 0.19
25 2 0.05
26 7 0.19
27 8 0.22
28 5 0.14
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAAATTTTAGGAAGCCTAATTATCC
Found at i:627154 original size:50 final size:50
Alignment explanation
Indices: 627093--627200 Score: 216
Period size: 50 Copynumber: 2.2 Consensus size: 50
627083 GAAGAAAATA
627093 AAAATTTTAGGAAGCCTAATTATCCTAAAACCTGTAACCTTATAGCTTAT
1 AAAATTTTAGGAAGCCTAATTATCCTAAAACCTGTAACCTTATAGCTTAT
627143 AAAATTTTAGGAAGCCTAATTATCCTAAAACCTGTAACCTTATAGCTTAT
1 AAAATTTTAGGAAGCCTAATTATCCTAAAACCTGTAACCTTATAGCTTAT
627193 AAAATTTT
1 AAAATTTT
627201 TAATACTTCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (50 bp):
AAAATTTTAGGAAGCCTAATTATCCTAAAACCTGTAACCTTATAGCTTAT
Found at i:627817 original size:35 final size:35
Alignment explanation
Indices: 627773--627842 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
627763 AATATGATAT
627773 TTTAAAAAATAAT-TATCTAATA-AATTTTTTAAAA
1 TTTAAAAAATAATATAT-TAATATAATTTTTTAAAA
627807 TTTAATAAAATAATATATTAATATAATTTTTTAAAA
1 TTTAA-AAAATAATATATTAATATAATTTTTTAAAA
627843 ATAATAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 5 0.15
35 13 0.39
36 15 0.45
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (35 bp):
TTTAAAAAATAATATATTAATATAATTTTTTAAAA
Found at i:627865 original size:37 final size:35
Alignment explanation
Indices: 627778--627849 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
627768 GATATTTTAA
*
627778 AAAATAAT-TATCTAATAAATTTTTTAAAATTTAAT
1 AAAATAATATAT-TAATAAATTTTTTAAAATATAAT
627813 AAAATAATATATTAATATAATTTTTTAAAA-ATAAT
1 AAAATAATATATTAATA-AATTTTTTAAAATATAAT
627848 AA
1 AA
627850 TTAAATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
AAAATAATATATTAATAAATTTTTTAAAATATAAT
Found at i:628537 original size:23 final size:25
Alignment explanation
Indices: 628488--628534 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
628478 ATTACATATT
628488 TTATATATTTGTATTTTTATTTTTG
1 TTATATATTTGTATTTTTATTTTTG
*
628513 TTATAT-TTTTTATTTTTATTTT
1 TTATATATTTGTATTTTTATTTT
628535 GTTTACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (25 bp):
TTATATATTTGTATTTTTATTTTTG
Found at i:629197 original size:3 final size:3
Alignment explanation
Indices: 629189--629223 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
629179 GAAATGGAAA
629189 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
629224 ATTAGTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:629891 original size:13 final size:12
Alignment explanation
Indices: 629867--629903 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
629857 GCAGAATAAA
629867 TTATTAAA--AT
1 TTATTAAATTAT
629877 TTATTAAATTCAT
1 TTATTAAATT-AT
629890 TTATTAAATTAT
1 TTATTAAATTAT
629902 TT
1 TT
629904 TAAGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.33
12 4 0.17
13 12 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATTAAATTAT
Found at i:630330 original size:18 final size:18
Alignment explanation
Indices: 630307--630353 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
630297 TTTGAACAAG
*
630307 ATATGAATATAATATAAA
1 ATATGAATATAACATAAA
*
630325 ATATG-ATATGACATAAA
1 ATATGAATATAACATAAA
* *
630342 AAATTAATATAA
1 ATATGAATATAA
630354 ACACGACATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (18 bp):
ATATGAATATAACATAAA
Found at i:632003 original size:112 final size:109
Alignment explanation
Indices: 631883--632094 Score: 354
Period size: 112 Copynumber: 1.9 Consensus size: 109
631873 AATTTTTTAT
*
631883 TTTTTTAAAATATTTACATTTGTTGTAACATATATTAATACTTATTTTCTAAAAAAATATGTCAG
1 TTTTTTAAAATATTTACATTTGTTGTAACATATATTAATACTTA-TTT-TAAAAAAA-ATGTCAC
*
631948 TATTG-AATCTCTATTTCTCAATATATATATATATATATTAATACTTA
63 TA-TGAAATCTCTATTCCTCAATATATATATATATATATTAATACTTA
*
631995 TTTTTTAAAATATTTACATTTGTTGTAACATATATTAATACTTATTTTATAAAAAATGTCACTAT
1 TTTTTTAAAATATTTACATTTGTTGTAACATATATTAATACTTATTTTAAAAAAAATGTCACTAT
632060 GAAATCTCTATTCCTCAATATATATATATATATAT
66 GAAATCTCTATTCCTCAATATATATATATATATAT
632095 ATAAATATTA
Statistics
Matches: 96, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
108 2 0.02
109 40 0.42
110 7 0.07
111 3 0.03
112 44 0.46
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (109 bp):
TTTTTTAAAATATTTACATTTGTTGTAACATATATTAATACTTATTTTAAAAAAAATGTCACTAT
GAAATCTCTATTCCTCAATATATATATATATATATTAATACTTA
Found at i:632007 original size:22 final size:22
Alignment explanation
Indices: 631982--632048 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
631972 ATATATATAT
631982 ATATTAATACTTATTTTTTAAA
1 ATATTAATACTTATTTTTTAAA
632004 ATATT--TAC--ATTTGTTGTAACA
1 ATATTAATACTTATTT-TT-TAA-A
*
632025 TATATTAATACTTATTTTATAAA
1 -ATATTAATACTTATTTTTTAAA
632048 A
1 A
632049 AATGTCACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 6 0.17
21 1 0.03
22 11 0.31
23 1 0.03
24 6 0.17
25 1 0.03
26 4 0.11
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (22 bp):
ATATTAATACTTATTTTTTAAA
Found at i:634431 original size:24 final size:24
Alignment explanation
Indices: 634404--634465 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
634394 TTAATTTTAA
634404 AATTTTAAAATAATATA-ATATATT
1 AATTTTAAAATAATATATATA-ATT
634428 AATTTTAAAATTAATATATATAATT
1 AATTTTAAAA-TAATATATATAATT
* *
634453 AAATTAAAAATAA
1 AATTTTAAAATAA
634466 ATTAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 13 0.38
25 18 0.53
26 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTTTAAAATAATATATATAATT
Found at i:634516 original size:13 final size:14
Alignment explanation
Indices: 634480--634509 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
634470 AAAATATTTT
*
634480 TTTATATAAAAAAA
1 TTTAAATAAAAAAA
634494 TTTAAATAAAAAAA
1 TTTAAATAAAAAAA
634508 TT
1 TT
634510 ACTTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTAAATAAAAAAA
Found at i:634663 original size:21 final size:21
Alignment explanation
Indices: 634637--634700 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 21
634627 AATTATATTT
634637 TAATTTGATAATAATTAAAAA
1 TAATTTGATAATAATTAAAAA
634658 TAATTT--T-ATAATTAAAAA
1 TAATTTGATAATAATTAAAAA
* * *
634676 TATTTTGAGTAAAAAATAAAAA
1 TAATTTGA-TAATAATTAAAAA
634698 TAA
1 TAA
634701 ATAATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 16 0.46
19 1 0.03
21 7 0.20
22 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TAATTTGATAATAATTAAAAA
Found at i:641906 original size:11 final size:10
Alignment explanation
Indices: 641879--641911 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
641869 TTTATTGATA
641879 ATATATAATT
1 ATATATAATT
641889 A-ATATAATT
1 ATATATAATT
641898 ATATAATAATT
1 ATAT-ATAATT
641909 ATA
1 ATA
641912 AAAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 3 0.14
11 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATATAATT
Found at i:642130 original size:16 final size:16
Alignment explanation
Indices: 642110--642164 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
642100 GAGTTATATG
642110 AATTTTAAATTTTTTA
1 AATTTTAAATTTTTTA
*
642126 TA-TTTAAATTTTTTTA
1 AATTTTAAA-TTTTTTA
*
642142 AATTTAAATATTTTTTA
1 AATTTTAA-ATTTTTTA
642159 AATTTT
1 AATTTT
642165 TTAATTAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 6 0.19
16 9 0.28
17 16 0.50
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTAAATTTTTTA
Found at i:642155 original size:17 final size:17
Alignment explanation
Indices: 642118--642163 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
642108 TGAATTTTAA
*
642118 ATTTTTTATATTTAAAT
1 ATTTTTTAAATTTAAAT
642135 -TTTTTTAAATTTAAAT
1 ATTTTTTAAATTTAAAT
642151 ATTTTTTAAATTT
1 ATTTTTTAAATTT
642164 TTTAATTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTTAAATTTAAAT
Found at i:646373 original size:15 final size:15
Alignment explanation
Indices: 646353--646386 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
646343 GGAATAATAT
*
646353 ATTAATATTCCAACA
1 ATTAATATTACAACA
*
646368 ATTAATATTACACCA
1 ATTAATATTACAACA
646383 ATTA
1 ATTA
646387 CATTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAATATTACAACA
Found at i:646409 original size:104 final size:105
Alignment explanation
Indices: 646285--646480 Score: 313
Period size: 104 Copynumber: 1.9 Consensus size: 105
646275 TGTTAAACCT
* * * * *
646285 TTTTTTTTTTTTTATGGAACCATGTTAAGATGAAAAATAAATAAATATAATTTTCGATGGAAT-A
1 TTTTTGTTTTTTGATAGAACCATGTTAAGATGAAAAACAAATAAATATAATTTTCAATGGAATAA
*
646349 ATATATTAATATTCCAACAATTAATATTACACCAATTACA
66 ATAAATTAATATTCCAACAATTAATATTACACCAATTACA
*
646389 TTTTTGTTTTTTGATAGAACCATGTTAAGATGAAAAACAAATGAATATAATTTTCAATGGAATAA
1 TTTTTGTTTTTTGATAGAACCATGTTAAGATGAAAAACAAATAAATATAATTTTCAATGGAATAA
*
646454 ATAAATTAATATTCCTACAATTAATAT
66 ATAAATTAATATTCCAACAATTAATAT
646481 ATTTTCAATC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
104 57 0.69
105 26 0.31
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (105 bp):
TTTTTGTTTTTTGATAGAACCATGTTAAGATGAAAAACAAATAAATATAATTTTCAATGGAATAA
ATAAATTAATATTCCAACAATTAATATTACACCAATTACA
Found at i:648491 original size:15 final size:17
Alignment explanation
Indices: 648455--648497 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
648445 TTTAATATTC
*
648455 ATAAAACTTTTAATTAA
1 ATAAAACTTATAATTAA
648472 ATAAAA-TTATAATT-A
1 ATAAAACTTATAATTAA
*
648487 ATAAAAGTTAT
1 ATAAAACTTAT
648498 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAAACTTATAATTAA
Found at i:649033 original size:15 final size:16
Alignment explanation
Indices: 649008--649037 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
648998 ACATATATTT
649008 TTTCTCTTTTTCTTTC
1 TTTCTCTTTTTCTTTC
649024 TTTC-CTTTTTCTTT
1 TTTCTCTTTTTCTTT
649038 TTTTATAAAA
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTC
Found at i:649446 original size:23 final size:24
Alignment explanation
Indices: 649420--649481 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
649410 AAAATATGAC
* *
649420 ATAAAAAATAATTAAAACA-TAAT
1 ATAAAAAATAAATAAAACACGAAT
*
649443 ATAAAAAATAAATATAACACGAAT
1 ATAAAAAATAAATAAAACACGAAT
*
649467 AT-AAAAATATATAAA
1 ATAAAAAATAAATAAA
649482 TATATATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (24 bp):
ATAAAAAATAAATAAAACACGAAT
Found at i:649456 original size:13 final size:12
Alignment explanation
Indices: 649420--649459 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
649410 AAAATATGAC
649420 ATAAAAAATAAT
1 ATAAAAAATAAT
*
649432 -TAAAACATAAT
1 ATAAAAAATAAT
649443 ATAAAAAATAAAT
1 ATAAAAAAT-AAT
649456 ATAA
1 ATAA
649460 CACGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 7 0.29
13 7 0.29
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAAAAAATAAT
Found at i:650373 original size:10 final size:10
Alignment explanation
Indices: 650358--650415 Score: 64
Period size: 10 Copynumber: 5.5 Consensus size: 10
650348 AAATACACGT
650358 ATATATAAAA
1 ATATATAAAA
650368 ATATATATAAA
1 ATATATA-AAA
*
650379 ATAAAATAAATTA
1 AT-ATATAAA--A
650392 ATATATAAAA
1 ATATATAAAA
650402 ATATA-AAAA
1 ATATATAAAA
650411 ATATA
1 ATATA
650416 ATATTCTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 9 0.21
10 13 0.31
11 7 0.17
12 10 0.24
13 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATATATAAAA
Found at i:650388 original size:22 final size:22
Alignment explanation
Indices: 650362--650442 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 22
650352 ACACGTATAT
650362 ATAAA-AATATATATAAAATAAA
1 ATAAATAATATATA-AAAATAAA
650384 ATAAATTAATATATAAAAATATAA
1 ATAAA-TAATATATAAAAATA-AA
* * * *
650408 AAAATATAATATTCTAAATACAAA
1 ATAA-ATAATA-TATAAAAATAAA
650432 AT-AATAATATA
1 ATAAATAATATA
650443 AATATCAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.02
22 11 0.23
23 7 0.15
24 21 0.44
25 8 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAAATAATATATAAAAATAAA
Found at i:650417 original size:24 final size:24
Alignment explanation
Indices: 650367--650419 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
650357 TATATATAAA
650367 AATATATATAAAATAAAATAAATT
1 AATATATATAAAATAAAATAAATT
650391 AATATATA-AAAATATAAA-AAATAT
1 AATATATATAAAATA-AAATAAAT-T
650415 AATAT
1 AATAT
650420 TCTAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATATATATAAAATAAAATAAATT
Found at i:650444 original size:19 final size:18
Alignment explanation
Indices: 650362--650446 Score: 52
Period size: 17 Copynumber: 4.8 Consensus size: 18
650352 ACACGTATAT
* *
650362 ATAAAAATATATAT-AAA
1 ATAATAATATAAATAAAA
* *
650379 ATAA-AATA-AATTAATAT
1 ATAATAATATAAATAA-AA
* *
650396 ATAAAAATATAAA-AAAT
1 ATAATAATATAAATAAAA
* *
650413 ATAATATTCTAAATACAAA
1 ATAATAATATAAATA-AAA
650432 ATAATAATATAAATA
1 ATAATAATATAAATA
650447 TCAACATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 21 0.40
18 7 0.13
19 17 0.33
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATAATATAAATAAAA
Found at i:650558 original size:10 final size:10
Alignment explanation
Indices: 650543--650586 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
650533 CCACGTCTCT
650543 TTTTTTTTTC
1 TTTTTTTTTC
650553 TTTTTTTTTC
1 TTTTTTTTTC
* *
650563 CTTTTTCTTC
1 TTTTTTTTTC
650573 TTTTTTCTTTC
1 TTTTTT-TTTC
650584 TTT
1 TTT
650587 CTCCCTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 23 0.79
11 6 0.21
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:650569 original size:17 final size:17
Alignment explanation
Indices: 650547--650579 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
650537 GTCTCTTTTT
*
650547 TTTTTCTTTTTTTTTCC
1 TTTTTCTTCTTTTTTCC
650564 TTTTTCTTCTTTTTTC
1 TTTTTCTTCTTTTTTC
650580 TTTCTTTCTC
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:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTCTTTTTTCC
Found at i:650791 original size:14 final size:15
Alignment explanation
Indices: 650761--650793 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
650751 ATCATCTTTG
650761 TTTAAACAAATTAAA
1 TTTAAACAAATTAAA
*
650776 TTTAAATAAA-TAAA
1 TTTAAACAAATTAAA
650790 TTTA
1 TTTA
650794 TATTTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAACAAATTAAA
Found at i:652339 original size:17 final size:16
Alignment explanation
Indices: 652312--652345 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
652302 GATCGTATTT
*
652312 TATATTTATATTTAAA
1 TATATTTATATATAAA
652328 TATATATTATATATAAA
1 TATAT-TTATATATAAA
652345 T
1 T
652346 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTTATATATAAA
Found at i:652367 original size:16 final size:16
Alignment explanation
Indices: 652346--652376 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
652336 ATATATAAAT
652346 TTTAAAAAATAAAAAC
1 TTTAAAAAATAAAAAC
652362 TTTAAAAAATAAAAA
1 TTTAAAAAATAAAAA
652377 ATCAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
TTTAAAAAATAAAAAC
Found at i:653399 original size:2 final size:2
Alignment explanation
Indices: 653386--653417 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
653376 TAGATAAGGA
*
653386 AT AT AA 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
653418 GTACGATTTT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:654137 original size:15 final size:15
Alignment explanation
Indices: 654113--654148 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
654103 ATAGTGATTA
*
654113 TTATATTATCTAAAT
1 TTATAATATCTAAAT
654128 TTATAATATCTAAAT
1 TTATAATATCTAAAT
*
654143 CTATAA
1 TTATAA
654149 AAAAGTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAATATCTAAAT
Found at i:656458 original size:23 final size:23
Alignment explanation
Indices: 656432--656487 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
656422 CTAAAGTTTT
*
656432 AAATTTTTTAAATAAAATTAATA
1 AAATTTTATAAATAAAATTAATA
656455 AAATTTTATAAATAAAATTAATA
1 AAATTTTATAAATAAAATTAATA
*
656478 AAATTATATA
1 AAATTTTATA
656488 TATTTACTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTTTATAAATAAAATTAATA
Found at i:657173 original size:20 final size:20
Alignment explanation
Indices: 657150--657219 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
657140 ATAAATTATT
657150 AATATATTAAAATTTATATA
1 AATATATTAAAATTTATATA
*
657170 AATATA-TAATA-TT-T-TA
1 AATATATTAAAATTTATATA
* *
657186 AATATAATTATAATTTATAAA
1 AATAT-ATTAAAATTTATATA
657207 AATATATTAAAAT
1 AATATATTAAAAT
657220 GATAAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 7 0.17
17 2 0.05
18 5 0.12
19 6 0.15
20 14 0.35
21 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATATTAAAATTTATATA
Found at i:657210 original size:37 final size:35
Alignment explanation
Indices: 657122--657213 Score: 109
Period size: 37 Copynumber: 2.7 Consensus size: 35
657112 AAATAAATTA
*
657122 AATTAAAATTTAT-ATAATATA-AATTATTAATAT
1 AATTAAAATTTATAAAAATATATAATTATTAATAT
* *
657155 -ATTAAAATTTATATAAATATATAATATTTTAAATAT
1 AATTAAAATTTATAAAAATATATAAT-TATT-AATAT
*
657191 AATTATAATTTATAAAAATATAT
1 AATTAAAATTTATAAAAATATAT
657214 TAAAATGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 12 0.24
33 6 0.12
34 3 0.06
35 3 0.06
36 5 0.10
37 20 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
AATTAAAATTTATAAAAATATATAATTATTAATAT
Found at i:659189 original size:20 final size:22
Alignment explanation
Indices: 659156--659195 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
659146 ATTTTTAAGT
659156 AATATAATATTTATTTTATATA
1 AATATAATATTTATTTTATATA
659178 AATA-AATA-TTATTTTATA
1 AATATAATATTTATTTTATA
659196 ATATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATAATATTTATTTTATATA
Found at i:659279 original size:14 final size:15
Alignment explanation
Indices: 659256--659293 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
659246 TTTTTAATCA
*
659256 ATATAAAATTTA-AC
1 ATATATAATTTACAC
659270 ATATATAATTTACAC
1 ATATATAATTTACAC
*
659285 AAATATAAT
1 ATATATAAT
659294 ATCAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATATAATTTACAC
Found at i:659490 original size:15 final size:14
Alignment explanation
Indices: 659464--659495 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
659454 ATTTAAAAAT
659464 ATAAAAATAATATA
1 ATAAAAATAATATA
659478 ATAAAATATAATATA
1 ATAAAA-ATAATATA
659493 ATA
1 ATA
659496 CAATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAAAATAATATA
Found at i:664902 original size:27 final size:27
Alignment explanation
Indices: 664867--664932 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
664857 AATTTAAATA
* *
664867 TTATAATAATATTTAAAATATTATTTAT
1 TTAT-ATAATATTTAAAATATTAATAAT
* * *
664895 TTATATAAAATTTTATATATTAATAAT
1 TTATATAATATTTAAAATATTAATAAT
*
664922 TTATATTATAT
1 TTATATAATAT
664933 AAATTTTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATATAATATTTAAAATATTAATAAT
Found at i:664932 original size:5 final size:5
Alignment explanation
Indices: 664884--665022 Score: 53
Period size: 5 Copynumber: 28.8 Consensus size: 5
664874 AATATTTAAA
* * * *
664884 ATATT AT-TT AT-TT ATATA AAATT TTA-T ATATT A-ATA AT-TT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
* * * * *
664929 ATA-T AAATT TTAAT ATATT -CA-T ATATT ATAATT -TATTT ATATT ATTTTT
1 ATATT ATATT ATATT ATATT ATATT ATATT AT-ATT ATA-TT ATATT A-TATT
* * * * *
664978 ATATT ATATT ATTTT ATTTT ATTTT ATTTT AGTTTT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT A-TATT ATATT ATAT
665023 AAAAGTTTTC
Statistics
Matches: 102, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
3 1 0.01
4 23 0.23
5 64 0.63
6 14 0.14
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.62
Consensus pattern (5 bp):
ATATT
Found at i:664945 original size:14 final size:15
Alignment explanation
Indices: 664896--664946 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
664886 ATTATTTATT
664896 TATATAAAATTTT-A
1 TATATAAAATTTTAA
*
664910 TATATTAATAATTTATAT
1 TATA-TAA-AATTT-TAA
664928 TATAT-AAATTTTAA
1 TATATAAAATTTTAA
664942 TATAT
1 TATAT
664947 TCATATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 11 0.35
15 8 0.26
16 6 0.19
17 2 0.06
18 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATAAAATTTTAA
Found at i:664971 original size:16 final size:16
Alignment explanation
Indices: 664864--665021 Score: 67
Period size: 16 Copynumber: 9.5 Consensus size: 16
664854 GTAAATTTAA
*
664864 ATATTATAATAATATTT
1 ATATTATAAT-TTATTT
* * *
664881 AAAATATTATTTATTT
1 ATATTATAATTTATTT
* *
664897 ATA-TAAAATTT-TAT
1 ATATTATAATTTATTT
664911 ATATTAATAATTTATATTAT
1 ATATT-ATAA-TT-TATT-T
* *
664931 ATAAATTTTAATATATTCAT
1 AT--ATTATAATTTATT--T
664951 ATATTATAATTTATTT
1 ATATTATAATTTATTT
*
664967 ATATTAT-TTTTATATT
1 ATATTATAATTTAT-TT
664983 ATATTAT--TTTATTT
1 ATATTATAATTTATTT
* *
664997 -TATTTTATTTTAGTTTT
1 ATATTATAATTTA--TTT
665014 ATATTATA
1 ATATTATA
665022 TAAAAGTTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
13 5 0.05
14 7 0.06
15 21 0.19
16 27 0.25
17 12 0.11
18 18 0.17
19 5 0.05
20 8 0.07
21 3 0.03
22 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
ATATTATAATTTATTT
Found at i:664986 original size:32 final size:33
Alignment explanation
Indices: 664889--664996 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 33
664879 TTAAAATATT
* *
664889 ATTTATTTATATAAAATTTTATA-TAT-TAATA
1 ATTTATTTATATAAATTTTTATATTATATTATA
664920 ATTTATATTATATAAATTTTAATATATTCATATATTATA
1 ATTTAT-TTATATAAATTTT--TATA-T--TATATTATA
*
664959 ATTTATTTATAT-TATTTTTATATTATATTAT-
1 ATTTATTTATATAAATTTTTATATTATATTATA
664990 -TTTATTT
1 ATTTATTT
664997 TATTTTATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
30 7 0.11
31 6 0.09
32 20 0.30
34 5 0.08
35 4 0.06
37 5 0.08
38 9 0.14
39 10 0.15
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (33 bp):
ATTTATTTATATAAATTTTTATATTATATTATA
Found at i:665699 original size:11 final size:11
Alignment explanation
Indices: 665683--665716 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
665673 AAATATTATT
665683 ATATAAATATA
1 ATATAAATATA
*
665694 ATATAAATAAA
1 ATATAAATATA
665705 ATATTAAATATA
1 ATA-TAAATATA
665717 TAATTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAATATA
Found at i:665794 original size:17 final size:17
Alignment explanation
Indices: 665767--665841 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 17
665757 ATAAATTTTT
665767 AATATATTAAAATTATATA
1 AATATA-TAAAA-TATATA
*
665786 AAT-TATAAAATATTTA
1 AATATATAAAATATATA
*
665802 AATATATATAATATAATA
1 AATATATAAAATAT-ATA
*
665820 TAATATATAAATATAAATA
1 -AATATATAAA-ATATATA
665839 AAT
1 AAT
665842 TTATTTATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 8 0.17
17 14 0.30
18 7 0.15
19 15 0.32
20 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATATAAAATATATA
Found at i:665820 original size:10 final size:9
Alignment explanation
Indices: 665766--665839 Score: 57
Period size: 10 Copynumber: 8.3 Consensus size: 9
665756 AATAAATTTT
665766 TAATATAT-
1 TAATATATA
*
665774 TAAAATTATA
1 TAATA-TATA
665784 TAA-AT-TA
1 TAATATATA
* *
665791 TAAAATATT
1 TAATATATA
665800 TAAATATATA
1 T-AATATATA
665810 TAATATAATA
1 TAATAT-ATA
665820 TAATATATA
1 TAATATATA
*
665829 -AATATAAA
1 TAATATATA
665837 TAA
1 TAA
665840 ATTTATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
7 5 0.09
8 14 0.26
9 16 0.30
10 19 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TAATATATA
Found at i:665824 original size:27 final size:26
Alignment explanation
Indices: 665770--665841 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 26
665760 AATTTTTAAT
* *
665770 ATATTAAAAT-TATATAAATTATAAA
1 ATATTTAAATATATATAAATAATAAA
*
665795 ATATTTAAATATATATAATATAATATA
1 ATATTTAAATATATATAA-ATAATAAA
* *
665822 ATATATAAATATAAATAAAT
1 ATATTTAAATATATATAAAT
665842 TTATTTATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 9 0.22
26 9 0.22
27 22 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATTTAAATATATATAAATAATAAA
Found at i:667315 original size:15 final size:13
Alignment explanation
Indices: 667293--667326 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
667283 AAAAATAATA
667293 TAATATAT-TTATT
1 TAATATATATTA-T
667306 TAATATATATTAT
1 TAATATATATTAT
667319 TAATATAT
1 TAATATAT
667327 TAAATTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATATATATTAT
Found at i:678420 original size:28 final size:27
Alignment explanation
Indices: 678389--678452 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
678379 CATTTTTTAC
678389 ATACAAAAATAA-TCACCATATTTGACAA
1 ATACAAAAA-AACT-ACCATATTTGACAA
*
678417 ATACAAAGGAAACTACCATATTTGACAA
1 ATACAAA-AAAACTACCATATTTGACAA
678445 ATACAAAA
1 ATACAAAA
678453 GGTGACATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.22
Consensus pattern (27 bp):
ATACAAAAAAACTACCATATTTGACAA
Found at i:680374 original size:19 final size:19
Alignment explanation
Indices: 680339--680388 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
680329 TTAAATTTTA
*
680339 AAATTAAATTTATATAAAT
1 AAATTAATTTTATATAAAT
*
680358 ATAATTAATTTTA-ATAATT
1 A-AATTAATTTTATATAAAT
*
680377 AAAATAATTTTA
1 AAATTAATTTTA
680389 CTTACAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTAATTTTATATAAAT
Found at i:682215 original size:2 final size:2
Alignment explanation
Indices: 682208--682244 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
682198 TTGTGATTAT
682208 TA TA TA TA T- 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
682245 AGTATAGATG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:683989 original size:119 final size:119
Alignment explanation
Indices: 683778--684016 Score: 442
Period size: 119 Copynumber: 2.0 Consensus size: 119
683768 CCTTTGTTTC
683778 TGATTTAACTATTCTTTTCTGGGTAGTTTTTCTGACGCTGCTTCTTGGTAGCTGGGAAAGTGCTG
1 TGATTTAACTATTCTTTTCTGGGTAGTTTTTCTGACGCTGCTTCTTGGTAGCTGGGAAAGTGCTG
683843 ACAGGTTTTAGATTTTCCAGTAGGAATTAAAGAAACCTCGAATTTTAGTAATAA
66 ACAGGTTTTAGATTTTCCAGTAGGAATTAAAGAAACCTCGAATTTTAGTAATAA
*
683897 TGATTTAACTTTTCTTTTCTGGGTAGTTTTTCTGACGCTGCTTCTTGGTAGCTGGGAAAGTGCTG
1 TGATTTAACTATTCTTTTCTGGGTAGTTTTTCTGACGCTGCTTCTTGGTAGCTGGGAAAGTGCTG
* * *
683962 ACAGTTTTTAGATTTTCCAGTAGGAATTAAAGAAAGCTCGAGTTTTAGTAATAA
66 ACAGGTTTTAGATTTTCCAGTAGGAATTAAAGAAACCTCGAATTTTAGTAATAA
684016 T
1 T
684017 TAGAGTTTAT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (119 bp):
TGATTTAACTATTCTTTTCTGGGTAGTTTTTCTGACGCTGCTTCTTGGTAGCTGGGAAAGTGCTG
ACAGGTTTTAGATTTTCCAGTAGGAATTAAAGAAACCTCGAATTTTAGTAATAA
Found at i:691363 original size:15 final size:15
Alignment explanation
Indices: 691343--691389 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
691333 CCCTTACAGT
691343 GAGACTTGAGGAATG
1 GAGACTTGAGGAATG
* *
691358 GAGACTTAAGCGAAGG
1 GAGACTTGAG-GAATG
*
691374 GACAC-TGAGGAATG
1 GAGACTTGAGGAATG
691388 GA
1 GA
691390 TGAGCCATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 6 0.23
15 12 0.46
16 8 0.31
ACGTcount: A:0.36, C:0.11, G:0.38, T:0.15
Consensus pattern (15 bp):
GAGACTTGAGGAATG
Found at i:693953 original size:21 final size:21
Alignment explanation
Indices: 693906--693953 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
693896 TATGAATTAA
* **
693906 ATTTTTTAAAATAATTAAATT
1 ATTTTTAAAAATAAAAAAATT
693927 -TCTTTTAAAAATAAAAAAATT
1 AT-TTTTAAAAATAAAAAAATT
693948 ATTTTT
1 ATTTTT
693954 TGAATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.05
21 20 0.91
22 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTTAAAAATAAAAAAATT
Found at i:693963 original size:20 final size:20
Alignment explanation
Indices: 693940--693979 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
693930 TTTAAAAATA
693940 AAAAAATT-ATTTTTTGAATT
1 AAAAAATTAATTTTTT-AATT
693960 AAAAAATTAATTTTTTAATT
1 AAAAAATTAATTTTTTAATT
693980 TTTCTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAAAATTAATTTTTTAATT
Found at i:695599 original size:19 final size:19
Alignment explanation
Indices: 695557--695601 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
695547 TTGAACAAGA
695557 AAAGAAAGAGAAAAACATG
1 AAAGAAAGAGAAAAACATG
* *
695576 GAAGAAGAGAGAAGAA-ATG
1 AAAGAA-AGAGAAAAACATG
695595 AAAGAAA
1 AAAGAAA
695602 AAAGAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (19 bp):
AAAGAAAGAGAAAAACATG
Found at i:695614 original size:12 final size:12
Alignment explanation
Indices: 695580--695653 Score: 60
Period size: 12 Copynumber: 6.2 Consensus size: 12
695570 AACATGGAAG
* *
695580 AAGAGAGAAGAA
1 AAGAAAGAAAAA
*
695592 ATGAAAG-AAAA
1 AAGAAAGAAAAA
695603 AAGAAAGAAAAA
1 AAGAAAGAAAAA
* *
695615 AGAAAAACAAAAA
1 A-AGAAAGAAAAA
* *
695628 AAGAATGAGAAA
1 AAGAAAGAAAAA
*
695640 AAGAGAGAAAAA
1 AAGAAAGAAAAA
695652 AA
1 AA
695654 ATGTAGCTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
11 9 0.19
12 28 0.60
13 10 0.21
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (12 bp):
AAGAAAGAAAAA
Found at i:695652 original size:11 final size:11
Alignment explanation
Indices: 695580--695632 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
695570 AACATGGAAG
*
695580 AAGAGAGAAGAA
1 AAGAAAGAA-AA
*
695592 ATGAAAGAAAA
1 AAGAAAGAAAA
695603 AAGAAAGAAAA
1 AAGAAAGAAAA
695614 AAGAAA-AACAA
1 AAGAAAGAA-AA
695625 AA-AAAGAA
1 AAGAAAGAA
695633 TGAGAAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.14
11 24 0.67
12 7 0.19
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:698226 original size:24 final size:24
Alignment explanation
Indices: 698194--698248 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
698184 CACATGTATC
* *
698194 GATACATGAACAGTGATGAACAGT
1 GATATATGAACAGTGATGAACAAT
*
698218 GATATATGAATAGTGATGAACAAT
1 GATATATGAACAGTGATGAACAAT
*
698242 AATATAT
1 GATATAT
698249 CAATTAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.27
Consensus pattern (24 bp):
GATATATGAACAGTGATGAACAAT
Found at i:698301 original size:13 final size:13
Alignment explanation
Indices: 698283--698307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
698273 TGTCAGTTTT
698283 ATGTATCGATACA
1 ATGTATCGATACA
698296 ATGTATCGATAC
1 ATGTATCGATAC
698308 CAAGCAATAT
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):
ATGTATCGATACA
Found at i:703078 original size:19 final size:19
Alignment explanation
Indices: 703052--703090 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
703042 ATTCAATGAG
*
703052 ATGCTGG-ACATATTAAAA
1 ATGCTGGAACATAGTAAAA
703070 ATGCATGGAACATAGTAAAA
1 ATGC-TGGAACATAGTAAAA
703090 A
1 A
703091 AATGCGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (19 bp):
ATGCTGGAACATAGTAAAA
Found at i:703989 original size:20 final size:20
Alignment explanation
Indices: 703964--704089 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
703954 TTTTAACTAG
703964 ATGTATCGATACATTAAAAA
1 ATGTATCGATACATTAAAAA
703984 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACA--T---T---AA-A-A-A
* *
704015 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTAAAAA
* *
704035 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTAAAAA
* * *
704055 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTAAAAA
*
704075 ATGTATGGATACATT
1 ATGTATCGATACATT
704090 GAAATATCGA
Statistics
Matches: 88, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
20 64 0.73
22 2 0.02
23 1 0.01
25 1 0.01
26 1 0.01
28 2 0.02
29 2 0.02
30 1 0.01
31 14 0.16
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTAAAAA
Found at i:704067 original size:40 final size:40
Alignment explanation
Indices: 704012--704092 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
704002 GTAAAAAGAC
*
704012 AGAATGTATCGATACATTGA-AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTCATA-AATGTATCGATACATTGA
* *
704052 AGAATGTATCGATACATTCATACATGTATGGATACATTGA
1 AGAATGTATCGATACATTCATAAATGTATCGATACATTGA
704092 A
1 A
704093 ATATCGACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.31
Consensus pattern (40 bp):
AGAATGTATCGATACATTCATAAATGTATCGATACATTGA
Found at i:708336 original size:19 final size:20
Alignment explanation
Indices: 708291--708346 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
708281 CTGTCAGTTT
* *
708291 CATGTATCGATACAATCATG
1 CATGTATCGATACAATGATA
*
708311 TATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
*
708330 CATGTATCGATATAATG
1 CATGTATCGATACAATG
708347 TATCAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:713639 original size:19 final size:21
Alignment explanation
Indices: 713591--713645 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
713581 AATTTCAATA
*
713591 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
713612 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
*
713632 -TTTGTATCAATACA
1 ATTTGTATCGATACA
713646 ATGTATCGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:713696 original size:21 final size:21
Alignment explanation
Indices: 713670--713711 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
713660 AGCTACTACC
713670 AAGGAAATCTATCGATACATT
1 AAGGAAATCTATCGATACATT
*
713691 AAGGAAATGTATCGATACATT
1 AAGGAAATCTATCGATACATT
713712 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
AAGGAAATCTATCGATACATT
Found at i:713716 original size:13 final size:13
Alignment explanation
Indices: 713698--713723 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
713688 ATTAAGGAAA
713698 TGTATCGATACAT
1 TGTATCGATACAT
713711 TGTATCGATACAT
1 TGTATCGATACAT
713724 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:716162 original size:51 final size:51
Alignment explanation
Indices: 716089--716224 Score: 184
Period size: 51 Copynumber: 2.6 Consensus size: 51
716079 TTAAGTTTCT
*
716089 CAATTTTTCATAATCGGAGATACTCTAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCTAACCCCGGTTTTATTTTC-AAAACAC
* * *
716140 TAATTTTTCACAATTGGGGATACTCTAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACAC
* * *
716191 CAATTTTCCTTTAATCGGGGATACTCCAACCCCG
1 CAATTTTTC-ATAATCGGGGATACTCTAACCCCG
716225 TTATTTTTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
51 49 0.67
52 24 0.33
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACAC
Found at i:716292 original size:80 final size:80
Alignment explanation
Indices: 716155--716380 Score: 246
Period size: 80 Copynumber: 2.8 Consensus size: 80
716145 TTTCACAATT
* *
716155 GGGGATACTCTAA-CCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCGGGGATACTCC
1 GGGGATACTCCAACCCCCGGTTTTATTTCT-AAAACACCAATTTTCCTATAATCGGGGATACTCC
* * *
716218 AACCCCGTTATTTTTGA
65 AA-CCCATTATTCTCGA
* *
716235 GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACATCAATTTTTC-ATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACACCAATTTTCCTATAATCGGGGATACTCCA
716299 ACCCATTATTCTCGA
66 ACCCATTATTCTCGA
* * * * * * * *
716314 GTGGATAC-CCGAACCCTCAGTTTTATTTCTAAAACAAGCAATTCTCC-ACAATCGGAGATATTC
1 GGGGATACTCC-AACCCCCGGTTTTATTTCTAAAAC-ACCAATTTTCCTATAATCGGGGATACTC
716377 CAAC
64 CAAC
716381 TCCGATTTTA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.02
79 40 0.32
80 55 0.44
81 28 0.22
82 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (80 bp):
GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACACCAATTTTCCTATAATCGGGGATACTCCA
ACCCATTATTCTCGA
Found at i:716576 original size:79 final size:78
Alignment explanation
Indices: 716444--716677 Score: 215
Period size: 79 Copynumber: 3.0 Consensus size: 78
716434 GTTATTTCAT
** * *
716444 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACT-ACAACCCCGGCTTTATTTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCA-AACCCC-GTTTTATTTCCAAAATA
*
716508 TTGATTTCTCATAAT
64 TTGATTTCTCATAAC
* * * * *
716523 TGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAATCTCGATTTTATTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAACCCCG-TTTTATTTCCAAAAT-A
* * *
716587 TCGATTTTTCACAAC
64 TTGATTTCTCATAAC
* * * *
716602 CGGGGATACTTCAACCCCG-TATTT-TCAAGGGGATACTCTAACCCCGTTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCAAACCCCGTT-TTATTTCCAAAATA
*
716665 TTAAATTTCTCAT
64 TT-GATTTCTCAT
716678 CGAGAAATAT
Statistics
Matches: 122, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
77 3 0.02
78 33 0.27
79 85 0.70
80 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAACCCCGTTTTATTTCCAAAATATT
GATTTCTCATAAC
Found at i:729027 original size:11 final size:11
Alignment explanation
Indices: 729010--729068 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
729000 ATTCTTTTTC
729010 AAAAAAAAA-A
1 AAAAAAAAACA
*
729020 ACAAAAAAACA
1 AAAAAAAAACA
*
729031 AAAAAAAACCA
1 AAAAAAAAACA
*
729042 AAAAAAAACCA
1 AAAAAAAAACA
* *
729053 AAAAACAAAGA
1 AAAAAAAAACA
729064 AAAAA
1 AAAAA
729069 GAGAGAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 8 0.19
11 34 0.81
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:729035 original size:19 final size:18
Alignment explanation
Indices: 729010--729068 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
729000 ATTCTTTTTC
729010 AAAAAAAAAAACAAAAAA
1 AAAAAAAAAAACAAAAAA
*
729028 ACAAAAAAAAACCAAAAAA
1 A-AAAAAAAAAACAAAAAA
**
729047 AAACCAAAAAACAAAGAAA
1 AAAAAAAAAAACAAA-AAA
729066 AAA
1 AAA
729069 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
19 23 0.66
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAAAAAA
Found at i:729044 original size:29 final size:30
Alignment explanation
Indices: 729012--729068 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
729002 TCTTTTTCAA
729012 AAAAAAAAACAAAAAAACAAA-AAAAAACC
1 AAAAAAAAACAAAAAAACAAAGAAAAAACC
*
729041 AAAAAAAAACCAAAAAACAAAGAAAAAA
1 AAAAAAAAACAAAAAAACAAAGAAAAAA
729069 GAGAGAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (30 bp):
AAAAAAAAACAAAAAAACAAAGAAAAAACC
Found at i:730403 original size:61 final size:60
Alignment explanation
Indices: 730178--731103 Score: 1025
Period size: 55 Copynumber: 15.9 Consensus size: 60
730168 CAAGGACGCC
* * *
730178 TTTCAAAG-CCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGC----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* *** * *
730233 TTT-AAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTTTAT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCT
**
730293 TTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTTCT
* *
730352 TTTCAAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGCCTTTT-T
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCT
** * * * *
730412 TTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAAGACGCCTTCTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCT
730471 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTTCT
* ** * * * *
730532 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAAGACGCCTTCTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCT
* *
730592 TTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCATAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTTCT
*
730653 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* *
730708 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTTCT
* *
730769 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAACAGGATGC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* * *
730824 TTTCAAAGTCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTTCT
* * *
730885 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGA--C---ACC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* **
730940 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA--C--ACCT
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* * *
730996 CTT-AAAGCCCACACAAGTTGGTGGCACATTT-CAGTCCTCAAAGAGCAGGACGC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* *
731050 TTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGC
731104 ACCTTATTTT
Statistics
Matches: 764, Mismatches: 70, Indels: 74
0.84 0.08 0.08
Matches are distributed among these distances:
54 11 0.01
55 279 0.37
56 9 0.01
57 1 0.00
58 24 0.03
59 56 0.07
60 136 0.18
61 244 0.32
62 4 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
Found at i:730759 original size:116 final size:115
Alignment explanation
Indices: 730178--731103 Score: 1199
Period size: 116 Copynumber: 7.9 Consensus size: 115
730168 CAAGGACGCC
* * *
730178 TTTCAAAG-CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
* *** * * *
730242 CACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTTTAT
65 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
*
730293 TTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCA
* * *
730357 AAACCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGCCTTTT-T
60 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* * *
730412 TTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGC-AG--G--AT-GCCTTTCA
730476 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
60 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* * * *
730532 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGC-AG--G--AT-GCCTTTCA
* *
730597 AAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCATAGAGCAGGATGCTTTTTCT
60 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
*
730653 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
* *
730718 CACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGATGCTTTTTCT
65 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* * *
730769 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAACAGGATGCCTTTCAAAGTC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
* *
730834 CACACAAGTTGGTGGCATTTTCTAGTCTTCAAAGAGCAGGATGCTTTTTCT
65 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
**
730885 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
* **
730950 CACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA--C---ACCT
65 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* *
730996 CTT-AAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
* *
731060 CACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGC
65 CACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGC
731104 ACCTTATTTT
Statistics
Matches: 744, Mismatches: 46, Indels: 45
0.89 0.06 0.05
Matches are distributed among these distances:
109 1 0.00
110 91 0.12
111 8 0.01
112 1 0.00
114 28 0.04
115 21 0.03
116 264 0.35
117 5 0.01
119 104 0.14
120 58 0.08
121 146 0.20
122 15 0.02
124 1 0.00
125 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (115 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCC
ACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCT
Found at i:730765 original size:27 final size:27
Alignment explanation
Indices: 730680--730765 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
730670 GTTGGTGGCA
*
730680 TTTTCTAGTCCTCAAAGAGCAGGATGC
1 TTTTCTAGTCCTCAAAGAGTAGGATGC
* * * * * *
730707 CTTTCAAAGCCCACACA-AGTTGG-TGGC
1 TTTTC-TAGTCCTCAAAGAGTAGGAT-GC
730734 ATTTTCTAGTCCTCAAAGAGTAGGATGC
1 -TTTTCTAGTCCTCAAAGAGTAGGATGC
730762 TTTT
1 TTTT
730766 TCTTTTCAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
26 1 0.02
27 21 0.51
28 18 0.44
29 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (27 bp):
TTTTCTAGTCCTCAAAGAGTAGGATGC
Found at i:730855 original size:28 final size:28
Alignment explanation
Indices: 730768--730855 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
730758 ATGCTTTTTC
*
730768 TTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAAAGTCCACACAAGTTGGTGGCA
* * **
730796 TTTTC-TAGTCCTCA-AAGAACAGGAT-GC-
1 TTTTCAAAGTCCACACAAG--TTGG-TGGCA
*
730823 CTTTCAAAGTCCACACAAGTTGGTGGCA
1 TTTTCAAAGTCCACACAAGTTGGTGGCA
730851 TTTTC
1 TTTTC
730856 TAGTCTTCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
26 4 0.10
27 14 0.33
28 20 0.48
29 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (28 bp):
TTTTCAAAGTCCACACAAGTTGGTGGCA
Found at i:731253 original size:42 final size:41
Alignment explanation
Indices: 731202--731305 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
731192 CTTTTTCACG
*
731202 TTGTCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTCCT
1 TTGTCCTCAAGAAGCAGGACACTATTCC-ATTC-TCTCTTCCT
* * * *
731244 TTGTCCTCAAGGAGCAAGAC-CTATTTCATTCTCTTTTCCT
1 TTGTCCTCAAGAAGCAGGACACTATTCCATTCTCTCTTCCT
* *
731284 TTGTCCTCAAAAAGTAGGACAC
1 TTGTCCTCAAGAAGCAGGACAC
731306 CCCTTCCATT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 24 0.47
41 6 0.12
42 21 0.41
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (41 bp):
TTGTCCTCAAGAAGCAGGACACTATTCCATTCTCTCTTCCT
Found at i:731928 original size:19 final size:21
Alignment explanation
Indices: 731880--731934 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
731870 AATTTCAATA
*
731880 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
731901 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
731921 -TTTGTATCGATACA
1 ATTTGTATCGATACA
731935 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:731985 original size:21 final size:21
Alignment explanation
Indices: 731959--732000 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
731949 AGCTACTGCC
731959 AAGGAAATCTATCGATACATT
1 AAGGAAATCTATCGATACATT
*
731980 AAGGAAATGTATCGATACATT
1 AAGGAAATCTATCGATACATT
732001 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
AAGGAAATCTATCGATACATT
Found at i:732005 original size:13 final size:13
Alignment explanation
Indices: 731987--732012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
731977 ATTAAGGAAA
731987 TGTATCGATACAT
1 TGTATCGATACAT
732000 TGTATCGATACAT
1 TGTATCGATACAT
732013 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:734419 original size:51 final size:51
Alignment explanation
Indices: 734361--734549 Score: 225
Period size: 51 Copynumber: 3.6 Consensus size: 51
734351 TTAAGTTTCT
* * *
734361 CAATTTTTCATAATCAGGGATACTCCAACCCCGATTTTATTTTTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTAAAAACAC
* * * *
734412 TAATTTTTCACAATCGGGGATACTCCAACGCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTAAAAACAC
* ** * *
734463 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-TAAAAACAC
* *
734516 CAAATTTTCACAATTGGGGGATACTCCAACCCCG
1 CAATTTTTCACAA-TCGGGGATACTCCAACCCCG
734550 TTAATCATCG
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
51 52 0.45
52 31 0.27
53 32 0.28
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTAAAAACAC
Found at i:734640 original size:80 final size:79
Alignment explanation
Indices: 734556--734731 Score: 219
Period size: 79 Copynumber: 2.2 Consensus size: 79
734546 CCCGTTAATC
** * *
734556 ATCGGGGATACTCCAACCCTGTTATTTTTGAGGGAATA-CTCCAACCCTCGGTTTTATTTCTAAA
1 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGAATACCT-CAACCC-CGGTTTTATTTCTAAA
* * * *
734620 ACATCAATTTTTCATA
64 ACAGCAATTCTCCACA
* *
734636 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACCTGAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGAATACCTCAACCCCGGTTTTATTTCTAAAAC
734701 AGCAATTCTCCACA
66 AGCAATTCTCCACA
* *
734715 ATCGGAGATATTCCAAC
1 ATCGGGGATACTCCAAC
734732 TCCGATTTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 43 0.52
80 38 0.46
81 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCATTATTCTCGAGGGAATACCTCAACCCCGGTTTTATTTCTAAAAC
AGCAATTCTCCACA
Found at i:734654 original size:52 final size:51
Alignment explanation
Indices: 734360--734655 Score: 199
Period size: 51 Copynumber: 5.6 Consensus size: 51
734350 GTTAAGTTTC
* * *
734360 TCAATTTTTCATAATCAGGGATACTCCAACCCCGATTTTATTTTTAAAACA
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* *
734411 -CTAATTTTTCACAATCGGGGATACTCCAACGCCGGTTTTATTT-TCAAAACA
1 TC-AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACA
* * * * * *
734462 CCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACA
1 TCAATTTTTC-ATAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACA
* * * * * * ** *
734515 CCAAATTTTCACAATTGGGGGATACTCCAACCCC-G-TTAATCATCGGGGATAC-
1 TCAATTTTTCATAA-TCGGGGATACTCCAACCCCGGTTTTAT-TTC--TAAAACA
* * ** *
734567 TCCAACCCTGTT-ATTTTTGAGGGAATACTCCAACCCTCGGTTTTATTTCTAAAACA
1 T-CAA--TTTTTCATAATCG-GGG-ATACTCCAACCC-CGGTTTTATTTCTAAAACA
734623 TCAATTTTTCATAATCGGGGATACTCCAACCCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCC
734656 ATTATTCTCG
Statistics
Matches: 186, Mismatches: 39, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
50 2 0.01
51 56 0.30
52 45 0.24
53 45 0.24
54 8 0.04
55 21 0.11
56 2 0.01
57 3 0.02
58 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
Found at i:734799 original size:238 final size:238
Alignment explanation
Indices: 734442--734910 Score: 583
Period size: 238 Copynumber: 2.0 Consensus size: 238
734432 TACTCCAACG
* ** *
734442 CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTC
1 CCGGTTTTATTTTCAAAACACCAATTCTCCTACAATCGGAGATACTCCAACTCCGATTTTATTTC
* * *
734507 CAAAAACACCAAATTTTCACAATTGGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAA
66 CAAAAACACCAAATTTTCACAATTCGAGGATACTCCAACCCCATTAATCATCGGGGATACTCCAA
** * * *
734572 CC-CTGTTATTTTTGA-GGGAATACTCCAACCCTCGG-TTTTATTTCTAAAACATCAATTTTTCA
131 CCTC-GTTACCTTCGACGGG-ATACTCCAACCC-CGGCTTAT-TTTC-AAAACATCAATTTCTCA
734634 TAATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACCTGAACC
191 TAATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACCTGAACC
* *
734682 CCGGTTTTA-TTTCTAAAACAGCAATTCTCC-ACAATCGGAGATATTCCAACTCCGATTTTATTT
1 CCGGTTTTATTTTC-AAAACACCAATTCTCCTACAATCGGAGATACTCCAACTCCGATTTTATTT
* ** * *
734745 CC-AAAACACTAGTTTTTCACAA-TCGAGGATACTCCAACCTCATTATTTCATCGGGGATACTCC
65 CCAAAAACACCAAATTTTCACAATTCGAGGATACTCCAACCCCATTA-ATCATCGGGGATACTCC
* * **
734808 AACCTCGTTACCTTCGACGGGATACTCCAACCCCTGCTTATTTTCAAAATATTGATTTCTCATAA
129 AACCTCGTTACCTTCGACGGGATACTCCAACCCCGGCTTATTTTCAAAACATCAATTTCTCATAA
* * * *
734873 TTGGGGATACTCCAACCCCGTTATTTTTGAGGGGATAC
194 TCGGGGATACTCCAACCCCATTATTCTCGAGGGGATAC
734911 TCAAATCCCG
Statistics
Matches: 197, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
236 50 0.25
237 25 0.13
238 60 0.30
239 39 0.20
240 23 0.12
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (238 bp):
CCGGTTTTATTTTCAAAACACCAATTCTCCTACAATCGGAGATACTCCAACTCCGATTTTATTTC
CAAAAACACCAAATTTTCACAATTCGAGGATACTCCAACCCCATTAATCATCGGGGATACTCCAA
CCTCGTTACCTTCGACGGGATACTCCAACCCCGGCTTATTTTCAAAACATCAATTTCTCATAATC
GGGGATACTCCAACCCCATTATTCTCGAGGGGATACCTGAACC
Found at i:734802 original size:28 final size:30
Alignment explanation
Indices: 734766--734839 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 30
734756 GTTTTTCACA
* *
734766 ATCGAGGATACTCCAACCTCATTA-TTTC-
1 ATCGGGGATACTCCAACCTCATTACCTTCG
*
734794 ATCGGGGATACTCCAACCTCGTTACCTTCG
1 ATCGGGGATACTCCAACCTCATTACCTTCG
734824 A-C-GGGATACTCCAACC
1 ATCGGGGATACTCCAACC
734840 CCTGCTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCTCATTACCTTCG
Found at i:736206 original size:15 final size:15
Alignment explanation
Indices: 736188--736222 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
736178 CGAGTCAACT
736188 TCATCATTATCATCA
1 TCATCATTATCATCA
*
736203 TCATCATTATCTTCA
1 TCATCATTATCATCA
736218 TCATC
1 TCATC
736223 TTCGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:738684 original size:12 final size:12
Alignment explanation
Indices: 738667--738691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
738657 TAAATTTAGA
738667 AAAATGATAATG
1 AAAATGATAATG
738679 AAAATGATAATG
1 AAAATGATAATG
738691 A
1 A
738692 TGAACTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAATGATAATG
Found at i:739272 original size:164 final size:166
Alignment explanation
Indices: 739006--739398 Score: 413
Period size: 164 Copynumber: 2.4 Consensus size: 166
738996 TCTTATCAGC
* * * * * * *
739006 AATCTACGCATTAATCACATTTATTTC-AAAATAGAA-TCTATGAATTAGTCCCATCTTTTGAAT
1 AATCTATGCATTTATCATATTTA-TTCAAAAATAAAATTC-ATGCATTAGTCCTATCTTTCGAAT
* * * * *
739069 TCTAATCCACGCATTGGTCTATTCCTTGCGGTCTGACATTTACAATCTA-TGCATTAGTCTTATC
64 TCTAATCCACGCATTAGTCAATTCCTTACAGTCTGACATTTACAATCTACT-CATTAATCTTATC
* * * * * *
739133 AACTTCTTTTATAT-A-AAAAAATGTGATTCCCATTAAG
128 AACTTATTTCAAATCAGAAAAAATCTGATTCCCACTAAA
*
739170 AATCTATGCATTTATTATATTTATTCAAAAATAAAATTCATGCATTAGTCCTATCTTTCGAACTT
1 AATCTATGCATTTATCATATTTATTCAAAAATAAAATTCATGCATTAGTCCTATCTTTCGAA-TT
* * * * *
739235 C-AGTCCATGCATTAGTCAATTCTTTACAGTTTGACATTTACAATCTACTCATTAATTTTATCAA
65 CTAATCCACGCATTAGTCAATTCCTTACAGTCTGACATTTACAATCTACTCATTAATCTTATCAA
* *
739299 TTTATTTCAAATCAGAAAGAATCTGATTCCCACTAAA
130 CTTATTTCAAATCAGAAAAAATCTGATTCCCACTAAA
* * * * * *
739336 AATCTATGCA-TTATCATATTTATTTAAGAACAAAATCCATGCATTAGTCTTATCTTTCAAATT
1 AATCTATGCATTTATCATATTTATTCAAAAATAAAATTCATGCATTAGTCCTATCTTTCGAATT
739399 TCAATAAAAA
Statistics
Matches: 190, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
163 3 0.02
164 108 0.57
165 51 0.27
166 28 0.15
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (166 bp):
AATCTATGCATTTATCATATTTATTCAAAAATAAAATTCATGCATTAGTCCTATCTTTCGAATTC
TAATCCACGCATTAGTCAATTCCTTACAGTCTGACATTTACAATCTACTCATTAATCTTATCAAC
TTATTTCAAATCAGAAAAAATCTGATTCCCACTAAA
Found at i:739421 original size:39 final size:39
Alignment explanation
Indices: 739378--739489 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 39
739368 AAATCCATGC
*
739378 ATTAGTCTTATCTTTCAAATTTC-AATAAAAAAT-TTATAT
1 ATTAGTCATATCTTTCAAA-TTCGAATAAAAAATCTT-TAT
* * * * *
739417 ATTAGTCACATCTTTTAGATTCTAATAAATAATCTTTAT
1 ATTAGTCATATCTTTCAAATTCGAATAAAAAATCTTTAT
* * *
739456 ATTATTAATATCTTTCAAAATCGAATAAAAAATC
1 ATTAGTCATATCTTTCAAATTCGAATAAAAAATC
739490 CATACATTAG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
38 3 0.05
39 53 0.91
40 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.43
Consensus pattern (39 bp):
ATTAGTCATATCTTTCAAATTCGAATAAAAAATCTTTAT
Found at i:749857 original size:32 final size:33
Alignment explanation
Indices: 749796--749858 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
749786 ACACACCCAG
*
749796 ATGTATCGATACATTATGCTTTGTATCGATATA
1 ATGTATCGATACATTATGCATTGTATCGATATA
749829 ATGTATCGATACATGT-T-CATTGTATCGATA
1 ATGTATCGATACAT-TATGCATTGTATCGATA
749859 CATGAAACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (33 bp):
ATGTATCGATACATTATGCATTGTATCGATATA
Found at i:751439 original size:20 final size:20
Alignment explanation
Indices: 751414--751533 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 20
751404 AAGTACCTAG
751414 ATCGATACATTTTTCAATGT
1 ATCGATACATTTTTCAATGT
* * *
751434 ATCGATACATGTATGAATGT
1 ATCGATACATTTTTCAATGT
*
751454 ATCGATACATTCTTCAATGT
1 ATCGATACATTTTTCAATGT
*
751474 ATCGATATATTCTGTCTTTTACCCAGATGT
1 ATCG--ATA--C-AT-TTTT---CA-ATGT
751504 ATCGATACATTTTTCAATGT
1 ATCGATACATTTTTCAATGT
751524 ATCGATACAT
1 ATCGATACAT
751534 CTAGTTAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
20 51 0.64
21 2 0.03
22 3 0.04
24 5 0.06
25 2 0.03
26 4 0.05
28 3 0.04
29 2 0.03
30 8 0.10
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
ATCGATACATTTTTCAATGT
Found at i:759249 original size:34 final size:35
Alignment explanation
Indices: 759211--759277 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
759201 CCTTACAACA
759211 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
759245 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
759278 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:759754 original size:13 final size:13
Alignment explanation
Indices: 759736--759761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
759726 AAATATTTTG
759736 TGTATCGATACAT
1 TGTATCGATACAT
759749 TGTATCGATACAT
1 TGTATCGATACAT
759762 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:759773 original size:32 final size:33
Alignment explanation
Indices: 759715--759779 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
759705 TACAAGCCAA
*
759715 TGTATCGATACAAATATTTTGTGTATCGATACAT
1 TGTATCGATAC-AATACTTTGTGTATCGATACAT
759749 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
759780 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 19 0.63
34 11 0.37
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:760522 original size:21 final size:21
Alignment explanation
Indices: 760481--760524 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
760471 CTCCCCTTTA
* *
760481 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
760502 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
760523 TC
1 TC
760525 ATAACAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:762759 original size:84 final size:84
Alignment explanation
Indices: 762604--762768 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
762594 CATTTTCCAC
* * * *
762604 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
762669 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
762688 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
762750 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
762769 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:764332 original size:34 final size:35
Alignment explanation
Indices: 764294--764360 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
764284 CCTTACAACA
764294 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
764328 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
764361 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:764837 original size:13 final size:13
Alignment explanation
Indices: 764819--764844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
764809 AATTTTTTTG
764819 TGTATCGATACAT
1 TGTATCGATACAT
764832 TGTATCGATACAT
1 TGTATCGATACAT
764845 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:764939 original size:20 final size:20
Alignment explanation
Indices: 764893--764966 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
764883 ATCCCAATGA
***
764893 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
764914 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
764934 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
764954 TATGTATCGATAC
1 CATGTATCGATAC
764967 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:766396 original size:110 final size:110
Alignment explanation
Indices: 766114--766397 Score: 358
Period size: 110 Copynumber: 2.6 Consensus size: 110
766104 TCAGTGGCTT
* * *
766114 TCTTTTCAAGGTCCACAACTCCGTGGCATCTTTTTAAGTCTACAACTTCATGGCATCC-TTTTAA
1 TCTTTT-AA-GTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTTAA
766178 AGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGCGGCA
64 AGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGCGGCA
* * * * * * * * **
766225 TCCTTTAAGTCCACCACTCCATTGCACCCTTTTAAGTTCACAACTCCGTTGC-TGTTCTTTTAAA
1 TCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCT-TTTTAAA
** *
766289 GTCCATAACTCCGTGGCACCCTTTT-AAGTCCACAACTTTGTGGCA
65 GTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGCGGCA
*
766334 CTCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTTAA
1 -TCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTTAA
766398 TCCCACAAGT
Statistics
Matches: 142, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
108 1 0.01
109 51 0.36
110 83 0.58
111 7 0.05
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (110 bp):
TCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTTAAAG
TCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGCGGCA
Found at i:766413 original size:28 final size:28
Alignment explanation
Indices: 766093--766454 Score: 267
Period size: 27 Copynumber: 13.1 Consensus size: 28
766083 GACCTCTTTA
* * * *
766093 AAGTCCACGA-TTCAGTGGCTTTCTTTTC
1 AAGTCCACAACTTC-GTGGCATCCTTTTT
*
766121 AAGGTCCACAACTCCGTGGCAT-CTTTTT
1 AA-GTCCACAACTTCGTGGCATCCTTTTT
* * *
766149 AAGTCTACAACTTCATGGCATCCTTTTA
1 AAGTCCACAACTTCGTGGCATCCTTTTT
* * * *
766177 AAGTCCATAACTCCGTGGCACCCTTTTA
1 AAGTCCACAACTTCGTGGCATCCTTTTT
* *
766205 AAGTCCACAACTCCGCGGCATCC--TTT
1 AAGTCCACAACTTCGTGGCATCCTTTTT
* * * * *
766231 AAGTCCACCACTCCATTGCA-CCCTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTTT
* * * * * *
766258 AAGTTCACAACTCCGTTGCTGTTCTTTTA
1 AAGTCCACAACTTCGTGGC-ATCCTTTTT
* * *
766287 AAGTCCATAACTCCGTGGCA-CCCTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTTT
*
766314 AAGTCCACAACTTTGTGGCA--CTCTTTT
1 AAGTCCACAACTTCGTGGCATCCT-TTTT
766341 AAGTCCACAACTTCGTGGCATCC-TTTT
1 AAGTCCACAACTTCGTGGCATCCTTTTT
766368 AAGTCCACAACTTCGTGGCATCCTTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTTT
* * * ***
766396 AA-TCCCACAAGTTAGTGGCACCCTTCCA
1 AAGT-CCACAACTTCGTGGCATCCTTTTT
* * *
766424 AAGTCCACAATTTCATGGCACCCTTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTTT
766452 AAG
1 AAG
766455 CCCATAAGTC
Statistics
Matches: 269, Mismatches: 52, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 19 0.07
27 107 0.40
28 104 0.39
29 35 0.13
30 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (28 bp):
AAGTCCACAACTTCGTGGCATCCTTTTT
Found at i:766443 original size:110 final size:109
Alignment explanation
Indices: 766088--766450 Score: 356
Period size: 110 Copynumber: 3.3 Consensus size: 109
766078 ACTGTGACCT
* ** *
766088 CTTTAAAGTCCACGA-TTCAGTGGCTTTCTTTTCAAGGTCCACAACTCCGTGGCATCTTTTTAAG
1 CTTTAAAGTCCACAATTTCA-TGGCACTCTTTT-AA-GTCCACAACTCCGTGGCATCCTTTTAAG
* *
766152 TCTACAACTTCATGGCATCCTTTTAAAGTCCATAACTCCGTGGCACC
63 TCCACAACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCACC
* * ** * * * * * *
766199 CTTTTAAAGTCCACAACTCCGCGGCA-TCCTTTAAGTCCACCACTCCATTGCACCCTTTTAAGTT
1 C-TTTAAAGTCCACAATTTCATGGCACTCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
* * * *
766263 CACAACTCCGTTGCTGTTCTTTTAAAGTCCATAACTCCGTGGCACC
65 CACAACTTCGTGGC-ATCCTTTTAAAGTCCATAACTCCGTGGCACC
* * *
766309 CTTTTAAGTCCACAACTTT-GTGGCACTCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTC
1 CTTTAAAGTCCACAA-TTTCATGGCACTCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
* * * **
766373 CACAACTTCGTGGCATCCTTTTTAA-TCCCACAAGTTAGTGGCACC
65 CACAACTTCGTGGCATCCTTTTAAAGT-CCATAACTCCGTGGCACC
* *
766418 CTTCCAAAGTCCACAATTTCATGGCACCCTTTT
1 CTT-TAAAGTCCACAATTTCATGGCACTCTTTT
766451 TAAGCCCATA
Statistics
Matches: 202, Mismatches: 42, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
108 1 0.00
109 80 0.40
110 97 0.48
111 6 0.03
112 16 0.08
113 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (109 bp):
CTTTAAAGTCCACAATTTCATGGCACTCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
ACAACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCACC
Found at i:766470 original size:28 final size:28
Alignment explanation
Indices: 766301--766962 Score: 241
Period size: 28 Copynumber: 22.5 Consensus size: 28
766291 CCATAACTCC
* * **
766301 GTGGCACCC-TTTTAAGTCCACAACTTT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * *
766328 GTGGCACTC-TTTTAAGTCCACAACTTC-
1 GTGGCACCCTTTTTAAGCCCACAA-GTCA
* * *
766355 GTGGCATCC-TTTTAAGTCCACAACTTC-
1 GTGGCACCCTTTTTAAGCCCACAA-GTCA
* * *
766382 GTGGCATCCTTTTTAATCCCACAAGTTA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
*** * *
766410 GTGGCACCCTTCCAAAGTCCACAATTTCA
1 GTGGCACCCTTTTTAAGCCCACAA-GTCA
*
766439 -TGGCACCCTTTTTAAGCCCATAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
*** *
766466 GTGGCACCCTTCCAAAGCCCACAAATCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* *
766494 GTGGCACCATTTTTATGACCACACAAGTC-
1 GTGGCACCCTTTTTAAG-CC-CACAAGTCA
** *
766523 GATGGCAACCCATTTCAAAGCCCACACAAGTCG
1 G-TGGC-ACCC-TTTTTAAG-CC-CACAAGTCA
* * **
766556 GTGGCA-ACTAATTTGAAAGCCCACACAAGTTG
1 GTGGCACCCT--TTT-TAAG-CC-CACAAGTCA
** **
766588 GTGGCAACCCATTTCAAAGCTCACACAAGTTG
1 GTGGC-ACCC-TTTTTAAGC-C-CACAAGTCA
** *
766620 GTGGCAACCCATTTGAAAGCTTACACAAGTCA
1 GTGGC-ACCC-TTTTTAAGC--CCACAAGTCA
* **
766652 GTGGCATCCTTTCAAAGCCCACACAAGTC-
1 GTGGCACCCTTTTTAAG-CC-CACAAGTCA
** *
766681 GATGGCAACCCATTTCAAAGCCCACAAGTTA
1 G-TGGC-ACCC-TTTTTAAGCCCACAAGTCA
* ** * *
766712 GTGGCATCCTTTCAAAGCACACAACTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* *
766740 GTGGCA-TCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTT-TAAGCCCACAAGTCA
* *
766768 GTGGCATCCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTT-TAAGCCCACAAGTCA
**
766797 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* ** *
766825 ATGGCACACCCTTTCAAAGCCCACACAAGTTA
1 GTGG--CACCCTTTTTAAG-CC-CACAAGTCA
*
766857 GTGGCAACTCTTTTTAAAGCCCACAAGTCA
1 GTGGC-ACCCTTTTT-AAGCCCACAAGTCA
* ** *
766887 GTGGCA-TCTCTTCAAAGCCCACATAAGTTA
1 GTGGCACCCT-TTTTAAGCCCAC--AAGTCA
* *
766917 GTGGCACCTTTTTTTAAGCCTATGCAAGTC-
1 GTGGCACC-CTTTTTAAGCCCA--CAAGTCA
766947 GATGGCAACCCTTTTT
1 G-TGGC-ACCCTTTTT
766963 CAAATCACCA
Statistics
Matches: 512, Mismatches: 81, Indels: 80
0.76 0.12 0.12
Matches are distributed among these distances:
27 64 0.12
28 153 0.30
29 45 0.09
30 81 0.16
31 48 0.09
32 113 0.22
33 6 0.01
34 1 0.00
35 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (28 bp):
GTGGCACCCTTTTTAAGCCCACAAGTCA
Found at i:766548 original size:32 final size:33
Alignment explanation
Indices: 766460--766922 Score: 316
Period size: 32 Copynumber: 15.4 Consensus size: 33
766450 TTAAGCCCAT
*
766460 AAGTC-AGTGGC-ACCC-TTCCAAAGCCCACA-
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
** * *
766489 AA-TC-AGTGGC-A-CCATTTTTATGACCACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
766518 AAGTCGA-TGGCAACCCATTTCAAAGCCCACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
** *
766550 AAGTCG-GTGGCAACTAATTTGAAAGCCCACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
* *
766582 AAGTTG-GTGGCAACCCATTTCAAAGCTCACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
* * **
766614 AAGTTG-GTGGCAACCCATTTGAAAGCTTACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
*
766646 AAGTC-AGTGGC-ATCC-TTTCAAAGCCCACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
766676 AAGTCGA-TGGCAACCCATTTCAAAG-CC-CAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
* *
766706 AAGT-TAGTGGC-ATCC-TTTCAAAG--CACAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
* * *
766734 AACTC-AGTGGC-A-TCTTTTCAAAG-CC-CAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
* *
766762 AAGTC-AGTGGC-ATCCTTTTCAAAG-CC-CAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
766791 AAGTC-AGTGGC-ACCC-TTTCAAAG-CC-CAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
*
766819 AAGTC-AATGGCACACCC-TTTCAAAGCCCACAC
1 AAGTCGAGTGGCA-ACCCATTTCAAAGCCCACAC
* * * *
766851 AAGT-TAGTGGCAACTCTTTTTAAAG-CC-CAC
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
* * *
766881 AAGTC-AGTGGCATCTC--TTCAAAGCCCACAT
1 AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
*
766911 AAGT-TAGTGGCA
1 AAGTCGAGTGGCA
766923 CCTTTTTTTA
Statistics
Matches: 368, Mismatches: 39, Indels: 53
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.01
28 90 0.24
29 40 0.11
30 80 0.22
31 18 0.05
32 136 0.37
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (33 bp):
AAGTCGAGTGGCAACCCATTTCAAAGCCCACAC
Found at i:766593 original size:64 final size:61
Alignment explanation
Indices: 766401--766922 Score: 408
Period size: 60 Copynumber: 8.7 Consensus size: 61
766391 TTTTTAATCC
* * * ** * **
766401 CACAAGTTAGTGGCACCCTTCCAAAGTCCACA-ATTTCA-TGGC-AC-CCTTTTTAAGCC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCCA
* * ** *
766457 CATAAGTCAGTGGCACCCTTCCAAAGCCCACA-AA-TCAGTGGC-AC-CATTTTTATGACCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAG-CCA
* * *
766515 CACAAGTC-GATGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTAATTTGAAAGCCCA
1 CACAAGTCAG-TGGC-ACCC-TTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAG-CCA
** * ** * * *
766579 CACAAGTTGGTGGCAACCCATTTCAAAGCTCACACAAGTTGGTGGCAACCCATTTGAAAGCTTA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGC-CA
* *
766643 CACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTC-GATGGCAACCCATTTCAAAGCC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAG-TGGCAACTCATTTCAAAGCCA
* * * *
766703 CACAAGTTAGTGGCATCCTTTCAAAG--CACACAACTCAGTGGC-A-TCTTTTCAAAGCC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCCA
* *
766759 CACAAGTCAGTGGCATCCTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCC-
1 CACAAGTCAGTGGCA-CCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCCA
* * * *
766816 CACAAGTCAATGGCACACCCTTTCAAAGCCCACACAAGTTAGTGGCAACTCTTTTTAAAGCC-
1 CACAAGTCAGTGG--CACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCCA
* * *
766878 CACAAGTCAGTGGCA-TCTCTTCAAAGCCCACATAAGTTAGTGGCA
1 CACAAGTCAGTGGCACCCT-TTCAAAGCCCACACAAGTCAGTGGCA
766923 CCTTTTTTTA
Statistics
Matches: 398, Mismatches: 44, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
55 3 0.01
56 69 0.17
57 50 0.13
58 35 0.09
59 11 0.03
60 78 0.20
61 5 0.01
62 65 0.16
63 6 0.02
64 75 0.19
65 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (61 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTCAAAGCCA
Found at i:767144 original size:48 final size:48
Alignment explanation
Indices: 766997--767304 Score: 374
Period size: 48 Copynumber: 6.5 Consensus size: 48
766987 AAGTCCGATA
* * * * *
766997 TCGCTGGCATTGAATCAGCATATTG-GCACCTTT--ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * * * *
767042 TCGCTAGCCTTGAATCAACACGTTGTCCACCTTT--ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* *
767088 TCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* *
767136 TCGCTGGCCCTGAATCAGCACGTTGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * * *
767184 TCACTTGCCTTGAATCAGCACATTGTCCACTGTTCCCTTAGCTTAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* *
767232 TCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCGATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* **
767280 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
767305 GCACTCCTCT
Statistics
Matches: 230, Mismatches: 30, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
45 20 0.09
46 48 0.21
48 162 0.70
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
Found at i:774333 original size:20 final size:22
Alignment explanation
Indices: 774308--774347 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
774298 TGATGTTCCA
774308 ATCATG-GTG-AAAAAGTTAAC
1 ATCATGAGTGTAAAAAGTTAAC
*
774328 ATCATGAGTGTAAAGAGTTA
1 ATCATGAGTGTAAAAAGTTA
774348 CCTTATCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (22 bp):
ATCATGAGTGTAAAAAGTTAAC
Found at i:780609 original size:19 final size:19
Alignment explanation
Indices: 780573--780609 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
780563 AAAATGTCCC
*
780573 TTAAAGTATACCTCTAACA
1 TTAAAGTATACCTATAACA
*
780592 TTAAAGTATCCCTATAAC
1 TTAAAGTATACCTATAAC
780610 TCTAACAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (19 bp):
TTAAAGTATACCTATAACA
Found at i:783009 original size:28 final size:27
Alignment explanation
Indices: 782969--783025 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
782959 GCACATAAGG
* *
782969 ATTCATTAGAATTTTT-TTCGTGACAAA
1 ATTCATTAAAATTTTTCAT-GTGACAAA
782996 ATTCAATTAAAATTTTTCATGTGACAAA
1 ATTC-ATTAAAATTTTTCATGTGACAAA
783024 AT
1 AT
783026 CATATAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.15
28 21 0.81
29 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (27 bp):
ATTCATTAAAATTTTTCATGTGACAAA
Found at i:786940 original size:19 final size:20
Alignment explanation
Indices: 786897--786949 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
786887 CTGCCAGTTT
786897 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
786917 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
*
786936 CATGTATTGATACA
1 CATGTATCGATACA
786950 TTATATCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:794585 original size:51 final size:51
Alignment explanation
Indices: 794526--794657 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
794516 AACTAGATGT
* *
794526 ATCGATACATT-ACAAAATGTATCGATACATCTGGGTAAAAAGATATAATGC
1 ATCGATACATTGA-AAAATGTATCGATACATCTAGGTAAAAAGATAGAATGC
* * *
794577 ATCGATACATTGAAAAATGTATTGATGCATCTAGGTAAAAAGATAGAATGT
1 ATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGATAGAATGC
* *
794628 ATCGATATATTGAAAAATATATCGATACAT
1 ATCGATACATTGAAAAATGTATCGATACAT
794658 TCATACCTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 70 0.99
52 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (51 bp):
ATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGATAGAATGC
Found at i:794652 original size:20 final size:20
Alignment explanation
Indices: 794627--794696 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
794617 AGATAGAATG
*
794627 TATCGATATATTGAAAAATA
1 TATCGATACATTGAAAAATA
* * **
794647 TATCGATACATTCATACCTA
1 TATCGATACATTGAAAAATA
*
794667 TATCGATACATTG-AAAATG
1 TATCGATACATTGAAAAATA
794686 TATCGATACAT
1 TATCGATACAT
794697 CTAGGTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (20 bp):
TATCGATACATTGAAAAATA
Found at i:797988 original size:21 final size:20
Alignment explanation
Indices: 797963--798015 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
797953 TACAAGCCAA
**
797963 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TACTTTG
797984 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
798003 TGTATCGATACAA
1 TGTATCGATACAA
798016 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:798685 original size:39 final size:40
Alignment explanation
Indices: 798629--798709 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
798619 TTTTCTTTTT
*
798629 CCCTTAACTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
* * *
798669 CCCTTAA-T-AAGATAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAATTCATACATTCTCC
798708 CC
1 CC
798710 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.08
39 26 0.72
40 7 0.19
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
Found at i:798756 original size:59 final size:59
Alignment explanation
Indices: 798664--798804 Score: 264
Period size: 59 Copynumber: 2.4 Consensus size: 59
798654 ATTCGTACAT
* *
798664 TCTCCCCCTTAATAAGATAATTTTAGCAAATTTATGCATTCTCCCCTTTTATTAAAAAA
1 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAA
798723 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAA
1 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAA
798782 TCTCCCCCTTAATAAGGTAATTT
1 TCTCCCCCTTAATAAGGTAATTT
798805 ATACACATAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (59 bp):
TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAA
Found at i:800634 original size:13 final size:13
Alignment explanation
Indices: 800616--800653 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
800606 ATAATCCCCC
800616 TGTATCGATACAG
1 TGTATCGATACAG
*
800629 TGTATCGATACAT
1 TGTATCGATACAG
*
800642 TATATCGATACA
1 TGTATCGATACA
800654 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Done.