Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold951
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: 111253
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:6120 original size:20 final size:20
Alignment explanation
Indices: 6095--6154 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
6085 CTAGATATAA
6095 CGATACATTTTTCAATGTAT
1 CGATACATTTTTCAATGTAT
* * *
6115 CGATACATGTATGAATGTAT
1 CGATACATTTTTCAATGTAT
*
6135 CGATACATTCTTCAATGTAT
1 CGATACATTTTTCAATGTAT
6155 TAATACATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
CGATACATTTTTCAATGTAT
Found at i:6160 original size:20 final size:20
Alignment explanation
Indices: 6095--6165 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
6085 CTAGATATAA
*
6095 CGATACATTTTTCAATGTAT
1 CGATACATTCTTCAATGTAT
* *
6115 CGATACATGT-ATGAATGTAT
1 CGATACAT-TCTTCAATGTAT
6135 CGATACATTCTTCAATGTAT
1 CGATACATTCTTCAATGTAT
**
6155 TAATACATTCT
1 CGATACATTCT
6166 GTCTTTTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.41
Consensus pattern (20 bp):
CGATACATTCTTCAATGTAT
Found at i:13528 original size:34 final size:32
Alignment explanation
Indices: 13461--13528 Score: 75
Period size: 34 Copynumber: 2.1 Consensus size: 32
13451 TATTTTATTA
**
13461 AAATAAAAAATTTATTTATAATATATACTAAT
1 AAATAAAAAATTTATTTATAATATATAAAAAT
*
13493 AAATATAAAAATTTAATTTAT-TTATGATAAAAAT
1 AAATA-AAAAATTT-ATTTATAATAT-ATAAAAAT
13527 AA
1 AA
13529 TTTATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 5 0.17
33 11 0.37
34 14 0.47
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (32 bp):
AAATAAAAAATTTATTTATAATATATAAAAAT
Found at i:16842 original size:15 final size:15
Alignment explanation
Indices: 16822--16853 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16812 ACAAAACCAA
16822 AATAATAATAACAAT
1 AATAATAATAACAAT
16837 AATAATAATAACAAT
1 AATAATAATAACAAT
16852 AA
1 AA
16854 AAACCGTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:20375 original size:16 final size:17
Alignment explanation
Indices: 20340--20378 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
20330 TGGCTGAAAA
*
20340 AAAATATATTTAAATTT
1 AAAATATATTTAAATAT
*
20357 AAAATA-ATTTATATAT
1 AAAATATATTTAAATAT
20373 AAAATA
1 AAAATA
20379 CCTTAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATATATTTAAATAT
Found at i:20591 original size:20 final size:21
Alignment explanation
Indices: 20575--20617 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 21
20565 TTGTAATGAT
20575 AAATTAAATATTATAATAATA
1 AAATTAAATATTATAATAATA
20596 AAATTAAA-ATTAT--TAATA
1 AAATTAAATATTATAATAATA
20614 AAAT
1 AAAT
20618 ATATTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTAAATATTATAATAATA
Found at i:21672 original size:18 final size:18
Alignment explanation
Indices: 21632--21688 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
21622 ACTTACATTA
*
21632 TAAATCATAT-TATTTTAC
1 TAAAT-ATATATATTTTAT
*
21650 CAAATATATATATTTTAT
1 TAAATATATATATTTTAT
*
21668 TAAATATTTACTATATTTAT
1 TAAATATATA-TAT-TTTAT
21688 T
1 T
21689 GCATATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.12
18 19 0.59
19 3 0.09
20 6 0.19
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATATATATATTTTAT
Found at i:22479 original size:17 final size:18
Alignment explanation
Indices: 22441--22478 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22431 AATGATTGAA
*
22441 TTTTAATTTGAATTGATT
1 TTTTAATTTAAATTGATT
22459 TTTTAA-TTAAATTG-TT
1 TTTTAATTTAAATTGATT
22475 TTTT
1 TTTT
22479 TTATCATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (18 bp):
TTTTAATTTAAATTGATT
Found at i:24875 original size:21 final size:21
Alignment explanation
Indices: 24851--24906 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
24841 TTTTTACCAA
24851 AATGTATCGATACATGCCCTT
1 AATGTATCGATACATGCCCTT
24872 AATGTATCGATACATGCCCTT
1 AATGTATCGATACATGCCCTT
24893 AATGTATCGATACA
1 AATGTATCGATACA
24907 AAGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATGCCCTT
Found at i:25050 original size:20 final size:20
Alignment explanation
Indices: 25027--25080 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
25017 ATTTTGCATT
*
25027 GTATTGATACATTGCTAATG
1 GTATCGATACATTGCTAATG
*
25047 GTATCGATACATTGCTCATG
1 GTATCGATACATTGCTAATG
25067 GTATCGATACATTG
1 GTATCGATACATTG
25081 TATCGATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTGCTAATG
Found at i:25084 original size:33 final size:33
Alignment explanation
Indices: 25047--25112 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
25037 ATTGCTAATG
25047 GTATCGATACATTGCTCATGGTATCGATACATT
1 GTATCGATACATTGCTCATGGTATCGATACATT
* *
25080 GTATCGATATATTGCTCATTGTATCGATACATT
1 GTATCGATACATTGCTCATGGTATCGATACATT
25113 TTACAATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (33 bp):
GTATCGATACATTGCTCATGGTATCGATACATT
Found at i:25099 original size:20 final size:20
Alignment explanation
Indices: 25023--25112 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
25013 ATACATTTTG
*
25023 CATTGTATTGATACATTGCT
1 CATTGTATCGATACATTGCT
* *
25043 AATGGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
*
25063 CATGGTATCGAT--A-----
1 CATTGTATCGATACATTGCT
*
25076 CATTGTATCGATATATTGCT
1 CATTGTATCGATACATTGCT
25096 CATTGTATCGATACATT
1 CATTGTATCGATACATT
25113 TTACAATGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
13 11 0.19
15 1 0.02
18 1 0.02
20 44 0.77
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:27471 original size:50 final size:52
Alignment explanation
Indices: 27266--27483 Score: 216
Period size: 51 Copynumber: 4.3 Consensus size: 52
27256 TTCATCTCGA
* *
27266 GGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGG
1 GGATACTCCAACTCCCGATTTCATTTCCAAAACATCAATTTTTCTCAATCGG
* * * * * ** *
27317 GGATACTCCAACT-CCGATTTTATTTCTAAAGCAACGATTTACCGCAATCGG
1 GGATACTCCAACTCCCGATTTCATTTCCAAAACATCAATTTTTCTCAATCGG
* * * *
27368 GGATACTCCAA-TCCCAATTTCATCTCCAAGACATCAATTTTTCTTAATC-G
1 GGATACTCCAACTCCCGATTTCATTTCCAAAACATCAATTTTTCTCAATCGG
* * * * *
27418 GGATACTCCAACT-CCGATTTTATTTTCAAAACACCAA-TTTTCACAATTGG
1 GGATACTCCAACTCCCGATTTCATTTCCAAAACATCAATTTTTCTCAATCGG
27468 GGATACTCCAAC-CCCG
1 GGATACTCCAACTCCCG
27484 TTATTTCCGA
Statistics
Matches: 131, Mismatches: 31, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
49 8 0.06
50 47 0.36
51 75 0.57
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
GGATACTCCAACTCCCGATTTCATTTCCAAAACATCAATTTTTCTCAATCGG
Found at i:27490 original size:102 final size:102
Alignment explanation
Indices: 27266--27483 Score: 307
Period size: 102 Copynumber: 2.2 Consensus size: 102
27256 TTCATCTCGA
* *
27266 GGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTC
1 GGATACTCCAATCCCGATTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTC
* * *
27331 CGATTTTATTTCTAAAGCAACGATTTACCGCAATCGG
66 CGATTTTATTTCTAAAACAACAATTTACCACAATCGG
* *
27368 GGATACTCCAATCCCAATTTCATCTCCAAGACATCAATTTTTCTTAATC-GGGATACTCCAACTC
1 GGATACTCCAATCCCGATTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTC
* * *
27432 CGATTTTATTT-TCAAAACACCAATTT-TCACAATTGG
66 CGATTTTATTTCT-AAAACAACAATTTACCACAATCGG
*
27468 GGATACTCCAACCCCG
1 GGATACTCCAATCCCG
27484 TTATTTCCGA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
100 22 0.21
101 36 0.35
102 45 0.44
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (102 bp):
GGATACTCCAATCCCGATTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTC
CGATTTTATTTCTAAAACAACAATTTACCACAATCGG
Found at i:27659 original size:51 final size:52
Alignment explanation
Indices: 27604--27720 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
27594 TATTTCCGAA
* *
27604 GGGATACTCCAACCCT-GATTTTA-TTTCTAAAATACCAATTTTTCACAACCG
1 GGGATACTCCAACCCTCGATTTTAGTTTC-AAAACACCAATTTCTCACAACCG
* *
27655 GGGATACTCCAA-CTTCGATTTTAGTTTCAAAACACCAATTTCTCACAATCG
1 GGGATACTCCAACCCTCGATTTTAGTTTCAAAACACCAATTTCTCACAACCG
27706 GGGATACTCCAACCC
1 GGGATACTCCAACCC
27721 CGTTATTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
50 2 0.03
51 51 0.88
52 5 0.09
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (52 bp):
GGGATACTCCAACCCTCGATTTTAGTTTCAAAACACCAATTTCTCACAACCG
Found at i:27738 original size:28 final size:28
Alignment explanation
Indices: 27704--27777 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
27694 TTCTCACAAT
27704 CGGGGATACTCCAACCCCGTTATTTTCA
1 CGGGGATACTCCAACCCCGTTATTTTCA
*
27732 CTGGGATACTCCAACCCCGTTATTTTCA
1 CGGGGATACTCCAACCCCGTTATTTTCA
27760 CGGGGATACTCCAACCCC
1 CGGGGATACTCCAACCCC
27778 AACCTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.26
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCA
Found at i:28884 original size:13 final size:12
Alignment explanation
Indices: 28850--28888 Score: 55
Period size: 10 Copynumber: 3.3 Consensus size: 12
28840 GCACGTAGCG
28850 ATAATTATATTA
1 ATAATTATATTA
28862 ATAA--ATATTA
1 ATAATTATATTA
28872 AGTAATTATATTA
1 A-TAATTATATTA
28885 ATAA
1 ATAA
28889 ATAAATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 7 0.29
13 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
ATAATTATATTA
Found at i:29153 original size:15 final size:15
Alignment explanation
Indices: 29110--29153 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
29100 ATTATTATAA
*
29110 AGTTATCAT-TTTTT
1 AGTTATTATATTTTT
*
29124 ATTTATTA-ATTTTT
1 AGTTATTATATTTTT
29138 AGTTATTATATTTTT
1 AGTTATTATATTTTT
29153 A
1 A
29154 AAAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (15 bp):
AGTTATTATATTTTT
Found at i:29202 original size:19 final size:18
Alignment explanation
Indices: 29166--29210 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
29156 AAATAAATGC
29166 TTATTAATTTTATATTTT
1 TTATTAATTTTATATTTT
* *
29184 TTATTAAATTTGTA-TTT
1 TTATTAATTTTATATTTT
29201 TTATTAATTT
1 TTATTAATTT
29211 ATAATGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTAATTTTATATTTT
Found at i:29203 original size:17 final size:18
Alignment explanation
Indices: 29166--29213 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
29156 AAATAAATGC
*
29166 TTATTAATTTTATATTTT
1 TTATTAAATTTATATTTT
*
29184 TTATTAAATTTGTA-TTT
1 TTATTAAATTTATATTTT
29201 TTATT-AATTTATA
1 TTATTAAATTTATA
29214 ATGCTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 7 0.26
17 8 0.30
18 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTAAATTTATATTTT
Found at i:29341 original size:19 final size:19
Alignment explanation
Indices: 29299--29341 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
29289 TTATAAAATA
29299 TAATTTTATTATTAACATT
1 TAATTTTATTATTAACATT
*
29318 AAATTTTATTATTAA-ATTT
1 TAATTTTATTATTAACA-TT
29337 TAATT
1 TAATT
29342 AAATTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATTTTATTATTAACATT
Found at i:31314 original size:15 final size:15
Alignment explanation
Indices: 31294--31324 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31284 ACCATCTCTA
31294 AACTCAGCTAGTGGC
1 AACTCAGCTAGTGGC
31309 AACTCAGCTAGTGGC
1 AACTCAGCTAGTGGC
31324 A
1 A
31325 CCAGACTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (15 bp):
AACTCAGCTAGTGGC
Found at i:31997 original size:20 final size:21
Alignment explanation
Indices: 31957--32003 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
31947 TTCTATAATT
31957 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAATAGTAAA
*
31978 TGTATCGATACATA-AGTAAA
1 TGTATCGATACAAATAGTAAA
31998 TGTATC
1 TGTATC
32004 AATAAATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAAATAGTAAA
Found at i:38272 original size:17 final size:18
Alignment explanation
Indices: 38238--38276 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
38228 AAAAAAAATT
38238 ATTTTAATAATTTATTTTA
1 ATTTTAATAA-TTATTTTA
38257 ATTTTAATAA-TATTTTA
1 ATTTTAATAATTATTTTA
38274 ATT
1 ATT
38277 GAATCATCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATAATTATTTTA
Found at i:39590 original size:15 final size:15
Alignment explanation
Indices: 39590--39618 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39580 TTATATTAAA
39590 TATATTAAATATATT
1 TATATTAAATATATT
39605 TATATTAAATATAT
1 TATATTAAATATAT
39619 ATTTATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTAAATATATT
Found at i:39593 original size:9 final size:9
Alignment explanation
Indices: 39564--39618 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
39554 TATAAGATAT
*
39564 AATATTTTA
1 AATATATTA
39573 AATATATT-
1 AATATATTA
39581 --TATATTA
1 AATATATTA
39588 AATATATTA
1 AATATATTA
39597 AATATATT-
1 AATATATTA
39605 --TATATTA
1 AATATATTA
39612 AATATAT
1 AATATAT
39619 ATTTATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
6 12 0.31
9 27 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
AATATATTA
Found at i:39594 original size:17 final size:17
Alignment explanation
Indices: 39590--39650 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
39580 TTATATTAAA
39590 TATATT-AA-ATATATT
1 TATATTAAATATATATT
39605 TATATTAAATATATATT
1 TATATTAAATATATATT
** *
39622 TATATTTGATATTTATT
1 TATATTAAATATATATT
*
39639 TAAATTTAAATA
1 TATA-TTAAATA
39651 AGATAACTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 6 0.16
16 2 0.05
17 24 0.65
18 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TATATTAAATATATATT
Found at i:39597 original size:24 final size:24
Alignment explanation
Indices: 39564--39618 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
39554 TATAAGATAT
*
39564 AATATTTTAAATATATTTATATTA
1 AATATATTAAATATATTTATATTA
39588 AATATATTAAATATATTTATATTA
1 AATATATTAAATATATTTATATTA
39612 AATATAT
1 AATATAT
39619 ATTTATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATATATTAAATATATTTATATTA
Found at i:41755 original size:15 final size:15
Alignment explanation
Indices: 41737--41788 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
41727 AATATTAAAA
41737 TATTTAAATTTAATT
1 TATTTAAATTTAATT
**
41752 TATTTAAAAATAATT
1 TATTTAAATTTAATT
*
41767 AAATTT-AATTTAATT
1 -TATTTAAATTTAATT
*
41782 TTTTTAA
1 TATTTAA
41789 TAAAACTTGA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
14 3 0.11
15 21 0.75
16 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTAAATTTAATT
Found at i:41976 original size:12 final size:13
Alignment explanation
Indices: 41939--41981 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
41929 ATTAAGCTAA
41939 AATTATTTTTTTAGT
1 AATT-TTTTTTTA-T
41954 AATTTTATTTTTAT
1 AATTTT-TTTTTAT
41968 AA-TTTTTTTTAT
1 AATTTTTTTTTAT
41980 AA
1 AA
41982 ATGTTGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 3 0.11
14 5 0.19
15 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
AATTTTTTTTTAT
Found at i:43028 original size:34 final size:34
Alignment explanation
Indices: 42982--43199 Score: 282
Period size: 34 Copynumber: 6.5 Consensus size: 34
42972 GTAAAAACCA
*
42982 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
43016 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
43050 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
43084 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
43117 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
43151 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
43184 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
43200 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 45 0.28
34 115 0.71
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:43096 original size:68 final size:67
Alignment explanation
Indices: 42980--43199 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
42970 TGGTAAAAAC
* * *
42980 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
43045 AT
66 AT
* * *
43047 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
43112 AAT
65 AAT
* * * * * *
43115 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
43180 AT
66 AT
43182 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
43200 TCTCCCACTT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:47655 original size:34 final size:34
Alignment explanation
Indices: 47609--47824 Score: 278
Period size: 34 Copynumber: 6.4 Consensus size: 34
47599 GTAAAAACCA
*
47609 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
47643 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
47677 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
47711 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
47744 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
47778 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
47811 CCATTTAATCAACA
1 CCATTTAATCAACA
47825 GATTTCCCTT
Statistics
Matches: 160, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 43 0.27
34 115 0.72
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:47723 original size:68 final size:67
Alignment explanation
Indices: 47607--47824 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
47597 TGGTAAAAAC
* * *
47607 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
47672 AT
66 AT
* * *
47674 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
47739 AAT
65 AAT
* * * * * *
47742 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
47807 AT
66 AT
47809 CACCATTTAATCAACA
1 CACCATTTAATCAACA
47825 GATTTCCCTT
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:50440 original size:27 final size:27
Alignment explanation
Indices: 50409--50461 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
50399 AAATGCCACC
50409 CTTTGTATTTGTCAAATATGGTGGTTT
1 CTTTGTATTTGTCAAATATGGTGGTTT
50436 CTTTGTATTTGTCAAATATGGTGGTT
1 CTTTGTATTTGTCAAATATGGTGGTT
50462 ATTTTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.51
Consensus pattern (27 bp):
CTTTGTATTTGTCAAATATGGTGGTTT
Found at i:50479 original size:27 final size:27
Alignment explanation
Indices: 50409--50477 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
50399 AAATGCCACC
*
50409 CTTTGTATTTGTCAAATATGGTGGTTT
1 CTTTGTATTTGTAAAATATGGTGGTTT
*
50436 CTTTGTATTTGTCAAATATGGTGGTTAT
1 CTTTGTATTTGTAAAATATGGTGGTT-T
*
50464 -TTT-TGTTTGTAAAA
1 CTTTGTATTTGTAAAA
50478 ATTGGTAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
26 9 0.23
27 29 0.74
28 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.52
Consensus pattern (27 bp):
CTTTGTATTTGTAAAATATGGTGGTTT
Found at i:55024 original size:28 final size:28
Alignment explanation
Indices: 54984--55038 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
54974 CAAATGCCAC
* *
54984 CCTTTGTATTTGTCCAATATGGTGGTTT
1 CCTTTATATTTGTCAAATATGGTGGTTT
55012 CCTTTATATTTGTCAAATATGGTGGTT
1 CCTTTATATTTGTCAAATATGGTGGTT
55039 ATTTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.20, T:0.49
Consensus pattern (28 bp):
CCTTTATATTTGTCAAATATGGTGGTTT
Found at i:55079 original size:24 final size:24
Alignment explanation
Indices: 55043--55088 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
55033 GTGGTTATTT
55043 TTGTTTGTAAAAATTGGTGGCTTG
1 TTGTTTGTAAAAATTGGTGGCTTG
*
55067 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTAAAAATTGGTGGCT
55089 AATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.46
Consensus pattern (24 bp):
TTGTTTGTAAAAATTGGTGGCTTG
Found at i:59457 original size:17 final size:17
Alignment explanation
Indices: 59435--59489 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
59425 TATTTAAAGT
59435 ATTTTAAATTTATATAA
1 ATTTTAAATTTATATAA
59452 ATTTTAATATATTA-AT-A
1 ATTTTAA-AT-TTATATAA
59469 A-TTT-AATTT-TATAA
1 ATTTTAAATTTATATAA
59483 ATTTTAA
1 ATTTTAA
59490 GATATTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 4 0.12
16 4 0.12
17 9 0.28
18 4 0.12
19 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTATATAA
Found at i:64669 original size:20 final size:20
Alignment explanation
Indices: 64644--64683 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
64634 AATGTTTGAG
64644 TGACGTATAT-ACGTCTGAAT
1 TGACGTATATGA-GTCTGAAT
64664 TGACGTATATGAGTCTGAAT
1 TGACGTATATGAGTCTGAAT
64684 AGGGGCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (20 bp):
TGACGTATATGAGTCTGAAT
Found at i:65113 original size:22 final size:22
Alignment explanation
Indices: 65085--65127 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
65075 ACTTGTTGGT
65085 TAATTTTAAAAAAAAATTTAAA
1 TAATTTTAAAAAAAAATTTAAA
* * *
65107 TAATTTTTAAAAGAATTTTAA
1 TAATTTTAAAAAAAAATTTAA
65128 TATTAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATTTTAAAAAAAAATTTAAA
Found at i:67963 original size:9 final size:9
Alignment explanation
Indices: 67949--67975 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
67939 TGATCAGAAA
67949 TTTTAAAAT
1 TTTTAAAAT
67958 TTTTAAAAT
1 TTTTAAAAT
67967 TTTTAAAAT
1 TTTTAAAAT
67976 GCAAGCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:72326 original size:31 final size:30
Alignment explanation
Indices: 72291--72351 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
72281 TAAATCAAAT
*
72291 TTTTTATAAT-ATTAATTAATAATTTTATTTA
1 TTTTT-TAATAATT-ATTAAGAATTTTATTTA
72322 TTTTTTAATAAATTATTAAGAATTTTATTT
1 TTTTTTAAT-AATTATTAAGAATTTTATTT
72352 TAAATGCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 4 0.15
31 20 0.74
32 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTTAATAATTATTAAGAATTTTATTTA
Found at i:72462 original size:20 final size:21
Alignment explanation
Indices: 72404--72464 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
72394 TTTTTTTTTC
***
72404 AAATTTTTTT-TAAAGCCAAT
1 AAATTTTTTTATAAAATTAAT
72424 AAATTTTTTTATAAAATTAAT
1 AAATTTTTTTATAAAATTAAT
*
72445 AAA-TTTTTTATAATATTAAT
1 AAATTTTTTTATAAAATTAAT
72465 TAATAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 26 0.72
21 10 0.28
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATTTTTTTATAAAATTAAT
Found at i:72484 original size:32 final size:32
Alignment explanation
Indices: 72447--72511 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
72437 AAATTAATAA
* *
72447 ATTTTTT-ATAATATTAATTAATAATTTTA-TTT
1 ATTTTTTAATAA-ATT-ACTAAGAATTTTACTTT
72479 ATTTTTTAATAAATTACTAAGAATTTTACTTT
1 ATTTTTTAATAAATTACTAAGAATTTTACTTT
72511 A
1 A
72512 AATATAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.38
32 14 0.48
33 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (32 bp):
ATTTTTTAATAAATTACTAAGAATTTTACTTT
Found at i:72488 original size:24 final size:24
Alignment explanation
Indices: 72421--72480 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 24
72411 TTTTAAAGCC
*
72421 AATAAATTTTTT-T-ATA-AAATT
1 AATAAATTTTTTATAATATTAATT
72442 AATAAATTTTTTATAATATTAATT
1 AATAAATTTTTTATAATATTAATT
*
72466 AATAATTTTATTTAT
1 AATAAATTT-TTTAT
72481 TTTTTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.36
22 1 0.03
23 3 0.09
24 12 0.36
25 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATAAATTTTTTATAATATTAATT
Found at i:72634 original size:170 final size:160
Alignment explanation
Indices: 72287--73215 Score: 873
Period size: 158 Copynumber: 5.7 Consensus size: 160
72277 TTTTTAAATC
* **
72287 AAATTT-TTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTATTAAGAATTTTATT
1 AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTGCT
** * * * ** *
72351 TTAAATGCAATTTTTT-ATATAAATACTAATAT-TTATAATGAGTTTTTTTTTTCAAATT--TTT
66 TTAAATATAGTTTTTTGACATAAATAATAATATAAAAT-ATGAG--TTTTTTCT-AAATTAATTT
** *
72412 TTTA-AA-GCCAATAAATTTTTTTATAAAATTAAT
127 TTTATAATTTCAATAAA-TTTTTTATAAAATCAAT
*
72445 AAATTT-TTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTACT
1 AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTGCT
*
72509 TTAAATATAGTTTTTTGACATATATAAT-ATATAAAATAT-AGTTTTTTAACATAAATGCTAATA
66 TTAAATATAGTTTTTTGACATAAATAATAATATAAAATATGAGTTTTTT--C-TAAAT--TAAT-
* *
72572 TTTATTATAAGTTTTTTTCTTAA-AGATTTTTT-TGAAATCAAT
125 TTT-TTATAA-----TTTC--AATAAATTTTTTATAAAATCAAT
* * *
72614 AAATTTCTTTATACTATTAATTAATAATTTTATTTCTTTTTTAATAAATTATTAAGAATTTTGCT
1 AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTGCT
* * * * ** * *
72679 TTAAAAACA-ATTTTTGACATAAATACTAATATTTATTATGAGTTTTTTCTTAA--AATTTTTT-
66 TTAAATATAGTTTTTTGACATAAATAATAATATAAAATATGAGTTTTTTCTAAATTAATTTTTTA
**
72740 TAAAATCAATAAATTTCTTTATAAAATCAAT
131 TAATTTCAATAAATTT-TTTATAAAATCAAT
*
72771 AAATTTCTTTATAATATTAATTAATAATTTTATTTATCTTTTCAATAAATTACTAAGAATTTTGC
1 AAATTTCTTTATAATATTAATTAATAATTTTATTTAT-TTTTTAATAAATTACTAAGAATTTTGC
* *
72836 TTTAAGTATAGTTTTTTGACATTAATAATATATATAAAATAT-AGTTTTTTAACATAAATGCTAA
65 TTTAAATATAGTTTTTTGACATAAATAATA-ATATAAAATATGAGTTTTTT--C-TAAAT--TAA
* * *
72900 TATTTATTATAGGTTTTTTTCTTAA-AGATTTTTT-TGAAATCAAT
124 T-TTT-TTATA-----ATTTC--AATAAATTTTTTATAAAATCAAT
* * *
72944 AAGTTTCTTTATAATATTAATTAATAATTTTATTTA-TTTTTAATAAATTATTAAAAATTTTGCT
1 AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTGCT
** ** *
73008 TTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTTCTCAAATT--TTTTTT
66 TTAAATATAGTTTTTTGACATAAATAATAATATAAAATATGAGTTTTTTCT-AAATTAATTTTTT
73071 GA-AA--TCAATAAATTTCTTTATAAAATCAAT
130 -ATAATTTCAATAAATTT-TTTATAAAATCAAT
73101 AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTCAATAAATTACTAAGAATTTTGC
1 AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTT-AATAAATTACTAAGAATTTTGC
** ** *
73166 TTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTT
65 TTTAAATATAGTTTTTTGACATAAATAATAATATAAAATATGAGTTTTTT
73216 TGGAAAGATT
Statistics
Matches: 648, Mismatches: 69, Indels: 107
0.79 0.08 0.13
Matches are distributed among these distances:
154 4 0.01
155 16 0.02
156 10 0.02
157 94 0.15
158 119 0.18
159 105 0.16
160 8 0.01
161 5 0.01
162 8 0.01
163 9 0.01
164 9 0.01
165 1 0.00
166 3 0.00
167 4 0.01
168 6 0.01
169 37 0.06
170 84 0.13
171 68 0.10
172 2 0.00
173 44 0.07
174 5 0.01
175 5 0.01
176 2 0.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (160 bp):
AAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTGCT
TTAAATATAGTTTTTTGACATAAATAATAATATAAAATATGAGTTTTTTCTAAATTAATTTTTTA
TAATTTCAATAAATTTTTTATAAAATCAAT
Found at i:72703 original size:157 final size:155
Alignment explanation
Indices: 72606--73202 Score: 585
Period size: 157 Copynumber: 3.7 Consensus size: 155
72596 GATTTTTTTG
* * *
72606 AAATCAATAAATTTCTTTATACTATTAATTAATAATTTTATTTCTTTTTTAATAAATTATTAAGA
1 AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGA
* * * ** * * * *
72671 ATTTTGCTTTAAAAACA-ATTTTTGACATAAATACTAATATTTATTATGAGTTTTTTCTTAAAAT
66 ATTTTGCTTTAAATATAGTTTTTTGACATAAATA-TAATATTTAACATAAGTTATTTATTAAAGT
72735 TTTTTTAAAATCAATAAATTTCTTTATA
130 TTTTTT--AATCAATAAATTTCTTTATA
*
72763 AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATCTTTTCAATAAATTACTAAG
1 AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTAT-TTTTTAATAAATTACTAAG
* * * * * *
72828 AATTTTGCTTTAAGTATAGTTTTTTGACATTAATA-ATATATATAAAATATAGTTTTTTAACATA
65 AATTTTGCTTTAAATATAGTTTTTTGACATAAATATA-ATATTTAACATA-AGTTATTT-A-TTA
* *
72892 AATGCTAATATTTATTATAGGTTTTTTTC-TTAAAGATTT-TTT-TG
126 AA-G-T--T-TTT-TTA-A--------TCAAT-AA-ATTTCTTTATA
* * *
72936 AAATCAATAAGTTTCTTTATAATATTAATTAATAATTTTATTTA-TTTTTAATAAATTATTAAAA
1 AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGA
* ** * * * * *
73000 ATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTTCTCAAATT
66 ATTTTGCTTTAAATATAGTTTTTTGACATAAAT-ATAATATTTAACATAAGTTATTTATTAAAGT
73065 TTTTTTGAAATCAATAAATTTCTTTATA
130 TTTTTT--AATCAATAAATTTCTTTATA
73093 AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTCAATAAATTACTAAG
1 AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTT-AATAAATTACTAAG
*
73158 AATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTA
65 AATTTTGCTTTAAATATAGTTTTTTGACATAAAT-ATAATATTTA
73203 TTATGAGTTT
Statistics
Matches: 370, Mismatches: 38, Indels: 62
0.79 0.08 0.13
Matches are distributed among these distances:
155 4 0.01
156 7 0.02
157 89 0.24
158 45 0.12
159 79 0.21
161 4 0.01
163 3 0.01
164 4 0.01
165 4 0.01
166 4 0.01
167 3 0.01
169 3 0.01
171 56 0.15
172 8 0.02
173 46 0.12
174 7 0.02
175 4 0.01
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (155 bp):
AAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGA
ATTTTGCTTTAAATATAGTTTTTTGACATAAATATAATATTTAACATAAGTTATTTATTAAAGTT
TTTTTAATCAATAAATTTCTTTATA
Found at i:72766 original size:21 final size:21
Alignment explanation
Indices: 72731--72784 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
72721 TTTTTTCTTA
72731 AAATTT-TTT-TAAAATCAAT
1 AAATTTCTTTATAAAATCAAT
72750 AAATTTCTTTATAAAATCAAT
1 AAATTTCTTTATAAAATCAAT
72771 AAATTTCTTTATAA
1 AAATTTCTTTATAA
72785 TATTAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.18
20 3 0.09
21 24 0.73
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTTCTTTATAAAATCAAT
Found at i:72820 original size:328 final size:326
Alignment explanation
Indices: 72206--73188 Score: 1541
Period size: 330 Copynumber: 3.0 Consensus size: 326
72196 TCAACGCTAT
* * * * *
72206 ATATATTATATATAAAATAAAATATTTTAACATAAATACTAATATTTATTATAAG-TTTTTTCTT
1 ATATATAATATATAAAATATAGTTTTTTAACATAAATGCTAATATTTATTATAAGTTTTTTTCTT
72270 AAAGATTTTTTT-AAATC---AAATTT-TTTATAATATTAATTAATAATTTTATTTATTTTTTAA
66 AAAGATTTTTTTGAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTT-TTTTTTAA
** * * * *
72330 TAAATTATTAAGAATTTTATTTTAAATGCAATTTTTTATATAAATACTAATATTTATAATGAGTT
130 TAAATTATTAAGAATTTTGCTTTAAATACAATTTTTGACATAAATACTAATATTTATTATGAG-T
* ** * *
72395 TTTTTTTTCAAATTTTTTTTAAAGCCAATAAATTTTTTTATAAAATTAATAAATTT-TTTATAAT
194 TTTTTCTT-AAATTTTTTTTAAAATCAATAAATTTCTTTATAAAATCAATAAATTTCTTTATAAT
* *
72459 ATTAATTAATAATTTTATTTATTTTTTAATAAATTACTAAGAATTTTACTTTAAATATAGTTTTT
258 ATTAATTAATAATTTTATTTATTTTTCAATAAATTACTAAGAATTTTGCTTTAAATATAGTTTTT
72524 TGAC
323 TGAC
72528 ATATATAATATATAAAATATAGTTTTTTAACATAAATGCTAATATTTATTATAAGTTTTTTTCTT
1 ATATATAATATATAAAATATAGTTTTTTAACATAAATGCTAATATTTATTATAAGTTTTTTTCTT
*
72593 AAAGATTTTTTTGAAATCAATAAATTTCTTTATACTATTAATTAATAATTTTATTTCTTTTTTAA
66 AAAGATTTTTTTGAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTT-TTTTTTAA
*
72658 TAAATTATTAAGAATTTTGCTTTAAAAACAATTTTTGACATAAATACTAATATTTATTATGAGTT
130 TAAATTATTAAGAATTTTGCTTTAAATACAATTTTTGACATAAATACTAATATTTATTATGAGTT
*
72723 TTTTCTTAAAATTTTTTTAAAATCAATAAATTTCTTTATAAAATCAATAAATTTCTTTATAATAT
195 TTTTCTTAAATTTTTTTTAAAATCAATAAATTTCTTTATAAAATCAATAAATTTCTTTATAATAT
*
72788 TAATTAATAATTTTATTTATCTTTTCAATAAATTACTAAGAATTTTGCTTTAAGTATAGTTTTTT
260 TAATTAATAATTTTATTTAT-TTTTCAATAAATTACTAAGAATTTTGCTTTAAATATAGTTTTTT
72853 GAC
324 GAC
*
72856 AT-TAATAATATATATAAAATATAGTTTTTTAACATAAATGCTAATATTTATTATAGGTTTTTTT
1 ATAT-AT-A-ATATATAAAATATAGTTTTTTAACATAAATGCTAATATTTATTATAAGTTTTTTT
* *
72920 CTTAAAGATTTTTTTGAAATCAATAAGTTTCTTTATAATATTAATTAATAATTTTATTTATTTTT
63 CTTAAAGATTTTTTTGAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTTTTTTT
* * * *
72985 AATAAATTATTAAAAATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGA
128 AATAAATTATTAAGAATTTTGCTTTAAATACA-ATTTTTGACATAAATACTAATATTTATTATGA
* *
73050 GTTTTTTCTCAAATTTTTTTTGAAATCAATAAATTTCTTTATAAAATCAATAAATTTCTTTATAA
192 GTTTTTTCTTAAATTTTTTTTAAAATCAATAAATTTCTTTATAAAATCAATAAATTTCTTTATAA
73115 TATTAATTAATAATTTTATTTATTTTTTCAATAAATTACTAAGAATTTTGCTTTAAATATAGTTT
257 TATTAATTAATAATTTTATTTA-TTTTTCAATAAATTACTAAGAATTTTGCTTTAAATATAGTTT
73180 TTTGAC
321 TTTGAC
73186 ATA
1 ATA
73189 AATGCTAATA
Statistics
Matches: 611, Mismatches: 36, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
322 50 0.08
323 21 0.03
324 5 0.01
326 42 0.07
327 45 0.07
328 139 0.23
329 35 0.06
330 273 0.45
331 1 0.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (326 bp):
ATATATAATATATAAAATATAGTTTTTTAACATAAATGCTAATATTTATTATAAGTTTTTTTCTT
AAAGATTTTTTTGAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTTTTTTTAAT
AAATTATTAAGAATTTTGCTTTAAATACAATTTTTGACATAAATACTAATATTTATTATGAGTTT
TTTCTTAAATTTTTTTTAAAATCAATAAATTTCTTTATAAAATCAATAAATTTCTTTATAATATT
AATTAATAATTTTATTTATTTTTCAATAAATTACTAAGAATTTTGCTTTAAATATAGTTTTTTGA
C
Found at i:73098 original size:21 final size:21
Alignment explanation
Indices: 73072--73114 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
73062 ATTTTTTTTG
73072 AAATCAATAAATTTCTTTATA
1 AAATCAATAAATTTCTTTATA
73093 AAATCAATAAATTTCTTTATA
1 AAATCAATAAATTTCTTTATA
73114 A
1 A
73115 TATTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATCAATAAATTTCTTTATA
Found at i:73125 original size:138 final size:138
Alignment explanation
Indices: 72872--73127 Score: 358
Period size: 138 Copynumber: 1.9 Consensus size: 138
72862 AATATATATA
*
72872 AAATATAGTTTTTTAACATAAATGCTAATATTTATTATAGGTTTTTTTCTTAAAGATTTTTTTGA
1 AAATATAGTTTTTTAACATAAATGCTAATATTTATTATAGGTTTTTTTCTCAAAGATTTTTTTGA
* * * * * *
72937 AATCAATAAGTTTCTTTATAATATTAATTAATAATTTTATTTATTTTTAATAAATTATTAAAAAT
66 AATCAATAAATTTCTTTATAAAATCAATAAATAATTTTATATATTATTAATAAATTATTAAAAAT
73002 TTTGCTTT
131 TTTGCTTT
* *
73010 AAATATAGTTTTTTGACATAAATGCTAATATTTATTAT-GAG-TTTTTTCTCAAA-TTTTTTTTG
1 AAATATAGTTTTTTAACATAAATGCTAATATTTATTATAG-GTTTTTTTCTCAAAGATTTTTTTG
*
73072 AAATCAATAAATTTCTTTATAAAATCAATAAAT-TTCTTTATAATATTAATTAATAA
65 AAATCAATAAATTTCTTTATAAAATCAATAAATAAT-TTTAT-ATATT-ATTAATAA
73128 TTTTATTTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
135 1 0.01
136 42 0.40
137 16 0.15
138 45 0.43
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (138 bp):
AAATATAGTTTTTTAACATAAATGCTAATATTTATTATAGGTTTTTTTCTCAAAGATTTTTTTGA
AATCAATAAATTTCTTTATAAAATCAATAAATAATTTTATATATTATTAATAAATTATTAAAAAT
TTTGCTTT
Found at i:73176 original size:159 final size:156
Alignment explanation
Indices: 72927--73254 Score: 534
Period size: 159 Copynumber: 2.1 Consensus size: 156
72917 TTTCTTAAAG
* *
72927 ATTTTTTTGAAATCAATAAGTTTCTTTATAATATTAATTAATAATTTTATTTATTTTTAATAAAT
1 ATTTTTTTAAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTAATAAAT
*
72992 TATTAAAAATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTT
66 TACTAAAAATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTT
* *
73057 CT-CAAA-TTTTTTTTGAAATCAATAA
131 -TGCAAAGATTTTTTGGAAATCAATAA
73082 ATTTCTTTATAAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTTCAAT
1 ATTT-TTT-TAAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTA-TTTTT-AAT
*
73147 AAATTACTAAGAATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTT
62 AAATTACTAAAAATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTT
*
73212 TTTTTGGAAAGATTTTTTGGAAATCAATAA
127 TTTTTGCAAAGATTTTTTGGAAATCAATAA
73242 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
73255 ATTAATTAAT
Statistics
Matches: 160, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
155 4 0.03
156 3 0.02
157 44 0.28
158 12 0.08
159 76 0.47
160 21 0.13
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.51
Consensus pattern (156 bp):
ATTTTTTTAAAATCAATAAATTTCTTTATAATATTAATTAATAATTTTATTTATTTTTAATAAAT
TACTAAAAATTTTGCTTTAAATATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTT
TGCAAAGATTTTTTGGAAATCAATAA
Found at i:73525 original size:202 final size:202
Alignment explanation
Indices: 73173--73564 Score: 567
Period size: 202 Copynumber: 1.9 Consensus size: 202
73163 TGCTTTAAAT
* *
73173 ATAGTTTTTTGACATAAATGCTAATATTTATTATGAGTTTTTTTGGAAAGATTTTTTGGAAATCA
1 ATAGTTTTTTAACATAAATGCTAATATTTATTATGAGTTTTTTTGGAAAGATTTTTTGAAAATCA
* *
73238 ATAAATTTTTTTAAAATATTAATTAATAATTTTATTTATTTATCCAATAAATTGCTAAGAATCTG
66 ATAAATATTTTTAAAATATTAATTAATAATTTTATTTATTTATCCAATAAATTACTAAGAATCTG
*
73303 GCTTTAACTTATTTTTTAATTTATATAGATTCATT-GAGTCTATACTTCATAATATTAATTAATT
131 GCTTTAACTTATTTTTTAATTTATATAGATTCATTAG-GTCTAAACTTCATAATATTAATTAATT
73367 GATAAAAC
195 GATAAAAC
* *
73375 ATAGTTTTTTAACATAAATGCTAATGTTTATTATGAGTTTTTTCT-TAAAGAATTTTTT-AAAAT
1 ATAGTTTTTTAACATAAATGCTAATATTTATTATGAGTTTTTT-TGGAAAG-ATTTTTTGAAAAT
* * * * * * *
73438 TAATAAA-ATTTTTATAATATTACTTAATAATTTTATTTATTTTTTCAATAAATTATTAAGAATT
64 CAATAAATATTTTTAAAATATTAATTAATAATTTTATTTATTTATCCAATAAATTACTAAGAATC
* * *
73502 TTGCTTTAACTCTTTTTTTTAATTTATATAGATTCATTAGGTTTAAACTTCATAATATTAATT
129 TGGCTTTAACT-TATTTTTTAATTTATATAGATTCATTAGGTCTAAACTTCATAATATTAATT
73565 GATAAATGTA
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
201 59 0.35
202 101 0.60
203 9 0.05
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (202 bp):
ATAGTTTTTTAACATAAATGCTAATATTTATTATGAGTTTTTTTGGAAAGATTTTTTGAAAATCA
ATAAATATTTTTAAAATATTAATTAATAATTTTATTTATTTATCCAATAAATTACTAAGAATCTG
GCTTTAACTTATTTTTTAATTTATATAGATTCATTAGGTCTAAACTTCATAATATTAATTAATTG
ATAAAAC
Found at i:73582 original size:18 final size:20
Alignment explanation
Indices: 73556--73624 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 20
73546 AAACTTCATA
* *
73556 ATATTAATTGATAAAT-G-T
1 ATATAAATTCATAAATAGAT
*
73574 ATATAAATTCATTAATAGAT
1 ATATAAATTCATAAATAGAT
* **
73594 ATATAAATT-ATATATTTAT
1 ATATAAATTCATAAATAGAT
*
73613 TTATAAATTCAT
1 ATATAAATTCAT
73625 TCATTCTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 13 0.32
19 15 0.38
20 12 0.30
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATAAATTCATAAATAGAT
Found at i:75279 original size:18 final size:18
Alignment explanation
Indices: 75252--75298 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
75242 AATTTTCATT
75252 AATA-TATTTTAATTTTA
1 AATATTATTTTAATTTTA
*
75269 AATATTATTTTTATTTTA
1 AATATTATTTTAATTTTA
* *
75287 AAAATTAATTTA
1 AATATTATTTTA
75299 GGTACACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTATTTTAATTTTA
Found at i:75664 original size:20 final size:23
Alignment explanation
Indices: 75635--75680 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
75625 AATATATAAA
*
75635 AAATTT-TATAAATTAAAA-ATT
1 AAATTTATATATATTAAAATATT
75656 AAATTTATATATATTAAAATATT
1 AAATTTATATATATTAAAATATT
75679 AA
1 AA
75681 CCATTCATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTATATATATTAAAATATT
Found at i:76454 original size:32 final size:31
Alignment explanation
Indices: 76399--76459 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
76389 AATTATTATA
** *
76399 TAATAATAAAAATTATATTTTTATTTAAATT
1 TAATAATAAAAATTATAAATTTATGTAAATT
*
76430 TAATTATAAAAATTTATAAATTTATGTAAA
1 TAATAATAAAAA-TTATAAATTTATGTAAA
76460 AATAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
TAATAATAAAAATTATAAATTTATGTAAATT
Found at i:84797 original size:33 final size:33
Alignment explanation
Indices: 84760--84826 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
84750 TTCAACGATT
84760 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
84793 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
84826 T
1 T
84827 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:84798 original size:13 final size:13
Alignment explanation
Indices: 84780--84804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84770 CATAAAATGT
84780 TGTATCGATACAA
1 TGTATCGATACAA
84793 TGTATCGATACA
1 TGTATCGATACA
84805 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:84885 original size:13 final size:13
Alignment explanation
Indices: 84867--84891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84857 ATTACTCAAA
84867 TGTATCGATACAT
1 TGTATCGATACAT
84880 TGTATCGATACA
1 TGTATCGATACA
84892 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:84955 original size:51 final size:51
Alignment explanation
Indices: 84900--85023 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
84890 CACTGATCTT
*
84900 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
* *
84951 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGG-CAATTTGCCCAGATGTATCGATACACTATAAAA
*
85003 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
85024 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
51 20 0.30
52 47 0.70
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:89168 original size:10 final size:10
Alignment explanation
Indices: 89153--89179 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
89143 TGCTAACTAA
89153 GTTTTTGTTT
1 GTTTTTGTTT
89163 GTTTTTGTTT
1 GTTTTTGTTT
89173 GTTTTTG
1 GTTTTTG
89180 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:98875 original size:1 final size:1
Alignment explanation
Indices: 98869--98968 Score: 83
Period size: 1 Copynumber: 100.0 Consensus size: 1
98859 GGCGTCCTCC
** ** * * *
98869 AAAAAAAAAACGAAAAAAATGAAAAACAAAAAAAAAACAAAAAAAAAAAACAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
98934 ACAAAAACAATAAAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
98969 GGGGGTCCGG
Statistics
Matches: 75, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:98898 original size:27 final size:24
Alignment explanation
Indices: 98868--98968 Score: 123
Period size: 24 Copynumber: 4.0 Consensus size: 24
98858 CGGCGTCCTC
98868 CAAAAAAAAAACGAAAAAAATGAAAAA
1 CAAAAAAAAAAC-AAAAAAA--AAAAA
98895 CAAAAAAAAAACAAAAAAAAAAAA
1 CAAAAAAAAAACAAAAAAAAAAAA
98919 CAAAAAAAAAA-AAAAACAAAAACAA
1 CAAAAAAAAAACAAAAA-AAAAA-AA
* *
98944 TAAAAAAACAAACAAAAACAAAAAA
1 CAAAAAAA-AAACAAAAAAAAAAAA
98969 GGGGGTCCGG
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.07
24 21 0.31
25 11 0.16
26 14 0.21
27 17 0.25
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (24 bp):
CAAAAAAAAAACAAAAAAAAAAAA
Found at i:98901 original size:17 final size:15
Alignment explanation
Indices: 98869--98968 Score: 105
Period size: 15 Copynumber: 6.5 Consensus size: 15
98859 GGCGTCCTCC
98869 AAAAAAAAAACGAAAA
1 AAAAAAAAAAC-AAAA
**
98885 AAATGAAAAACAAAA
1 AAAAAAAAAACAAAA
98900 AAAAAACAAAA-AAAA
1 AAAAAA-AAAACAAAA
98915 AAAACAAAAAA-AAAA
1 AAAA-AAAAAACAAAA
*
98930 AAAAACAAAAACAATA
1 AAAAA-AAAAACAAAA
*
98946 AAAAAACAAACAAAA
1 AAAAAAAAAACAAAA
*
98961 ACAAAAAA
1 AAAAAAAA
98969 GGGGGTCCGG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
14 1 0.01
15 47 0.66
16 23 0.32
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:98903 original size:16 final size:16
Alignment explanation
Indices: 98869--98968 Score: 100
Period size: 16 Copynumber: 6.3 Consensus size: 16
98859 GGCGTCCTCC
*
98869 AAAAA-AAAAACGAAA
1 AAAAACAAAAACAAAA
**
98884 AAAATGAAAAACAAAA
1 AAAAACAAAAACAAAA
*
98900 AAAAA-ACAAA-AAAA
1 AAAAACAAAAACAAAA
*
98914 AAAAACAAAAAAAAAA
1 AAAAACAAAAACAAAA
98930 AAAAACAAAAACAATAA
1 AAAAACAAAAACAA-AA
98947 AAAAACAAACAA-AAACA
1 AAAAACAAA-AACAAA-A
98964 AAAAA
1 AAAAA
98969 GGGGGTCCGG
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.12
15 12 0.16
16 31 0.42
17 19 0.26
18 2 0.03
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (16 bp):
AAAAACAAAAACAAAA
Found at i:98962 original size:21 final size:19
Alignment explanation
Indices: 98869--98968 Score: 111
Period size: 21 Copynumber: 5.2 Consensus size: 19
98859 GGCGTCCTCC
98869 AAAAAAAAAACGAAAAA-AA
1 AAAAAAAAAAC-AAAAACAA
98888 TGAAAAACAAAAA-AAAAACAA
1 --AAAAA-AAAAACAAAAACAA
98909 AAAAAAAAAAC--AAA-AA
1 AAAAAAAAAACAAAAACAA
98925 AAAAAAAAAACAAAAACAA
1 AAAAAAAAAACAAAAACAA
98944 TAAAAAAACAAACAAAAACAA
1 -AAAAAAA-AAACAAAAACAA
98965 AAAA
1 AAAA
98969 GGGGGTCCGG
Statistics
Matches: 71, Mismatches: 0, Indels: 17
0.81 0.00 0.19
Matches are distributed among these distances:
16 13 0.18
17 3 0.04
18 8 0.11
19 7 0.10
20 16 0.23
21 19 0.27
22 5 0.07
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAACAAAAACAA
Found at i:100465 original size:30 final size:30
Alignment explanation
Indices: 100410--100488 Score: 119
Period size: 28 Copynumber: 2.7 Consensus size: 30
100400 TCACCCTTCA
*
100410 AAAGTCCACAAGTCAGTGGCATTTTTTTC-
1 AAAGCCCACAAGTCAGTGGCATTTTTTTCG
100439 AAAG-CCACAAGTCA-TGTGCATTTTTTTCG
1 AAAGCCCACAAGTCAGTG-GCATTTTTTTCG
100468 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
100489 ACCTTCAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.04
28 21 0.46
29 8 0.17
30 13 0.28
31 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTCG
Found at i:100659 original size:28 final size:30
Alignment explanation
Indices: 100626--100702 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
100616 TTTCTTTTTC
100626 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCAACCTTTTCAAA
* *
100654 AGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACCTTTTCAAA
100684 AGCCCACAAGTCAGTGGCA
1 AGCCCACAAGTCAGTGGCA
100703 TATTTCTCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 20 0.45
29 3 0.07
30 21 0.48
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.18
Consensus pattern (30 bp):
AGCCCACAAGTCAGTGGCAACCTTTTCAAA
Found at i:100716 original size:30 final size:28
Alignment explanation
Indices: 100626--100721 Score: 104
Period size: 30 Copynumber: 3.3 Consensus size: 28
100616 TTTCTTTTTC
*
100626 AGCCCACAAGTCAGTGGCAACCTTT-AAA
1 AGCCCACAAGTCAGTGGCAA-TTTTCAAA
* *
100654 AGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCA--ATTTTCAAA
*
100684 AGCCCACAAGTCAGTGGCATATTTCTCTAA
1 AGCCCACAAGTCAGTGGCA-ATTT-TCAAA
100714 AGCCCACA
1 AGCCCACA
100722 CAAGTTGGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 18 0.32
29 6 0.11
30 33 0.58
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (28 bp):
AGCCCACAAGTCAGTGGCAATTTTCAAA
Found at i:100733 original size:32 final size:30
Alignment explanation
Indices: 100688--100812 Score: 126
Period size: 32 Copynumber: 4.0 Consensus size: 30
100678 TTCAAAAGCC
* *
100688 CACAAGTCAGTGGCATATTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCA-A-CTCTCTAAAGCCCA
* * *
100720 CACAAGTTGGTGGCAACCCCCTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCTCT-AAAGCCCA
*
100751 CACAAGTCGATGGCAACCCTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAA--CTCTCTAAAGCCCA
*
100783 CACAAGTCGGTGGCAACCCTTCT-AAGCCCA
1 CACAAGTCGGTGGCAACTC-TCTAAAGCCCA
100813 ATATAGCTGC
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
30 12 0.15
31 26 0.33
32 36 0.46
33 4 0.05
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.18
Consensus pattern (30 bp):
CACAAGTCGGTGGCAACTCTCTAAAGCCCA
Found at i:100750 original size:31 final size:32
Alignment explanation
Indices: 100708--100801 Score: 154
Period size: 32 Copynumber: 3.0 Consensus size: 32
100698 TGGCATATTT
*
100708 CTCTAAAGCCCACACAAGTTGGTGGCAACCCC
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCCC
* *
100740 CTC-AAAGCCCACACAAGTCGATGGCAACCCT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCCC
100771 CTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCC
100802 TTCTAAGCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
31 28 0.49
32 29 0.51
ACGTcount: A:0.30, C:0.38, G:0.18, T:0.14
Consensus pattern (32 bp):
CTCTAAAGCCCACACAAGTCGGTGGCAACCCC
Found at i:100881 original size:49 final size:49
Alignment explanation
Indices: 100805--102009 Score: 1393
Period size: 49 Copynumber: 24.7 Consensus size: 49
100795 GCAACCCTTC
*
100805 TAAGCCCAATATAGCT-GCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
100853 TAAGTCCAATATAGCTGGCCTTGAATCAGAATA-TGGCACCTTCATC-T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
100900 TAAGTCCAATGTAGCGGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
100943 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * * * * **
100995 TAAGTCCAATGTAGCTGGCCGTTGACTCAGAACATTGGCACCTTCACCAG
1 TAAGTCCAATATAGCTGGCC-TTGAATCAGCATATTGGCACCTTTATCTT
*
101045 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
101094 TAAGACCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
101143 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
101191 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
101234 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * * * *
101286 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
101335 TAAGTACAATTATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAA-TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * * *
101385 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
*
101434 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
101483 TAAGACCAATATAGCTGGCCCTGAATAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTG---AATCAGCATATTGGCACCTTTATCTT
* * *
101535 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
101583 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
101626 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * * * *
101678 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
101727 TAAGTCCAATATAGCTGGCCTTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCC-TTGAATCAGCATATTGGCACCTTTATCTT
* * * * * * * *
101777 TAAGTCCAATGTAGCTGGCCTCGACTCAGTACA-TGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
101825 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
101873 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
* *
101923 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-ATCTT
** * *
101974 TAAGTTAAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
102010 ACATCATTTT
Statistics
Matches: 990, Mismatches: 123, Indels: 85
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.00
43 115 0.12
44 3 0.00
47 55 0.06
48 152 0.15
49 305 0.31
50 148 0.15
51 43 0.04
52 150 0.15
53 18 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:101351 original size:291 final size:291
Alignment explanation
Indices: 100805--102009 Score: 1649
Period size: 291 Copynumber: 4.1 Consensus size: 291
100795 GCAACCCTTC
* * * * * *
100805 TAAGCCCAATATAGCT-GCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* *
100869 GGCCTTGAATCAGAATA-TGGCACCTTCATC-TTAAGTCCAATGTAGCGGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
100932 ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTA
131 ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CATCTTTA
* * *
100997 AGTCCAATGTAGCTGGCCGTTGACTCAGAACATTGGCACCTTCACCAGTAAGCCCAATATAGCTG
194 AGTCCAATGTAGCTGGCC-TTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTG
*
101062 GCCTTGAATCAGCATATTGGCACC-TTT-ATCTT
258 GCCTTGAATCAGCATATCGGCACCTTTTCATCTT
* * * * * *
101094 TAAGACCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* *
101159 GGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
101223 ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTA
131 ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CATCTTTA
*
101288 AGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTACAATTATAGCTG
194 AGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAA-TATAGCTG
*
101353 GCCTTGAATCAGCATATTGGCA-CTTTT-ATCTT
258 GCCTTGAATCAGCATATCGGCACCTTTTCATCTT
* *
101385 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGCCCAATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CACCATTAAGTCCAATATAGC
* * * *
101449 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGGCCCTGAATAATCA
65 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG---AATCA
* *
101514 GCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T
127 GCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
* *
101577 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAAT
186 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAAT
101636 ATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
251 ATAGCTGGCCTTGAATCAGCATATCGGCACCTTTT-CATCTT
*
101678 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * * *
101743 GGCCTTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCTGGCCTCGACTCAGTA
66 GGCC-TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG--
*
101808 CATGGCACTT-GCACCATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-AT
128 CA---CA-TTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* *
101870 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTCATCTTTAAGTCCAATAT
189 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TTCACCATTAAGTCCAATAT
*
101935 AGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCTCTT
253 AGCTGGCCTTGAATCAGCATATCGGCACCTTTTCATCTT
**
101974 TAAGTTAAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
102010 ACATCATTTT
Statistics
Matches: 831, Mismatches: 49, Indels: 65
0.88 0.05 0.07
Matches are distributed among these distances:
289 47 0.06
290 185 0.22
291 256 0.31
292 27 0.03
293 71 0.09
294 50 0.06
295 15 0.02
296 43 0.05
297 93 0.11
298 1 0.00
299 1 0.00
301 42 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (291 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAG
TCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCC
TTGAATCAGCATATCGGCACCTTTTCATCTT
Found at i:101602 original size:392 final size:388
Alignment explanation
Indices: 100800--102009 Score: 1921
Period size: 392 Copynumber: 3.1 Consensus size: 388
100790 CGGTGGCAAC
* * *
100800 CCTTCTAAGCCCAATATAGCT-GCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATA
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATA
* *
100864 TAGCTGGCCTTGAATCAGAATAT-GGCACC--TT-CATC-TTAAGTCCAATGTAGCGGGCCTTGA
59 TAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
100924 ATCAGCACATTGGCACC-T-----TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
124 CTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-
*
100983 CTTTTCCATCTTTAAGTCCAATGTAGCTGGCCGTTGACTCAGAACATTGGCACCTT-CACCAGTA
188 CTTTT--ATCTTTAAGTCCAATGTAGCTGGCC-TTGACTCAGAACATTGGCA-CTTGCACCATTA
101047 AGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGG
249 AGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGG
101112 CCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
314 CCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
101177 TGGCACCTCA
379 TGGCACCTCA
101187 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
101252 CCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
66 CCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
*
101317 CATTGGCACCTTCACCATTAAGTACAATTATAGCTGGCCTTGAATCAGCATATTGGCACTTTTAT
131 CATTGGCACCTTCACCATTAAGTCCAA-TATAGCTGGCCTTGAATCAGCATATTGGCACTTTTAT
*
101382 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGCCCAATATA
195 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGAACATTGGCACTTGCACCATTAAGCCCAATATA
101447 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGGCCCTGAATAAT
260 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGGCCCTG---AAT
101512 CAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
322 CAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
101577 CA
387 CA
101579 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
101644 CCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
66 CCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
101709 CATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTTGAATCAGCATATTGGCACTTTTAT
131 CATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCC-TTGAATCAGCATATTGGCACTTTTAT
* * *
101774 CTTTAAGTCCAATGTAGCTGGCCTCGACTCAGTACA-TGGCACTTGCACCATTAAGTCC-ATATA
195 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGAACATTGGCACTTGCACCATTAAGCCCAATATA
* * * *
101837 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
260 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGGCCCTGAATCAG
* * *
101902 CACATTGGCACCTTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTT
325 CATATTGGCACC-TTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC---
101967 TC-
386 TCA
**
101969 CTCTTTAAGTTAAATGTAGCTGGCCTTGAATCAGCACATTG
1 C-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
102010 ACATCATTTT
Statistics
Matches: 778, Mismatches: 22, Indels: 42
0.92 0.03 0.05
Matches are distributed among these distances:
381 36 0.05
382 6 0.01
384 2 0.00
385 4 0.01
386 55 0.07
387 42 0.05
388 50 0.06
389 95 0.12
390 87 0.11
391 71 0.09
392 300 0.39
393 30 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (388 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
CATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATC
TTTAAGTCCAATGTAGCTGGCCTTGACTCAGAACATTGGCACTTGCACCATTAAGCCCAATATAG
CTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATATAGCTGGCCCTGAATCAGC
ATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCA
Found at i:101966 original size:50 final size:50
Alignment explanation
Indices: 101623--102073 Score: 482
Period size: 50 Copynumber: 8.9 Consensus size: 50
101613 ACATTGGCAC
*
101623 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CAT
* * * *
101675 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* *
101724 CATTAAGTCCAATATAGCTGGCCTTTGAATCAGCATATTGGCA-CTTTTAT
1 CTTTAAGTCCAATATAGCTGGCC-TTGAATCAGCATATTGGCACCTTTCAT
* * * * * * *
101774 CTTTAAGTCCAATGTAGCTGGCCTCGACTCAGTACA-TGGCA-CTTGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
*
101822 CATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* * *
101870 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* *
101920 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCAT
** * * * *
101971 CTTTAAGTTAAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C---CTT--TCAT
* * * * * *
102027 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
102074 ATCACTTTTC
Statistics
Matches: 329, Mismatches: 57, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
47 20 0.06
48 33 0.10
49 69 0.21
50 86 0.26
51 41 0.12
52 43 0.13
54 2 0.01
56 35 0.11
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (50 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
Found at i:102905 original size:13 final size:13
Alignment explanation
Indices: 102887--102911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102877 CATAAAATGT
102887 TGTATCGATACAA
1 TGTATCGATACAA
102900 TGTATCGATACA
1 TGTATCGATACA
102912 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:102993 original size:13 final size:13
Alignment explanation
Indices: 102975--102999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102965 ATTACTCAAA
102975 TGTATCGATACAT
1 TGTATCGATACAT
102988 TGTATCGATACA
1 TGTATCGATACA
103000 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103082 original size:51 final size:52
Alignment explanation
Indices: 103008--103130 Score: 214
Period size: 51 Copynumber: 2.4 Consensus size: 52
102998 CACTGATCTT
*
103008 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTA-TAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
103058 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
103110 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
103131 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 19 0.28
51 26 0.38
52 24 0.35
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:111112 original size:9 final size:9
Alignment explanation
Indices: 111064--111116 Score: 70
Period size: 9 Copynumber: 5.8 Consensus size: 9
111054 CCTTGCACCA
*
111064 AAAAAAAAA
1 AAAAAAAAC
*
111073 AAAAAACAAA
1 AAAAAA-AAC
111083 AAAAAAAAC
1 AAAAAAAAC
111092 AAAAAAAAC
1 AAAAAAAAC
*
111101 AAAAAAAGC
1 AAAAAAAAC
111110 AAAAAAA
1 AAAAAAA
111117 TAGAAGGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 32 0.78
10 9 0.22
ACGTcount: A:0.91, C:0.08, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:111116 original size:1 final size:1
Alignment explanation
Indices: 111063--111107 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
111053 TCCTTGCACC
* * *
111063 AAAAAAAAAAAAAAAACAAAAAAAAAAACAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
111108 GCAAAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.