Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold57
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: 4071704
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82236 characters in sequence are not A, C, G, or T
File 14 of 27
Found at i:1822480 original size:20 final size:21
Alignment explanation
Indices: 1822436--1822480 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1822426 TACCATTTAT
* *
1822436 ATATTTATAATAATATTTTAT
1 ATATTTATAATAATATTTAAA
1822457 ATATTT-TAATAATATTTAAA
1 ATATTTATAATAATATTTAAA
1822477 ATAT
1 ATAT
1822481 ACATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTATAATAATATTTAAA
Found at i:1822514 original size:16 final size:16
Alignment explanation
Indices: 1822492--1822543 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
1822482 CATTTTAAAA
1822492 ATATATTTATATTACTT
1 ATATATTTATATTA-TT
*
1822509 -TATATTTTTATTATT
1 ATATATTTATATTATT
1822524 ATATATATTAT-TT-TT
1 ATATAT-TTATATTATT
1822539 ATATA
1 ATATA
1822544 ATCATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 9 0.29
16 19 0.61
17 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATATTTATATTATT
Found at i:1822518 original size:18 final size:19
Alignment explanation
Indices: 1822492--1822560 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
1822482 CATTTTAAAA
*
1822492 ATATATTTATATTACT-T-T
1 ATATTTTTATATTA-TATAT
1822510 ATATTTTTATTATTATATAT
1 ATATTTTTA-TATTATATAT
*
1822530 ATTATTTTTATATAATCATAT
1 A-TATTTTTATATTAT-ATAT
*
1822551 -TAATTTTATA
1 ATATTTTTATA
1822561 AAATTTTGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
18 9 0.21
19 15 0.35
20 7 0.16
21 12 0.28
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTTATATTATATAT
Found at i:1822550 original size:21 final size:21
Alignment explanation
Indices: 1822511--1822559 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
1822501 TATTACTTTA
*
1822511 TATTTTTATTATTATATATAT
1 TATTTTTATTATAATATATAT
*
1822532 TATTTTTA-TATAAT-CATAT
1 TATTTTTATTATAATATATAT
*
1822551 TAATTTTAT
1 TATTTTTAT
1822560 AAAATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTTTATTATAATATATAT
Found at i:1824950 original size:24 final size:25
Alignment explanation
Indices: 1824917--1824964 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
1824907 ATGTCTGAAA
*
1824917 TTTATTATTTTATTA-AGTTAAATT
1 TTTATAATTTTATTATAGTTAAATT
*
1824941 TTTATAATTTTATTATATTTAAAT
1 TTTATAATTTTATTATAGTTAAAT
1824965 AATATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTATAATTTTATTATAGTTAAATT
Found at i:1825118 original size:22 final size:21
Alignment explanation
Indices: 1825062--1825118 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
1825052 AATAATTTAT
1825062 TAAAATAAAA-ATTTATTTAAA
1 TAAAATAAAATA-TTATTTAAA
*
1825083 TATTAATAAAATATTATTTAAA
1 TA-AAATAAAATATTATTTAAA
1825105 TAAAATAAATATAT
1 TAAAATAAA-ATAT
1825119 AAAAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 8 0.26
22 22 0.71
23 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATAAAATATTATTTAAA
Found at i:1825446 original size:27 final size:27
Alignment explanation
Indices: 1825406--1825459 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
1825396 TTGTGTGTGT
1825406 TTTATATATATTT-ATATATAAATTTTA
1 TTTATATATATTTAATAT-TAAATTTTA
*
1825433 TTTATAT-TATTTTAATATTATATTTTA
1 TTTATATATA-TTTAATATTAAATTTTA
1825460 ATTTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.08
27 18 0.75
28 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTATATATATTTAATATTAAATTTTA
Found at i:1826893 original size:22 final size:22
Alignment explanation
Indices: 1826846--1826894 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1826836 AAAATTAAAA
* *
1826846 ATAATTATTATTATATTACGTT
1 ATAATTATTATTAAATTACGTG
*
1826868 ATAATTATTATTTAAATT-TGTG
1 ATAATTATTA-TTAAATTACGTG
1826890 ATAAT
1 ATAAT
1826895 AAGTCTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
ATAATTATTATTAAATTACGTG
Found at i:1833027 original size:10 final size:10
Alignment explanation
Indices: 1833012--1833084 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
1833002 GTTCAAGATA
1833012 TTATATATTT
1 TTATATATTT
*
1833022 TTATATAATT
1 TTATATATTT
1833032 TTA-ATATTT
1 TTATATATTT
*
1833041 TAATA-ATTT
1 TTATATATTT
* *
1833050 GTATTATAAATT
1 TTA-TAT-ATTT
*
1833062 TTA-ATATAT
1 TTATATATTT
*
1833071 TTATATATTC
1 TTATATATTT
1833081 TTAT
1 TTAT
1833085 TATGCTCATA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
9 17 0.36
10 25 0.53
12 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
TTATATATTT
Found at i:1833458 original size:11 final size:11
Alignment explanation
Indices: 1833442--1833574 Score: 52
Period size: 11 Copynumber: 12.5 Consensus size: 11
1833432 GGACATCATT
1833442 ATATAAATATA
1 ATATAAATATA
*
1833453 ATATAAAAAATTA
1 ATAT-AAATA-TA
1833466 AT-TAAAATATA
1 ATAT-AAATATA
*
1833477 ATATAAACAT-
1 ATATAAATATA
1833487 ATA-AAATAT-
1 ATATAAATATA
* *
1833496 -TTTAAAT-TT
1 ATATAAATATA
1833505 ATAT-AATATAA
1 ATATAAATAT-A
*
1833516 ATTATTAATATA
1 A-TATAAATATA
* *
1833528 TTA-AAAT-TT
1 ATATAAATATA
1833537 ATATAAATAT-
1 ATATAAATATA
* *
1833547 ATATAATTTTA
1 ATATAAATATA
* *
1833558 ATATAATTATG
1 ATATAAATATA
1833569 ATATAA
1 ATATAA
1833575 TAAAAAGAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
8 2 0.02
9 15 0.16
10 21 0.22
11 32 0.34
12 15 0.16
13 9 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
ATATAAATATA
Found at i:1833490 original size:13 final size:12
Alignment explanation
Indices: 1833441--1833490 Score: 57
Period size: 12 Copynumber: 4.0 Consensus size: 12
1833431 TGGACATCAT
1833441 TATATAAATATAA
1 TATA-AAATATAA
*
1833454 TATAAAAAATTAA
1 TATAAAATA-TAA
1833467 T-TAAAATATAA
1 TATAAAATATAA
1833478 TATAAACATATAA
1 TATAAA-ATATAA
1833491 AATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 4 0.12
12 14 0.44
13 14 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
TATAAAATATAA
Found at i:1833514 original size:33 final size:32
Alignment explanation
Indices: 1833472--1833547 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
1833462 ATTAATTAAA
*
1833472 ATATAATATAAACATATAAA-ATATTTTAAATTT
1 ATATAATATAAA-ATATAAATATA-TTAAAATTT
* *
1833505 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAAATATAAATATATTAAAATTT
1833537 ATATAAATATA
1 ATAT-AATATA
1833548 TATAATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 17 0.45
33 21 0.55
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATAATATAAAATATAAATATATTAAAATTT
Found at i:1833527 original size:20 final size:19
Alignment explanation
Indices: 1833504--1833562 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
1833494 ATTTTAAATT
1833504 TATATAATATAAATTATTAA
1 TATAT-ATATAAATTATTAA
1833524 TATAT-TA-AAATTTATATAA
1 TATATATATAAA-TTAT-TAA
1833543 -ATATATAT-AATT-TTAA
1 TATATATATAAATTATTAA
1833559 TATA
1 TATA
1833563 ATTATGATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 12 0.35
19 7 0.21
20 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATAAATTATTAA
Found at i:1836590 original size:23 final size:22
Alignment explanation
Indices: 1836557--1836600 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1836547 ATTTTTAAAT
*
1836557 ATAATATAAATAAAATATAAAAA
1 ATAATAAAAATAAAATA-AAAAA
*
1836580 ATAATAAAAATATAATAAAAA
1 ATAATAAAAATAAAATAAAAA
1836601 CATGACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
ATAATAAAAATAAAATAAAAAA
Found at i:1836597 original size:11 final size:11
Alignment explanation
Indices: 1836553--1836600 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
1836543 AATAATTTTT
*
1836553 AAATATAATAT
1 AAATATAATAA
*
1836564 AAATAAAATATA
1 AAATATAATA-A
*
1836576 AAAAATAATAA
1 AAATATAATAA
1836587 AAATATAATAA
1 AAATATAATAA
1836598 AAA
1 AAA
1836601 CATGACATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATATAATAA
Found at i:1836600 original size:29 final size:30
Alignment explanation
Indices: 1836559--1836632 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
1836549 TTTTAAATAT
1836559 AATATAA-ATAAAATAT-AAAAAATAATAAA
1 AATATAATA-AAAATATGAAAAAATAATAAA
* * * *
1836588 AATATAATAAAAACATGACATAATATTAAA
1 AATATAATAAAAATATGAAAAAATAATAAA
*
1836618 AA-ATAATATAAATAT
1 AATATAATAAAAATAT
1836633 TTAAATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (30 bp):
AATATAATAAAAATATGAAAAAATAATAAA
Found at i:1836628 original size:18 final size:18
Alignment explanation
Indices: 1836565--1836633 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
1836555 ATATAATATA
1836565 AATAAAATA-TAAAAAAT
1 AATAAAATATTAAAAAAT
1836582 AATAAAAATATAATAAAAACAT
1 AAT-AAAATAT--TAAAAA-AT
* * *
1836604 GACATAATATTAAAAAAT
1 AATAAAATATTAAAAAAT
1836622 AATATAAATATT
1 AATA-AAATATT
1836634 TAAATATATC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 3 0.08
18 10 0.25
19 12 0.30
21 12 0.30
22 3 0.08
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (18 bp):
AATAAAATATTAAAAAAT
Found at i:1836697 original size:10 final size:10
Alignment explanation
Indices: 1836568--1836698 Score: 55
Period size: 11 Copynumber: 13.1 Consensus size: 10
1836558 TAATATAAAT
1836568 AAAATATA-A
1 AAAATATATA
1836577 AAAATA-ATA
1 AAAATATATA
1836586 AAAATATAATA
1 AAAATAT-ATA
* *
1836597 AAAACATGA-C
1 AAAATAT-ATA
*
1836607 ATAATAT-TA
1 AAAATATATA
1836616 AAAA-ATAATA
1 AAAATAT-ATA
*
1836626 TAAATAT-T-
1 AAAATATATA
*
1836634 TAAATATATCA
1 AAAATATAT-A
1836645 AAAATTATATA
1 AAAA-TATATA
*
1836656 ACATAA-ATTATT
1 A-A-AATA-TATA
1836668 AAAATAT-TA
1 AAAATATATA
*
1836677 AAATTTATATA
1 AAA-ATATATA
1836688 AAAATATATA
1 AAAATATATA
1836698 A
1 A
1836699 CATCTTAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
8 10 0.11
9 22 0.24
10 23 0.25
11 25 0.27
12 10 0.11
13 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
AAAATATATA
Found at i:1837232 original size:21 final size:21
Alignment explanation
Indices: 1837208--1837253 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
1837198 AATATTTTTT
*
1837208 AAAATTT-TATTTATATAATAA
1 AAAATTTATATTAATAT-ATAA
1837229 AAAATTTACTATTAATATATAA
1 AAAATTTA-TATTAATATATAA
1837251 AAA
1 AAA
1837254 TTAAATTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATTTATATTAATATATAA
Found at i:1838640 original size:15 final size:17
Alignment explanation
Indices: 1838620--1838651 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1838610 TTTACATTTA
1838620 ATAAAT-AT-TATTAAT
1 ATAAATAATATATTAAT
1838635 ATAAATAATATATTAAT
1 ATAAATAATATATTAAT
1838652 TAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAATAATATATTAAT
Found at i:1839067 original size:26 final size:28
Alignment explanation
Indices: 1839039--1839099 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
1839029 AATATAATCT
*
1839039 TATTTTTTAAAAATTAAAT-TTATTATTA
1 TATTTTATAAAAA-TAAATATTATTATTA
* *
1839067 TAATTTTATAAAAATATATATTATTATTT
1 T-ATTTTATAAAAATAAATATTATTATTA
1839096 TATT
1 TATT
1839100 ATTTAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TATTTTATAAAAATAAATATTATTATTA
Found at i:1842232 original size:12 final size:12
Alignment explanation
Indices: 1842221--1842274 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
1842211 AATTTAATTT
1842221 AATATAATATTTA
1 AATATAATA-TTA
1842234 AA-ATAAT-TTA
1 AATATAATATTA
* *
1842244 AATATTATATAA
1 AATATAATATTA
*
1842256 AATATAATATAA
1 AATATAATATTA
1842268 AATATAA
1 AATATAA
1842275 AAATTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 25 0.69
13 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATAATATTA
Found at i:1842258 original size:21 final size:22
Alignment explanation
Indices: 1842215--1842285 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 22
1842205 ATTAAAAATT
*
1842215 TAATTTAATATAATATTTAAAA
1 TAATTTAATATAATATATAAAA
*
1842237 TAATTTAA-ATATTATATAAAA
1 TAATTTAATATAATATATAAAA
*
1842258 T-A--TAATATAAAATATAAAAA
1 TAATTTAATATAATATAT-AAAA
1842278 TTAATTTA
1 -TAATTTA
1842286 TTTAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 3 0.08
19 7 0.18
20 5 0.13
21 13 0.33
22 9 0.23
24 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATTTAATATAATATATAAAA
Found at i:1842314 original size:33 final size:33
Alignment explanation
Indices: 1842262--1842350 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 33
1842252 ATAAAATATA
* *
1842262 ATATA-AAATATAAAAATTAATTTATTTAAATT
1 ATATATAAATATATATATTAATTTATTTAAATT
*
1842294 -TATAT-AATATTATATTATTAATAT-TTTAAATT
1 ATATATAAATA-TATA-TATTAATTTATTTAAATT
*
1842326 ATATATAAATATATATAATAATTTA
1 ATATATAAATATATATATTAATTTA
1842351 AACGTTATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
31 8 0.17
32 18 0.39
33 16 0.35
34 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
ATATATAAATATATATATTAATTTATTTAAATT
Found at i:1842319 original size:31 final size:28
Alignment explanation
Indices: 1842222--1842352 Score: 83
Period size: 28 Copynumber: 4.5 Consensus size: 28
1842212 ATTTAATTTA
* *
1842222 ATATAATATTTAAAATA-ATTTAAATATT
1 ATATAATATTTAAATTATATATAAATA-T
* * * *
1842250 ATATAAAATATAATATAAAATATAAA-A-
1 ATATAATATTTAA-ATTATATATAAATAT
1842277 AT-TAATTTATTTAAATT-TATATAATATTAT
1 ATATAA--TATTTAAATTATATATAA-A-TAT
1842307 ATTATTAATATTTTAAATTATATATAAATAT
1 A-TA-TAATA-TTTAAATTATATATAAATAT
1842338 ATATAATAATTTAAA
1 ATATAAT-ATTTAAA
1842353 CGTTATTGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
26 9 0.11
27 5 0.06
28 16 0.20
29 14 0.17
30 10 0.12
31 7 0.09
32 9 0.11
33 10 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATAATATTTAAATTATATATAAATAT
Found at i:1842344 original size:29 final size:32
Alignment explanation
Indices: 1842285--1842352 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 32
1842275 AAATTAATTT
1842285 ATTTAAATTTATATAATATTATATTATTAATA
1 ATTTAAATTTATATAATATTATATTATTAATA
*
1842317 TTTTAAATTATATATAA-A-TATA-TA-TAATA
1 ATTTAAATT-TATATAATATTATATTATTAATA
1842346 ATTTAAA
1 ATTTAAA
1842353 CGTTATTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 11 0.33
30 2 0.06
31 4 0.12
32 9 0.27
33 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
ATTTAAATTTATATAATATTATATTATTAATA
Found at i:1844452 original size:2 final size:2
Alignment explanation
Indices: 1844445--1844479 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1844435 TGAAAGTACA
1844445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1844480 AACAAAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1844600 original size:12 final size:13
Alignment explanation
Indices: 1844577--1844631 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
1844567 TTAGATCAAA
1844577 TTTTAATATT-AAT
1 TTTTAAT-TTAAAT
1844590 TTTTAATTTAAAT
1 TTTTAATTTAAAT
*
1844603 TAATTATATTTAAAT
1 T-TTTA-ATTTAAAT
1844618 TTTT-ATTTAAAT
1 TTTTAATTTAAAT
1844630 TT
1 TT
1844632 AATTATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
12 12 0.32
13 11 0.30
14 5 0.14
15 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTTAAAT
Found at i:1844620 original size:27 final size:28
Alignment explanation
Indices: 1844585--1844638 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
1844575 AATTTTAATA
*
1844585 TTAATTTTTAATTTAAA-TTAATTATAT
1 TTAAATTTTAATTTAAATTTAATTATAT
*
1844612 TTAAATTTTTATTTAAATTTAATTATA
1 TTAAATTTTAATTTAAATTTAATTATA
1844639 AAATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTAAATTTTAATTTAAATTTAATTATAT
Found at i:1844650 original size:33 final size:30
Alignment explanation
Indices: 1844582--1844638 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
1844572 TCAAATTTTA
*
1844582 ATATTAATTTTTAATTTAAATTAATTATAT
1 ATATAAATTTTTAATTTAAATTAATTATAT
1844612 -T-TAAATTTTT-ATTTAAATTTAATTATA
1 ATATAAATTTTTAATTTAAA-TTAATTATA
1844639 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
28 17 0.68
29 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
ATATAAATTTTTAATTTAAATTAATTATAT
Found at i:1844704 original size:30 final size:30
Alignment explanation
Indices: 1844650--1844709 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1844640 AATATATAAA
** *
1844650 TATTAATATAAAAATAATTTTTAAATTTTT
1 TATTAATATAAAAATAATAATTAAACTTTT
* *
1844680 TATTAATTTATAAATAATAATTAAACTTTT
1 TATTAATATAAAAATAATAATTAAACTTTT
1844710 CAAGCTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTAATATAAAAATAATAATTAAACTTTT
Found at i:1844760 original size:29 final size:31
Alignment explanation
Indices: 1844728--1844790 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
1844718 ATTAAAAATT
* *
1844728 TAAAAATTTTTAAA-TTACAATCTAAC-TTA
1 TAAAAATTTATAAATTTAAAATCTAACTTTA
* *
1844757 TAAATATTTATAAATTTAAAATCTATCTTTA
1 TAAAAATTTATAAATTTAAAATCTAACTTTA
1844788 TAA
1 TAA
1844791 TATCCTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.43
30 10 0.36
31 6 0.21
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAAATTTATAAATTTAAAATCTAACTTTA
Found at i:1844928 original size:2 final size:2
Alignment explanation
Indices: 1844921--1844960 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1844911 AGAAAAACAA
1844921 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1844961 CACCCATTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1849145 original size:2 final size:2
Alignment explanation
Indices: 1849138--1849166 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1849128 CCTATATCTA
1849138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1849167 AGTCTCACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1851606 original size:30 final size:29
Alignment explanation
Indices: 1851555--1851642 Score: 70
Period size: 30 Copynumber: 2.9 Consensus size: 29
1851545 AATGTAAAAA
*
1851555 AAATTAATTGATAATAATTATAAATTTGAT-
1 AAATTAAAT-ATAAT-ATTATAAATTTGATG
**
1851585 AAATTAAATATAAGTATTTATATTTTTGATG
1 AAATTAAATATAA-TA-TTATAAATTTGATG
* *
1851616 AATATAAAATAAAATTATTATAAATTT
1 AA-ATTAAATATAA-TATTATAAATTT
1851643 AATATTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
29 5 0.11
30 20 0.43
31 10 0.22
32 11 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (29 bp):
AAATTAAATATAATATTATAAATTTGATG
Found at i:1851821 original size:18 final size:17
Alignment explanation
Indices: 1851786--1851828 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
1851776 AATTATATCT
*
1851786 ATTTTATATTTATAAAA
1 ATTTTATATATATAAAA
1851803 ATTTTAATATATATTAAAA
1 ATTTT-ATATATA-TAAAA
1851822 ATATTTA
1 AT-TTTA
1851829 AATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 8 0.36
20 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATATATATAAAA
Found at i:1851828 original size:20 final size:19
Alignment explanation
Indices: 1851785--1851829 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1851775 TAATTATATC
* *
1851785 TATTTTATATTTATAAAAA
1 TATTTAATATATATAAAAA
1851804 T-TTTAATATATATTAAAAA
1 TATTTAATATATA-TAAAAA
1851823 TATTTAA
1 TATTTAA
1851830 ATTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTAATATATATAAAAA
Found at i:1856394 original size:26 final size:27
Alignment explanation
Indices: 1856363--1856445 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 27
1856353 ATCAAACCTG
*
1856363 ATTTAATAAGAAAAAT-C-AATAATTCA
1 ATTTAAAAAGAAAAATACTAATAA-TCA
*
1856389 ATTTAAAAAGAAAAATGACTATTAATCA
1 ATTTAAAAAGAAAAAT-ACTAATAATCA
*
1856417 ATTTAAAAAGAAAAATGACTATTAATCA
1 ATTTAAAAAGAAAAAT-ACTAATAATCA
1856445 A
1 A
1856446 AATGATTTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
26 15 0.29
28 33 0.63
29 4 0.08
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (27 bp):
ATTTAAAAAGAAAAATACTAATAATCA
Found at i:1856422 original size:28 final size:28
Alignment explanation
Indices: 1856386--1856445 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
1856376 AATCAATAAT
1856386 TCAATTTAAAAAGAAAAATGACTATTAA
1 TCAATTTAAAAAGAAAAATGACTATTAA
1856414 TCAATTTAAAAAGAAAAATGACTATTAA
1 TCAATTTAAAAAGAAAAATGACTATTAA
1856442 TCAA
1 TCAA
1856446 AATGATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (28 bp):
TCAATTTAAAAAGAAAAATGACTATTAA
Found at i:1856816 original size:22 final size:21
Alignment explanation
Indices: 1856777--1856830 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
1856767 ATAATAATTT
1856777 TTTAAAATTAATTATTT-AAGAA
1 TTTAAAA-TAATTATTTAAAG-A
*
1856799 TTTAAAATAATTCGTTTAAAGA
1 TTTAAAATAATT-ATTTAAAGA
1856821 -TTAAAATAAT
1 TTTAAAATAAT
1856831 CGTCTGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 15 0.52
22 11 0.38
23 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TTTAAAATAATTATTTAAAGA
Found at i:1857115 original size:22 final size:22
Alignment explanation
Indices: 1857067--1857115 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1857057 GTTGTTGTTA
*
1857067 ATAATGATCTATGTATTTTATC
1 ATAATGATCTATGTATTATATC
* * * *
1857089 GTAATGATTTATTTATTATATT
1 ATAATGATCTATGTATTATATC
1857111 ATAAT
1 ATAAT
1857116 AATATTTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (22 bp):
ATAATGATCTATGTATTATATC
Found at i:1857601 original size:11 final size:12
Alignment explanation
Indices: 1857570--1857601 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1857560 TTTTATATTA
1857570 TATATTTTT-GT
1 TATATTTTTAGT
1857581 TATATTTTTAGT
1 TATATTTTTAGT
1857593 TAT-TTTTTA
1 TATATTTTTA
1857602 TATCATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (12 bp):
TATATTTTTAGT
Found at i:1858498 original size:20 final size:21
Alignment explanation
Indices: 1858470--1858511 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1858460 TCTGACCTAT
*
1858470 TTATCTTATCAAATTT-ATAA
1 TTATATTATCAAATTTCATAA
*
1858490 TTATATTATCTAATTTCATAA
1 TTATATTATCAAATTTCATAA
1858511 T
1 T
1858512 CCAATTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATATTATCAAATTTCATAA
Found at i:1858689 original size:19 final size:17
Alignment explanation
Indices: 1858654--1858704 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 17
1858644 TCAACTCAAT
*
1858654 TAAAATAATTATATAAAA
1 TAAAATAA-AATATAAAA
1858672 TAAAATTAAAACTATAAAA
1 TAAAA-TAAAA-TATAAAA
1858691 TAAAATAAAATATA
1 TAAAATAAAATATA
1858705 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 11 0.37
19 15 0.50
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAAAATATAAAA
Found at i:1865234 original size:17 final size:17
Alignment explanation
Indices: 1865212--1865249 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1865202 TTCATTTAAA
1865212 ATTTATGAACTTATATC
1 ATTTATGAACTTATATC
1865229 ATTTATGAACTTATATC
1 ATTTATGAACTTATATC
1865246 ATTT
1 ATTT
1865250 TGCACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (17 bp):
ATTTATGAACTTATATC
Found at i:1881775 original size:17 final size:20
Alignment explanation
Indices: 1881735--1881775 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 20
1881725 TTTACATGAC
*
1881735 ATTATGAAGAAATATAAATG
1 ATTATGAAGAAATATAAATA
1881755 ATTATG-AGAAA-A-AAATA
1 ATTATGAAGAAATATAAATA
1881772 ATTA
1 ATTA
1881776 AAAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 5 0.25
20 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (20 bp):
ATTATGAAGAAATATAAATA
Found at i:1881943 original size:61 final size:61
Alignment explanation
Indices: 1881873--1881988 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
1881863 TGGTTAATAC
* * *
1881873 TATATTCTTAAAAATATAAATATATAATATATAAATAATATGAAATCTTATAGTATGATTT
1 TATACTCTTAAAAATATAAATACATAATACATAAATAATATGAAATCTTATAGTATGATTT
* * *
1881934 TATACTCTTAAATATATAAATACATAATACGTAAATGATATGAAATCTTATAGTA
1 TATACTCTTAAAAATATAAATACATAATACATAAATAATATGAAATCTTATAGTA
1881989 GGTGATGGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (61 bp):
TATACTCTTAAAAATATAAATACATAATACATAAATAATATGAAATCTTATAGTATGATTT
Found at i:1886180 original size:16 final size:16
Alignment explanation
Indices: 1886155--1886197 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
1886145 GTCACTTGAA
* *
1886155 TTTC-CTTTTTTTCTT
1 TTTCACTTTTTATCTG
*
1886170 TTTTACTTTTTATCTG
1 TTTCACTTTTTATCTG
1886186 TTTCACTTTTTA
1 TTTCACTTTTTA
1886198 ATTTCAGTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTCACTTTTTATCTG
Found at i:1890107 original size:2 final size:2
Alignment explanation
Indices: 1890100--1890126 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1890090 AAGGCCAATA
1890100 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1890127 CACAACGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1890431 original size:21 final size:21
Alignment explanation
Indices: 1890406--1890447 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1890396 TAATTTAATT
1890406 AAATAA-ATAAAAATGATAAAA
1 AAATAATATAAAAAT-ATAAAA
*
1890427 AAATAATATAAATATATAAAA
1 AAATAATATAAAAATATAAAA
1890448 TTAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAATAATATAAAAATATAAAA
Found at i:1890485 original size:2 final size:2
Alignment explanation
Indices: 1890478--1890510 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1890468 TAATTTAATT
1890478 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1890511 TTGACAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1891297 original size:19 final size:22
Alignment explanation
Indices: 1891275--1891317 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
1891265 AATAAAAAAT
1891275 ATAAAAA-ATA-TTATTAT-TA
1 ATAAAAATATAGTTATTATATA
1891294 ATAAAAATATAGTTATTATATA
1 ATAAAAATATAGTTATTATATA
1891316 AT
1 AT
1891318 TAAGACTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 3 0.14
21 7 0.33
22 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAAAAATATAGTTATTATATA
Found at i:1891752 original size:27 final size:28
Alignment explanation
Indices: 1891714--1891772 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
1891704 TAATAAGTAT
1891714 TTTTAAAATATT-ATATATTTATATAA-A
1 TTTTAAAATATTAATA-ATTTATATAATA
*
1891741 TTTTAATATATTAATAATTTATATAATA
1 TTTTAAAATATTAATAATTTATATAATA
1891769 TTTT
1 TTTT
1891773 TTTACATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTAAAATATTAATAATTTATATAATA
Found at i:1891849 original size:25 final size:24
Alignment explanation
Indices: 1891816--1891862 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1891806 TTATTTTTAT
1891816 ATTAAATTTTAATTTTTTATATTAA
1 ATTAAATTTTAATTTTTT-TATTAA
* *
1891841 ATTATATTTTTATTTTTTTATT
1 ATTAAATTTTAATTTTTTTATT
1891863 CATATAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTAAATTTTAATTTTTTTATTAA
Found at i:1891851 original size:20 final size:20
Alignment explanation
Indices: 1891801--1891851 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1891791 CATATCTTAT
1891801 TTATATTATTTTTATATTAAA
1 TTATATT-TTTTTATATTAAA
* *
1891822 TTTTAATTTTTTATATTAAA
1 TTATATTTTTTTATATTAAA
1891842 TTATATTTTT
1 TTATATTTTT
1891852 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATTTTTTTATATTAAA
Found at i:1892729 original size:25 final size:25
Alignment explanation
Indices: 1892699--1892747 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1892689 TATTAAAATA
1892699 ATATTAAAAATAAAAATTAAATTTT
1 ATATTAAAAATAAAAATTAAATTTT
* * *
1892724 ATATTAATATTAAAAATTATATTT
1 ATATTAAAAATAAAAATTAAATTT
1892748 AAATAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTAAAAATAAAAATTAAATTTT
Found at i:1892781 original size:34 final size:34
Alignment explanation
Indices: 1892697--1892783 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 34
1892687 ATTATTAAAA
* *
1892697 TAATATTAAAAATAAAAATT--A-AATTTTATAT
1 TAATATTAAAAATAATATTTAAATAATTTTATAT
* *
1892728 TAATATTAAAAATTATATTTAAATAATTTTTTAT
1 TAATATTAAAAATAATATTTAAATAATTTTATAT
1892762 T-ATA-TAAATAATAATTATTTAA
1 TAATATTAAA-AATAA-TATTTAA
1892784 TTAAATATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 17 0.37
32 4 0.09
33 8 0.17
34 17 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
TAATATTAAAAATAATATTTAAATAATTTTATAT
Found at i:1896452 original size:29 final size:28
Alignment explanation
Indices: 1896407--1896461 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
1896397 TTTTAAAAAA
*
1896407 TAATAAAATTATTTTTATAAAAAAATTCT
1 TAATAAAATTATGTTTA-AAAAAAATTCT
*
1896436 TAATAAATATTA-GTTTAAAACAAATT
1 TAATAAA-ATTATGTTTAAAAAAAATT
1896462 AAATTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 11 0.48
30 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATAAAATTATGTTTAAAAAAAATTCT
Found at i:1896767 original size:6 final size:6
Alignment explanation
Indices: 1896735--1896764 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1896725 ATTAAGTCAT
*
1896735 TTTTTA TTTTTA TTTTTA TTTTTA ATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1896765 ATTGAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:1896890 original size:2 final size:2
Alignment explanation
Indices: 1896883--1896907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1896873 ATAATTGTAG
1896883 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1896908 TGGTAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1897175 original size:13 final size:13
Alignment explanation
Indices: 1897157--1897181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1897147 TATCTAAAAT
1897157 TAAAATTTTTAAG
1 TAAAATTTTTAAG
1897170 TAAAATTTTTAA
1 TAAAATTTTTAA
1897182 TTTTTTTATA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TAAAATTTTTAAG
Found at i:1898233 original size:19 final size:20
Alignment explanation
Indices: 1898211--1898249 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1898201 TATTTTATTT
*
1898211 ATATGAATA-ATAGATTTGA
1 ATATGAATATATAAATTTGA
*
1898230 ATATGATTATATAAATTTGA
1 ATATGAATATATAAATTTGA
1898250 TAGTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (20 bp):
ATATGAATATATAAATTTGA
Found at i:1898273 original size:11 final size:11
Alignment explanation
Indices: 1898257--1898281 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1898247 TGATAGTAAT
1898257 ATTTATATTTA
1 ATTTATATTTA
1898268 ATTTATATTTA
1 ATTTATATTTA
1898279 ATT
1 ATT
1898282 AAGTTTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:1899130 original size:12 final size:12
Alignment explanation
Indices: 1899113--1899246 Score: 58
Period size: 12 Copynumber: 11.8 Consensus size: 12
1899103 AACATACAAA
1899113 ATTTATATATAT
1 ATTTATATATAT
1899125 ATTTATATCATAT
1 ATTTATAT-ATAT
*
1899138 -TTTTTAT-TAT
1 ATTTATATATAT
*
1899148 AATTATAT-T-T
1 ATTTATATATAT
**
1899158 AAATAT-TATAT
1 ATTTATATATAT
1899169 ATTTATATA-A-
1 ATTTATATATAT
*
1899179 ATTT-TA-AAAT
1 ATTTATATATAT
* *
1899189 ATTAATATAAAT
1 ATTTATATATAT
1899201 -TTTGATATAT-T
1 ATTT-ATATATAT
* *
1899212 TTTTATTTATATT
1 ATTTATATATA-T
*
1899225 ATTTTTATATTAT
1 ATTTATATA-TAT
1899238 ATTT-TATAT
1 ATTTATATAT
1899247 TTTATTTATG
Statistics
Matches: 95, Mismatches: 13, Indels: 29
0.69 0.09 0.21
Matches are distributed among these distances:
8 1 0.01
9 4 0.04
10 17 0.18
11 23 0.24
12 32 0.34
13 16 0.17
14 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (12 bp):
ATTTATATATAT
Found at i:1899139 original size:11 final size:10
Alignment explanation
Indices: 1899118--1899251 Score: 57
Period size: 10 Copynumber: 13.3 Consensus size: 10
1899108 ACAAAATTTA
1899118 TATATATATT
1 TATATATATT
1899128 TATATCATATTT
1 TATAT-ATA-TT
* *
1899140 TTTATTATAAT
1 TATA-TATATT
* **
1899151 TATATTTAAA
1 TATATATATT
1899161 TATTATATATT
1 TA-TATATATT
*
1899172 TATATAAATT
1 TATATATATT
*
1899182 T-TAAAATATT
1 TAT-ATATATT
* *
1899192 AATATAAATT
1 TATATATATT
1899202 T-TGATATATT
1 TAT-ATATATT
1899212 T-T-T-TATT
1 TATATATATT
*
1899219 TATATTATTTT
1 TATA-TATATT
1899230 TATATTATATT
1 TATA-TATATT
1899241 T-TATAT-TT
1 TATATATATT
1899249 TAT
1 TAT
1899252 TTATGTTTAA
Statistics
Matches: 94, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
7 5 0.05
8 5 0.05
9 6 0.06
10 40 0.43
11 29 0.31
12 8 0.09
13 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
TATATATATT
Found at i:1899166 original size:19 final size:19
Alignment explanation
Indices: 1899142--1899212 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
1899132 TCATATTTTT
*
1899142 TATTATA-ATTATATTTAAA
1 TATTATATATT-TATATAAA
1899161 TATTATATATTTATATAAA
1 TATTATATATTTATATAAA
* * *
1899180 TTTTAAAATATTAATATAAA
1 TATT-ATATATTTATATAAA
*
1899200 TTTTGATATATTT
1 TATT-ATATATTT
1899213 TTTATTTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 17 0.40
20 26 0.60
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (19 bp):
TATTATATATTTATATAAA
Found at i:1899210 original size:20 final size:20
Alignment explanation
Indices: 1899165--1899211 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1899155 TTTAAATATT
*
1899165 ATATATTTATATAAATTTTA
1 ATATATTAATATAAATTTTA
* *
1899185 AAATATTAATATAAATTTTG
1 ATATATTAATATAAATTTTA
1899205 ATATATT
1 ATATATT
1899212 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATATTAATATAAATTTTA
Found at i:1899247 original size:12 final size:12
Alignment explanation
Indices: 1899217--1899253 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1899207 ATATTTTTTA
1899217 TTTATATTAT-T
1 TTTATATTATAT
1899228 TTTATATTATAT
1 TTTATATTATAT
*
1899240 TTTATATTTTAT
1 TTTATATTATAT
1899252 TT
1 TT
1899254 ATGTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:1899254 original size:11 final size:11
Alignment explanation
Indices: 1899212--1899255 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
1899202 TTGATATATT
1899212 TTTTATTTATA
1 TTTTATTTATA
1899223 TTATT-TTTATA
1 TT-TTATTTATA
*
1899234 TTATATTTTATA
1 TTTTA-TTTATA
1899246 TTTTATTTAT
1 TTTTATTTAT
1899256 GTTTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 15 0.54
12 12 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:1900277 original size:21 final size:20
Alignment explanation
Indices: 1900240--1900278 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1900230 TAAGTTTATA
**
1900240 TTTTTAATATATTAAATAAT
1 TTTTTAATATAAAAAATAAT
1900260 TTTTATAATATAAAAAATA
1 TTTT-TAATATAAAAAATA
1900279 CATATATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTAATATAAAAAATAAT
Found at i:1900379 original size:15 final size:15
Alignment explanation
Indices: 1900361--1900410 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1900351 ATTAAATCAC
*
1900361 TAAAAATTAAACTTT
1 TAAAAAATAAACTTT
* *
1900376 TAAAAAATATATTTT
1 TAAAAAATAAACTTT
1900391 TAAAAAAATAAA--TT
1 T-AAAAAATAAACTTT
1900405 TAAAAA
1 TAAAAA
1900411 TAATATAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.17
14 3 0.10
15 13 0.43
16 9 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAAATAAACTTT
Found at i:1900390 original size:14 final size:15
Alignment explanation
Indices: 1900373--1900410 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1900363 AAAATTAAAC
1900373 TTTTAAAAAATATAT
1 TTTTAAAAAATATAT
*
1900388 TTTTAAAAAA-ATAA
1 TTTTAAAAAATATAT
*
1900402 ATTTAAAAA
1 TTTTAAAAA
1900411 TAATATAAAC
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTTAAAAAATATAT
Found at i:1903830 original size:309 final size:309
Alignment explanation
Indices: 1902831--1904065 Score: 2428
Period size: 309 Copynumber: 4.0 Consensus size: 309
1902821 TTCATAGGTA
1902831 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1902896 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
66 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
1902961 CCAAAACAAAAATTG----ACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
131 CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
1903022 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
196 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
1903087 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
261 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
1903136 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1903201 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
66 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
1903266 CC-AAA-AAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
131 CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
1903329 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
196 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
1903394 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
261 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
1903443 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1903508 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
66 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
1903573 CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
131 CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
1903638 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
196 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
1903703 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
261 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
1903752 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1 TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
1903817 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
66 TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
1903882 CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
131 CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
1903947 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
196 AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
1904012 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
261 GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
1904061 TGTGG
1 TGTGG
1904066 AGAGAGAGGG
Statistics
Matches: 924, Mismatches: 0, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
303 8 0.01
304 3 0.00
305 132 0.14
307 292 0.32
308 3 0.00
309 486 0.53
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (309 bp):
TGTGGGGATATTAAGCCTTAAAAAAACCAAAACGGTAGATAGGACTAGTAAAAGAGCATATTTAG
TTTGAATCTACATCTTCGAGCCAAATGCTAAGGATGGTGATAAGGAACAGTTAGAATATTTATAA
CCAAAACAAAAATTGAAAAACCAGTGATGAAATAAGCTCGGTAAGATTAAAAGGCATGCATAACA
AATGCAGGCAAAATAAATACCCGTTATGTCCTCCATGTCCACCTTTTGGAAGTAGTCTCAATTTG
GCAAAAGGTAAATCTAAGTCATCAAAAATCTGTTAAAGGGAATAGTTAT
Found at i:1904814 original size:2 final size:2
Alignment explanation
Indices: 1904804--1904839 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1904794 TATTCGTAAA
1904804 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1904840 AACACAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1908195 original size:3 final size:3
Alignment explanation
Indices: 1908187--1908215 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1908177 TTCCTTGGTA
1908187 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1908216 AGTGACCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1908689 original size:19 final size:19
Alignment explanation
Indices: 1908650--1908700 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
1908640 TTTTAATGTA
1908650 AATAAATTA--ATTTAATT
1 AATAAATTATTATTTAATT
1908667 --TAAATTATTATTTAATT
1 AATAAATTATTATTTAATT
**
1908684 AATAAAAAATTATTTAA
1 AATAAATTATTATTTAA
1908701 AATAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 7 0.25
17 8 0.29
19 13 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAAATTATTATTTAATT
Found at i:1908745 original size:18 final size:20
Alignment explanation
Indices: 1908722--1908761 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
1908712 AAAATAAACA
1908722 AAATTAAA-CTTAAA-AAAT
1 AAATTAAACCTTAAATAAAT
1908740 AAATTAAACCTTAAATAAAT
1 AAATTAAACCTTAAATAAAT
1908760 AA
1 AA
1908762 TTTTTTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATTAAACCTTAAATAAAT
Found at i:1909016 original size:17 final size:17
Alignment explanation
Indices: 1908990--1909022 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1908980 ATCTATTTTT
1908990 AAAATAAATA-CAAAAA
1 AAAATAAATAGCAAAAA
1909006 AAAAGTAAATAGCAAAA
1 AAAA-TAAATAGCAAAA
1909023 TATGTATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAATAAATAGCAAAAA
Found at i:1914503 original size:22 final size:22
Alignment explanation
Indices: 1914453--1914505 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
1914443 TCTATTTTTA
1914453 ATAATT-TA-TATATTTATATT
1 ATAATTATATTATATTTATATT
* *
1914473 ATTGA-TATATTATTTTTATATT
1 A-TAATTATATTATATTTATATT
1914495 ATAATTATATT
1 ATAATTATATT
1914506 TGAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.08
21 6 0.23
22 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATAATTATATTATATTTATATT
Found at i:1914542 original size:21 final size:20
Alignment explanation
Indices: 1914490--1914548 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
1914480 TATTATTTTT
*
1914490 ATATTATA-ATTATATTTGAAA
1 ATATTATATATT-TATAT-AAA
1914511 ATATTATATATTTATATAAA
1 ATATTATATATTTATATAAA
*
1914531 ATTTTAATATATTTATAT
1 ATATT-ATATATTTATAT
1914549 TATATATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.21
21 24 0.71
22 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATTATATATTTATATAAA
Found at i:1914553 original size:11 final size:11
Alignment explanation
Indices: 1914461--1914553 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
1914451 TAATAATTTA
1914461 TATATTTATAT
1 TATATTTATAT
*
1914472 TAT-TGATATAT
1 TATAT-TTATAT
*
1914483 TATTTTTATAT
1 TATATTTATAT
*
1914494 TATAATTATAT
1 TATATTTATAT
**
1914505 T-TGA-AAATATT
1 TAT-ATTTATA-T
1914516 ATATATTTATAT
1 -TATATTTATAT
* * *
1914528 AAAATTT-TAA
1 TATATTTATAT
1914538 TATATTTATAT
1 TATATTTATAT
1914549 TATAT
1 TATAT
1914554 ATTCATAATA
Statistics
Matches: 60, Mismatches: 14, Indels: 16
0.67 0.16 0.18
Matches are distributed among these distances:
10 12 0.20
11 40 0.67
12 4 0.07
13 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1914553 original size:13 final size:13
Alignment explanation
Indices: 1914458--1914556 Score: 52
Period size: 13 Copynumber: 7.7 Consensus size: 13
1914448 TTTTAATAAT
1914458 TTATATATTTATA
1 TTATATATTTATA
1914471 TTATTGATATATTAT-
1 TTA-T-ATAT-TTATA
*
1914486 TTTTATA-TTATAA
1 TTATATATTTAT-A
*
1914499 TTATAT-TTGAAAATA
1 TTATATATT---TATA
1914514 TTATATATTTATA
1 TTATATATTTATA
*
1914527 -TA-AAATTT-TA
1 TTATATATTTATA
1914537 --ATATATTTATA
1 TTATATATTTATA
1914548 TTATATATT
1 TTATATATT
1914557 CATAATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 28
0.66 0.06 0.28
Matches are distributed among these distances:
9 1 0.02
10 7 0.11
11 11 0.17
12 2 0.03
13 22 0.33
14 2 0.03
15 13 0.20
16 8 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:1916657 original size:3 final size:3
Alignment explanation
Indices: 1916649--1916675 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1916639 ATTTTTTATG
1916649 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1916676 AATCTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1917034 original size:25 final size:25
Alignment explanation
Indices: 1917018--1917066 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1917008 AAAATAATAT
1917018 TATTTTATATTTATTAAATATTAAA
1 TATTTTATATTTATTAAATATTAAA
*
1917043 TATTTTATATTT-TTATAT-TTAAA
1 TATTTTATATTTATTAAATATTAAA
1917066 T
1 T
1917067 TAAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
25 12 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTTTATATTTATTAAATATTAAA
Found at i:1917083 original size:26 final size:28
Alignment explanation
Indices: 1917037--1917090 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
1917027 TTTATTAAAT
1917037 ATTAAATATTTTATATTTTTATATTTAA
1 ATTAAATATTTTATATTTTTATATTTAA
*
1917065 ATTAAA-A-TTTAT-TTATTTATTTTTAA
1 ATTAAATATTTTATATT-TTTATATTTAA
1917091 TTGAATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 15 0.62
27 1 0.04
28 6 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATTAAATATTTTATATTTTTATATTTAA
Found at i:1917296 original size:2 final size:2
Alignment explanation
Indices: 1917289--1917315 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1917279 ACTTGTGGCC
1917289 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1917316 ACCTAGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1918138 original size:23 final size:22
Alignment explanation
Indices: 1918089--1918131 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1918079 AATTTAATTT
**
1918089 ATTAATATAATTATTTTTAAAA
1 ATTAATATAATTAAATTTAAAA
1918111 ATTAATATGAATTAAATTTAA
1 ATTAATAT-AATTAAATTTAA
1918132 GATTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTAATATAATTAAATTTAAAA
Found at i:1923075 original size:13 final size:13
Alignment explanation
Indices: 1923057--1923084 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1923047 ATTATATCTA
1923057 ATATTATCAGGTC
1 ATATTATCAGGTC
1923070 ATATTATCAGGTC
1 ATATTATCAGGTC
1923083 AT
1 AT
1923085 GAAATCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATATTATCAGGTC
Found at i:1926911 original size:2 final size:2
Alignment explanation
Indices: 1926904--1926966 Score: 51
Period size: 2 Copynumber: 32.0 Consensus size: 2
1926894 AAACATAGTG
* * *
1926904 TA TA TA TA AA TA T- TA -A TG TA TG 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
*
1926944 TG TA TA TA GTA -A TCA TA TA TA TA
1 TA TA TA TA -TA TA T-A TA TA TA TA
1926967 AATACAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
1 3 0.06
2 41 0.85
3 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1927103 original size:22 final size:22
Alignment explanation
Indices: 1927078--1927144 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
1927068 AGATTATTAA
*
1927078 TATTAAATTTAAATTTTAAATT
1 TATTAAATATAAATTTTAAATT
* *
1927100 TATTAAATATAATTTTTAAAAAT
1 TATTAAATATAAATTTT-AAATT
1927123 TATT--ATATAAATTAATTAAATT
1 TATTAAATATAAATT--TTAAATT
1927145 CGATAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 8 0.22
22 19 0.51
23 10 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTAAATATAAATTTTAAATT
Found at i:1927310 original size:72 final size:72
Alignment explanation
Indices: 1927193--1927340 Score: 269
Period size: 72 Copynumber: 2.1 Consensus size: 72
1927183 ATTATCAAAA
*
1927193 GTTTTCCTATTAATGTTAGGTCGCTATTGTGAATATATTATCGAAACAAGTCATACATAAACTTT
1 GTTTTCCGATTAATGTTAGGTCGCTATTGTGAATATATTATCGAAACAAGTCATACATAAACTTT
1927258 AGTACAT
66 AGTACAT
**
1927265 GTTTTCCGATTAATGTTAGGTCGCTATTGTGAATATATTATCGAAACAAGTTGTACATAAACTTT
1 GTTTTCCGATTAATGTTAGGTCGCTATTGTGAATATATTATCGAAACAAGTCATACATAAACTTT
1927330 AGTACAT
66 AGTACAT
1927337 GTTT
1 GTTT
1927341 CTCGATGCCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (72 bp):
GTTTTCCGATTAATGTTAGGTCGCTATTGTGAATATATTATCGAAACAAGTCATACATAAACTTT
AGTACAT
Found at i:1928871 original size:11 final size:10
Alignment explanation
Indices: 1928845--1928989 Score: 115
Period size: 10 Copynumber: 14.5 Consensus size: 10
1928835 AATTTTTTTT
*
1928845 TATTTATATG
1 TATTTATATA
1928855 TATTTATATTA
1 TATTTATA-TA
1928866 TATTTATATTA
1 TATTTATA-TA
1928877 TATTTATATA
1 TATTTATATA
*
1928887 T-TATA-ATTA
1 TATTTATA-TA
*
1928896 TATTTA-AAA
1 TATTTATATA
1928905 T-TTTATATA
1 TATTTATATA
*
1928914 TATTTATAAA
1 TATTTATATA
*
1928924 AATTTA-ATA
1 TATTTATATA
* *
1928933 TATTAATAATT
1 TATTTAT-ATA
1928944 TATATTATATA
1 TAT-TTATATA
1928955 TATTTA-ATA
1 TATTTATATA
1928964 TATTTATATTA
1 TATTTATA-TA
1928975 TATTTA-ATCA
1 TATTTATAT-A
1928985 TATTT
1 TATTT
1928990 TAATTATTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
8 5 0.05
9 27 0.24
10 38 0.34
11 38 0.34
12 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (10 bp):
TATTTATATA
Found at i:1928891 original size:24 final size:24
Alignment explanation
Indices: 1928859--1929005 Score: 119
Period size: 24 Copynumber: 6.1 Consensus size: 24
1928849 TATATGTATT
1928859 TATATTATATTTATATTATATTTA
1 TATATTATATTTATATTATATTTA
* *
1928883 TATATTATAATTATATTTAAAATTT-
1 TATATTATATTTATA-TT-ATATTTA
* *
1928908 TATA-TATATTTATA-AAAATTTAA
1 TATATTATATTTATATTATATTT-A
*
1928931 TATATTAATAATTTATATTATATATA
1 TATATT-AT-ATTTATATTATATTTA
* *
1928957 TTTAATATATTTATATTATATTTA
1 TATATTATATTTATATTATATTTA
1928981 -ATCA-TAT-TTTA-ATTATTATTTA
1 TAT-ATTATATTTATATTA-TATTTA
1929003 TAT
1 TAT
1929006 GATATGATTA
Statistics
Matches: 101, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
21 10 0.10
22 10 0.10
23 10 0.10
24 40 0.40
25 10 0.10
26 17 0.17
27 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATTATATTTATATTATATTTA
Found at i:1928935 original size:37 final size:39
Alignment explanation
Indices: 1928868--1929004 Score: 117
Period size: 37 Copynumber: 3.4 Consensus size: 39
1928858 TTATATTATA
1928868 TTTATATTATATTTAT--ATATTATAATTATATTTAA-AAT
1 TTTATA-TATATTTATAAATATT-TAATTATATTTAATAAT
*
1928906 TTTATATATATTTATAAAAATTTAA-TATA-TTAATAAT
1 TTTATATATATTTATAAATATTTAATTATATTTAATAAT
1928943 TTATATTATATATATT-TAATATATTTATATTATATTTAATCATAT
1 TT-TA-TATATAT-TTATAA-ATATTTA-ATTATATTTAAT-A-AT
1928988 TTTA-ATTATTATTTATA
1 TTTATA-TA-TATTTATA
1929005 TGATATGATT
Statistics
Matches: 82, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
36 4 0.05
37 18 0.22
38 11 0.13
39 14 0.17
40 8 0.10
41 1 0.01
42 5 0.06
43 9 0.11
44 8 0.10
45 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (39 bp):
TTTATATATATTTATAAATATTTAATTATATTTAATAAT
Found at i:1929002 original size:11 final size:10
Alignment explanation
Indices: 1928855--1929002 Score: 82
Period size: 11 Copynumber: 14.6 Consensus size: 10
1928845 TATTTATATG
1928855 TATTTATATTA
1 TATTTA-ATTA
1928866 TATTTATATTA
1 TATTTA-ATTA
1928877 TATTT-A-TA
1 TATTTAATTA
1928885 TATTATAATTA
1 TATT-TAATTA
1928896 TATTTAA--A
1 TATTTAATTA
*
1928904 -ATTTTATATA
1 TATTTAAT-TA
*
1928914 TATTT-ATAAA
1 TATTTAAT-TA
*
1928924 AATTTAA-TA
1 TATTTAATTA
1928933 TATTAATAATT-
1 TATT--TAATTA
1928944 TATATT-ATATA
1 TAT-TTAAT-TA
1928955 TATTTAA-TA
1 TATTTAATTA
1928964 TATTTATATTA
1 TATTTA-ATTA
*
1928975 TATTTAATCA
1 TATTTAATTA
1928985 TATTTTAATTA
1 TA-TTTAATTA
1928996 TTATTTA
1 -TATTTA
1929003 TATGATATGA
Statistics
Matches: 111, Mismatches: 7, Indels: 38
0.71 0.04 0.24
Matches are distributed among these distances:
7 5 0.05
8 7 0.06
9 16 0.14
10 23 0.21
11 56 0.50
12 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTAATTA
Found at i:1929580 original size:32 final size:31
Alignment explanation
Indices: 1929534--1929617 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
1929524 TATGATATAA
1929534 AAAATTTAAATATAATATAATTATATAA-ATATAT
1 AAAATTT--ATATAATATAATTAT-TAATATAT-T
*
1929568 AAAATTTTTATAATATTAATTATTAATATATT
1 AAAATTTATATAATA-TAATTATTAATATATT
*
1929600 AAAATTTATATAAAATAA
1 AAAATTTATATAATATAA
1929618 ATAATGTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
31 3 0.07
32 24 0.53
33 11 0.24
34 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
AAAATTTATATAATATAATTATTAATATATT
Found at i:1930552 original size:13 final size:13
Alignment explanation
Indices: 1930523--1930562 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
1930513 TAATTCAGTA
*
1930523 TTTAATTTAATATT
1 TTTAATTGAA-ATT
1930537 TTTAATTGAAATT
1 TTTAATTGAAATT
1930550 TTT-ATTGAAATT
1 TTTAATTGAAATT
1930562 T
1 T
1930563 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.40
13 6 0.24
14 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (13 bp):
TTTAATTGAAATT
Found at i:1931262 original size:20 final size:19
Alignment explanation
Indices: 1931237--1931295 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
1931227 AAAAATTATT
1931237 AATATATTAAAATTTATATA
1 AATATATT-AAATTTATATA
*
1931257 AATATA-T-AATATAT-TA
1 AATATATTAAATTTATATA
1931273 AATATAATTATAATTTATA-A
1 AATAT-ATTA-AATTTATATA
1931293 AAT
1 AAT
1931296 TTTACAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
16 7 0.22
17 7 0.22
18 1 0.03
19 1 0.03
20 16 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATATTAAATTTATATA
Found at i:1931291 original size:27 final size:27
Alignment explanation
Indices: 1931236--1931314 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
1931226 TAAAAATTAT
*
1931236 TAATATATTAAAATTTATATAAATATA
1 TAATATATTAAAATATATATAAATATA
*
1931263 TAATATATT-AAATATA-ATTATAATTTA
1 TAATATATTAAAATATATA-TA-AATATA
* *
1931290 TAAAATTTTACAAATATAATATAAA
1 TAATATATTA-AAATAT-ATATAAA
1931315 AATGTAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.02
26 8 0.19
27 21 0.50
29 8 0.19
30 3 0.07
31 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TAATATATTAAAATATATATAAATATA
Found at i:1931776 original size:3 final size:3
Alignment explanation
Indices: 1931770--1931808 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1931760 AAGAAAACAA
1931770 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1931809 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1936409 original size:21 final size:22
Alignment explanation
Indices: 1936364--1936417 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1936354 TGGACATGTT
1936364 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
*
1936386 AAAAATGCATGAAACGTAAT-A
1 AAAAATGCATGAAACATAATAA
1936407 AAAAATGCATG
1 AAAAATGCATG
1936418 GTCAAAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1937377 original size:20 final size:20
Alignment explanation
Indices: 1937330--1937404 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1937320 AAAAAGACAT
*
1937330 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1937349 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1937370 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1937390 AATGTATCGATACAT
1 AATGTATCGATACAT
1937405 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1937398 original size:40 final size:39
Alignment explanation
Indices: 1937327--1937404 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1937317 GGTAAAAAGA
* *
1937327 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1937366 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1937405 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1939344 original size:2 final size:2
Alignment explanation
Indices: 1939337--1939366 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1939327 GGAAGCATTA
1939337 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
1939367 TTGGAATGTA
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):
AT
Found at i:1941836 original size:17 final size:17
Alignment explanation
Indices: 1941801--1941863 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
1941791 GAAATTTTTC
* * *
1941801 ATATAAAAATAATATAA
1 ATATTAAAATATTAAAA
1941818 ATATTAAAATATTAAAA
1 ATATTAAAATATTAAAA
* *
1941835 AT-TT-ATATATAAAAA
1 ATATTAAAATATTAAAA
*
1941850 ATATTAATATATTA
1 ATATTAAAATATTA
1941864 TATTTTACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 11 0.29
16 4 0.11
17 23 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATTAAAATATTAAAA
Found at i:1941844 original size:15 final size:17
Alignment explanation
Indices: 1941816--1941863 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
1941806 AAAATAATAT
*
1941816 AAATATTAAAATATTAA
1 AAATATTAATATATTAA
*
1941833 AAAT-TT-ATATATAAA
1 AAATATTAATATATTAA
1941848 AAATATTAATATATTA
1 AAATATTAATATATTA
1941864 TATTTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
17 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATTAATATATTAA
Found at i:1941878 original size:20 final size:21
Alignment explanation
Indices: 1941855--1941901 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1941845 AAAAAATATT
*
1941855 AATATATTATA-TTTTACATA
1 AATATATAATATTTTTACATA
*
1941875 AATATCTAATATTTTTACATA
1 AATATATAATATTTTTACATA
*
1941896 ATTATA
1 AATATA
1941902 AAAAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATATAATATTTTTACATA
Found at i:1944322 original size:2 final size:2
Alignment explanation
Indices: 1944315--1944346 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1944305 ATCAATTCTG
1944315 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
1944347 GAGAAATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1947675 original size:15 final size:16
Alignment explanation
Indices: 1947637--1947679 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1947627 TAAATTATAT
1947637 ATTTA-ATTATAATTA
1 ATTTATATTATAATTA
*
1947652 ATTTAATATTTTAA-TA
1 ATTT-ATATTATAATTA
1947668 ATTTATATTATA
1 ATTTATATTATA
1947680 TTATCCAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 7 0.29
17 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTATATTATAATTA
Found at i:1947925 original size:13 final size:13
Alignment explanation
Indices: 1947881--1947915 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1947871 TTTTATAATT
1947881 TTAATATTTTTAA
1 TTAATATTTTTAA
1947894 TTAATATTTTTAA
1 TTAATATTTTTAA
1947907 TTAATATTT
1 TTAATATTT
1947916 ATTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTAATATTTTTAA
Found at i:1947925 original size:26 final size:26
Alignment explanation
Indices: 1947881--1947934 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1947871 TTTTATAATT
* * *
1947881 TTAATATTTTTAATTAATATTTTTAA
1 TTAATATTTTTAATAAATAATTATAA
1947907 TTAATATTTATT-ATAAATAATTATAA
1 TTAATATTT-TTAATAAATAATTATAA
1947933 TT
1 TT
1947935 TTTATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTAATATTTTTAATAAATAATTATAA
Found at i:1951116 original size:10 final size:10
Alignment explanation
Indices: 1951087--1951116 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1951077 ATAAAGAATT
1951087 GAAAAAAAAA
1 GAAAAAAAAA
1951097 -AAAAAAAAA
1 GAAAAAAAAA
1951106 GAAAAAAAAA
1 GAAAAAAAAA
1951116 G
1 G
1951117 TTAACCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:1955068 original size:2 final size:2
Alignment explanation
Indices: 1955056--1955093 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1955046 AAGCAAGCAA
*
1955056 AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1955094 GATCAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
AG
Found at i:1956337 original size:6 final size:6
Alignment explanation
Indices: 1956313--1956382 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
1956303 ATAATAATAA
** * * * *
1956313 TATTGT TAGGGT TACTGT TCTTGT TATTGT TATTGT TGTTGT TGTTGT
1 TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT
* ** *
1956361 TGTTAC TATTGT TATTAT TATT
1 TATTGT TATTGT TATTGT TATT
1956383 AAGAATGTAG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.14, C:0.04, G:0.20, T:0.61
Consensus pattern (6 bp):
TATTGT
Found at i:1956778 original size:6 final size:6
Alignment explanation
Indices: 1956767--1956791 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1956757 CTCTCTTTTT
1956767 TCAATC TCAATC TCAATC TCAATC T
1 TCAATC TCAATC TCAATC TCAATC T
1956792 ATACGTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (6 bp):
TCAATC
Found at i:1957739 original size:20 final size:19
Alignment explanation
Indices: 1957716--1957758 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1957706 ATTAAATATG
*
1957716 ATATAAAAATATTATTATAA
1 ATATAAAAATATT-TAATAA
*
1957736 ATAT-AATATATTTAATAA
1 ATATAAAAATATTTAATAA
1957754 ATATA
1 ATATA
1957759 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATAAAAATATTTAATAA
Found at i:1957754 original size:32 final size:32
Alignment explanation
Indices: 1957718--1957786 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
1957708 TAAATATGAT
1957718 ATAAAAATATT-ATTATAA-ATATAATATATTTA
1 ATAAAAATATTAATT-TAATATAT-ATATATTTA
* *
1957750 ATAAATATATTAATTTAATATATTTATATTTA
1 ATAAAAATATTAATTTAATATATATATATTTA
1957782 A-AAAA
1 ATAAAA
1957787 TTAATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
31 3 0.09
32 22 0.69
33 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
ATAAAAATATTAATTTAATATATATATATTTA
Found at i:1957758 original size:13 final size:13
Alignment explanation
Indices: 1957708--1957775 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 13
1957698 TTCGTAATAT
*
1957708 TAAATATGATATAA
1 TAAATAT-ATTTAA
1957722 -AAATATTATTATAAA
1 TAAATA-TATT-T-AA
1957737 TATAATATATTTAA
1 TA-AATATATTTAA
1957751 TAAATATA-TTAA
1 TAAATATATTTAA
*
1957763 TTTAATATATTTA
1 -TAAATATATTTA
1957776 TATTTAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
12 4 0.09
13 20 0.44
14 9 0.20
15 3 0.07
16 5 0.11
17 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (13 bp):
TAAATATATTTAA
Found at i:1957796 original size:17 final size:18
Alignment explanation
Indices: 1957732--1957798 Score: 72
Period size: 17 Copynumber: 4.0 Consensus size: 18
1957722 AAATATTATT
1957732 ATAAATATAATATATTTA
1 ATAAATATAATATATTTA
*
1957750 ATAAATATATTA-ATTTA
1 ATAAATATAATATATTTA
*
1957767 AT--ATAT-TTATATTTA
1 ATAAATATAATATATTTA
*
1957782 AAAAAT-TAATATATTTA
1 ATAAATATAATATATTTA
1957799 TTACTTTGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 3 0.07
15 10 0.24
16 1 0.02
17 17 0.40
18 11 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAATATAATATATTTA
Found at i:1958602 original size:13 final size:13
Alignment explanation
Indices: 1958575--1958614 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1958565 TTAATTTTTT
1958575 TAAATATAA-TTA
1 TAAATATAATTTA
* *
1958587 TAATTATCATTTA
1 TAAATATAATTTA
1958600 TAAATATAATTTA
1 TAAATATAATTTA
1958613 TA
1 TA
1958615 TAATTATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATATAATTTA
Done.