Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015214.1 Kokia drynarioides strain JFW-HI SEQ_130258, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 162075
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:583 original size:22 final size:22
Alignment explanation
Indices: 543--593 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
533 TTCCATATAA
*
543 TTTTTTATATTTAGTTTTTATT
1 TTTTTTATATTTAGGTTTTATT
* *
565 TTTTTTATATTTTGGTTTTCTT
1 TTTTTTATATTTAGGTTTTATT
587 TTATTTT
1 TT-TTTT
594 TTAGCTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (22 bp):
TTTTTTATATTTAGGTTTTATT
Found at i:617 original size:24 final size:23
Alignment explanation
Indices: 590--635 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
580 TTTTCTTTTA
590 TTTTTTAGCTACTTTTGTGGCACG
1 TTTTTTAGCTAC-TTTGTGGCACG
**
614 TTTTTTTTCTACTTTGTGGCAC
1 TTTTTTAGCTACTTTGTGGCAC
636 ACTTCTGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (23 bp):
TTTTTTAGCTACTTTGTGGCACG
Found at i:6289 original size:19 final size:20
Alignment explanation
Indices: 6265--6302 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6255 ATCAAGGTAA
6265 ATTATATTATTAT-TAAAAT
1 ATTATATTATTATATAAAAT
*
6284 ATTATATTTTTATATAAAA
1 ATTATATTATTATATAAAA
6303 GTAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATATTATTATATAAAAT
Found at i:7608 original size:31 final size:31
Alignment explanation
Indices: 7573--7640 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
7563 CTTACTATAT
7573 ATTATTATGAAATCTTA-TCTCCAAAATATGA
1 ATTATTATGAAATCTTATTC-CCAAAATATGA
7604 ATTATTATGAAATCTTATTCCCAAAATATGA
1 ATTATTATGAAATCTTATTCCCAAAATATGA
7635 ATTATT
1 ATTATT
7641 TTCGTGTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (31 bp):
ATTATTATGAAATCTTATTCCCAAAATATGA
Found at i:9902 original size:53 final size:52
Alignment explanation
Indices: 9803--9902 Score: 121
Period size: 53 Copynumber: 1.9 Consensus size: 52
9793 ACTACAAAAA
* * * ***
9803 AAAATTAAATTACACAATGTGTAAATGTTGAGTGTTAAATTTTTTTAGAATC
1 AAAACTAAATTACACAATGTATAAATGTTGAGTGGTAAACAATTTTAGAATC
9855 AAAACTAAATTGACACAATGTATAAATGTTGAG-GGTAAAGCAATTTTA
1 AAAACTAAATT-ACACAATGTATAAATGTTGAGTGGTAAA-CAATTTTA
9903 AAAGTTGATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
52 15 0.38
53 25 0.62
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (52 bp):
AAAACTAAATTACACAATGTATAAATGTTGAGTGGTAAACAATTTTAGAATC
Found at i:10443 original size:25 final size:23
Alignment explanation
Indices: 10415--10492 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
10405 GACCGAAATT
10415 AAATTATATATTTTTATTGTTGTAA
1 AAATTATATATTTTTATT-TT-TAA
10440 AAA-TATA-A-TTTTATTATTTTAA
1 AAATTATATATTTTTA-T-TTTTAA
* *
10462 TAATTTATATATTTATAATTTTTAA
1 -AAATTATATATTT-TTATTTTTAA
10487 AAATTA
1 AAATTA
10493 AATTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
22 8 0.19
23 6 0.14
24 14 0.33
25 10 0.23
26 3 0.07
27 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
AAATTATATATTTTTATTTTTAA
Found at i:10466 original size:17 final size:16
Alignment explanation
Indices: 10443--10483 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10433 GTTGTAAAAA
10443 TATAATTTTAT-TATT
1 TATAATTTTATATATT
10458 T-TAATAATTTATATATT
1 TATAAT--TTTATATATT
10475 TATAATTTT
1 TATAATTTT
10484 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.18
15 1 0.05
16 8 0.36
17 5 0.23
18 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:12658 original size:34 final size:34
Alignment explanation
Indices: 12615--12682 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
12605 TCTGTGGTAA
12615 GCCCCTACTTTAAGATATGGTAATGTTCCAAACC
1 GCCCCTACTTTAAGATATGGTAATGTTCCAAACC
12649 GCCCCTACTTTAAGATATGGTAATGTTCCAAACC
1 GCCCCTACTTTAAGATATGGTAATGTTCCAAACC
12683 ACAGAAACAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (34 bp):
GCCCCTACTTTAAGATATGGTAATGTTCCAAACC
Found at i:13947 original size:30 final size:29
Alignment explanation
Indices: 13886--14433 Score: 550
Period size: 30 Copynumber: 18.8 Consensus size: 29
13876 ATTCGAGGTT
*
13886 AAAATGGGATTTTT-AAAGTTTGGGGGT-
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
**
13913 AAAATGGGATTTTTGGAAGTTTTTGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
13943 AAAATGGGATTTTTGGAAGTTTGGGGGT-
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
* *
13971 AAAATGGAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
* *
14001 AAATTGGGATTTTTGGAAGTTCGGGGGT-
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
* * * *
14029 AAAATAGAATTTTTGGAAGTTTCGAGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
** * *
14059 AATTTGGGA-ATTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
** *
14087 AAAATGAAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGGATTTTTGGAAG-TTTGGGGGTA
*
14117 AAAATGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
* ** *
14146 AAAACGAAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
14176 AAAATGGGATTTTTGGAAGTTTGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
* * *
14205 AAAATGGAATTTTTGGAATTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
* *
14235 AAAATGGGTTTTTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
* * *
14264 AAAATGGAATTTTTGGAATTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
* *
14294 AAAATGGGTTTTTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGGTA
* * *
14323 AAAATTGAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGGT-A
* *
14353 AAAATGGGTTTTTTGGAAGTTCGGGGGGTA
1 AAAATGGGATTTTTGGAAGTT-TGGGGGTA
*** * * ** *
14383 AAAA-CAAATTTTTTGAAAGTTTCGATGTC
1 AAAATGGGA-TTTTTGGAAGTTTGGGGGTA
14412 AAAATGGGATTTTTGGAAGTTT
1 AAAATGGGATTTTTGGAAGTTT
14434 CGGGACCTCC
Statistics
Matches: 418, Mismatches: 87, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
27 14 0.03
28 64 0.15
29 146 0.35
30 189 0.45
31 5 0.01
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.36
Consensus pattern (29 bp):
AAAATGGGATTTTTGGAAGTTTGGGGGTA
Found at i:14149 original size:59 final size:59
Alignment explanation
Indices: 13886--14437 Score: 744
Period size: 59 Copynumber: 9.4 Consensus size: 59
13876 ATTCGAGGTT
* * ** *
13886 AAAATGGGATTTTT-AAAGTTTGGGGGT-AAAATGGGATTTTTGGAAGTTTTTGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
* *
13943 AAAATGGGATTTTTGGAAGTTTGGGGGT-AAAATGGAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
* * *
14001 AAATTGGGATTTTTGGAAGTTCGGGGGT-AAAAT-AGAATTTTTGGAAGTTTCGAGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGA-AATTTTTGGAAGTTTTGGGGTCA
** * *
14059 AATTTGGGA-ATTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
*
14117 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAACGAAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
* * *
14176 AAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGGAATTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
* * *
14235 AAAATGGGTTTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAATTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
*
14294 AAAATGGGTTTTTTGGAAGTTCGGGGGTAAAAATTG-AATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAA-TGAAATTTTTGGAAGTTTTGGGGTCA
* * * * **
14353 AAAATGGGTTTTTTGGAAGTTCGGGGGGTAAAAA-CAAATTTTTTGAAAGTTTCGATGTC-
1 AAAATGGGATTTTTGGAAGTTC-GGGGGTAAAAATGAAA-TTTTTGGAAGTTTTGGGGTCA
14412 AAAATGGGATTTTTGGAAGTTTCGGG
1 AAAATGGGATTTTTGGAAG-TTCGGG
14438 ACCTCCGGGG
Statistics
Matches: 454, Mismatches: 31, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
57 31 0.07
58 132 0.29
59 259 0.57
60 32 0.07
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.36
Consensus pattern (59 bp):
AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
Found at i:15099 original size:4 final size:4
Alignment explanation
Indices: 15092--15133 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
15082 TCCTTCTTCC
* *
15092 TTCT TTCT TTCT TTCT TTCT CTTTT TTCT TTCT TTTT TTCT T
1 TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT T
15134 CATTTTTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:15139 original size:21 final size:21
Alignment explanation
Indices: 15095--15141 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15085 TTCTTCCTTC
15095 TTTCTTTCTTTCTTTCTCTTT
1 TTTCTTTCTTTCTTTCTCTTT
* *
15116 TTTCTTTCTTTTTTTCTTCATT
1 TTTCTTTCTTTCTTTC-TCTTT
15138 TTTC
1 TTTC
15142 GTTGGTCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCTTTCTTTCTTTCTCTTT
Found at i:15140 original size:12 final size:12
Alignment explanation
Indices: 15092--15133 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
15082 TCCTTCTTCC
*
15092 TTCTTTCTTTCT
1 TTCTTTCTTTTT
15104 TTCTTTCTCTTTT
1 TTCTTTCT-TTTT
15117 TTCTTTCTTTTT
1 TTCTTTCTTTTT
15129 TTCTT
1 TTCTT
15134 CATTTTTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTTCTTTTT
Found at i:16734 original size:13 final size:12
Alignment explanation
Indices: 16703--16744 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
16693 CCATAAAGCT
*
16703 GGAGAAGGAGAA
1 GGAGAAGGGGAA
16715 GGAGAAGGGGGAA
1 GGAGAA-GGGGAA
*
16728 GGGGAAGGGGAA
1 GGAGAAGGGGAA
16740 GGAGA
1 GGAGA
16745 GCAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GGAGAAGGGGAA
Found at i:16847 original size:16 final size:18
Alignment explanation
Indices: 16826--16862 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
16816 TTTTAAAATA
16826 TTTAAAAAAA-AATT-AT
1 TTTAAAAAAATAATTAAT
16842 TTTAAAAAAATAATTAAT
1 TTTAAAAAAATAATTAAT
16860 TTT
1 TTT
16863 TTTGTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTAAAAAAATAATTAAT
Found at i:16851 original size:17 final size:18
Alignment explanation
Indices: 16829--16862 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16819 TAAAATATTT
16829 AAAAAAAAATT-ATTTTA
1 AAAAAAAAATTAATTTTA
*
16846 AAAAAATAATTAATTTT
1 AAAAAAAAATTAATTTT
16863 TTTGTTGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAAAAAATTAATTTTA
Found at i:19393 original size:65 final size:62
Alignment explanation
Indices: 19317--19454 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 62
19307 TTTTAGATCT
*
19317 CTTAAAAATTGGTAAAA-GAATATTTTGAGCCCTTAAAAACTAAAAGAAAATAAATTTTGGGGCT
1 CTTAAAAATTGGTAAAATGAATATTTTGA-CCCTTAAAAACTAAAAG-AAA-AAA-TTTGGGACT
19381 C
62 C
*** * **
19382 CTTAAAAATTGGTAAAATTTTTTATTTTGACCTTTAAAAGTTAAAAGAAAAAATTTGGGACTC
1 CTTAAAAATTGGTAAAA-TGAATATTTTGACCCTTAAAAACTAAAAGAAAAAATTTGGGACTC
19445 CTTAAAAATT
1 CTTAAAAATT
19455 AAAAAAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
63 19 0.30
64 3 0.05
65 20 0.31
66 14 0.22
67 8 0.12
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (62 bp):
CTTAAAAATTGGTAAAATGAATATTTTGACCCTTAAAAACTAAAAGAAAAAATTTGGGACTC
Found at i:20452 original size:9 final size:9
Alignment explanation
Indices: 20440--20514 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
20430 ATGCTATTTA
20440 ATAATTTTT
1 ATAATTTTT
20449 ATAAATTTTCT
1 AT-AATTTT-T
* * *
20460 ATCACTTTC
1 ATAATTTTT
* *
20469 AAAATTTTC
1 ATAATTTTT
20478 ATAATATTTT
1 ATAAT-TTTT
*
20488 AATAATTTTG
1 -ATAATTTTT
20498 ATAATTTTT
1 ATAATTTTT
20507 A-AATTTTT
1 ATAATTTTT
20515 TTTTATATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
8 7 0.13
9 21 0.40
10 16 0.31
11 8 0.15
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (9 bp):
ATAATTTTT
Found at i:20496 original size:20 final size:19
Alignment explanation
Indices: 20440--20508 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
20430 ATGCTATTTA
20440 ATAATTTTT-ATAAATTTTC
1 ATAATTTTTAAT-AATTTTC
* * *
20459 TATCACTTTCAA-AATTTTC
1 -ATAATTTTTAATAATTTTC
*
20478 ATAATATTTTAATAATTTTG
1 ATAAT-TTTTAATAATTTTC
20498 ATAATTTTTAA
1 ATAATTTTTAA
20509 ATTTTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.08
19 18 0.46
20 17 0.44
21 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (19 bp):
ATAATTTTTAATAATTTTC
Found at i:21315 original size:12 final size:12
Alignment explanation
Indices: 21294--21328 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21284 AAAATGCTGA
*
21294 AATCAAAATCAT
1 AATCAGAATCAT
*
21306 CATCAGAATCAT
1 AATCAGAATCAT
21318 AATCAGAATCA
1 AATCAGAATCA
21329 CTTACTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (12 bp):
AATCAGAATCAT
Found at i:21857 original size:21 final size:21
Alignment explanation
Indices: 21833--21895 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
21823 TAAAAAGTTA
21833 CAAAATGATCACTAAACTATT
1 CAAAATGATCACTAAACTATT
*
21854 CAAAA-G-T---T-AACTTTTT
1 CAAAATGATCACTAAAC-TATT
*
21870 GAAAATGATCACTAAACTATT
1 CAAAATGATCACTAAACTATT
21891 CAAAA
1 CAAAA
21896 CTATTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
15 3 0.10
16 8 0.26
17 1 0.03
18 1 0.03
19 1 0.03
20 1 0.03
21 13 0.42
22 3 0.10
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (21 bp):
CAAAATGATCACTAAACTATT
Found at i:24977 original size:107 final size:103
Alignment explanation
Indices: 24772--24978 Score: 263
Period size: 103 Copynumber: 2.0 Consensus size: 103
24762 TATAAATACA
* * * * * *
24772 ACATATTTATCTAGTAGGAAATCCTCACAGTTAAACATAGATTTGATTTAGCTAATCATGTGCGA
1 ACATATTAATCTAGTAGGAAACCCACACAGTTAAACATAGACTTAATCTAGCTAATCATGTGCGA
*
24837 AATCATAGATCAAGTAATCAACAATAGAACTAATTTAG
66 AATCAAAGATCAAGTAATCAACAATAGAACTAATTTAG
* * *
24875 ACATATTAATCTAGTAGGTACCCCACACAGTTAAAGATAGACTTAATCTAGCTAACTAGCCATGT
1 ACATATTAATCTAGTAGGAAACCCACACAGTTAAACATAGACTTAATCTAGCTAA-T---CATGT
*
24940 -CTGAAATCAAAGATCAAGTAATTAACAATAGAACTAATT
62 GC-GAAATCAAAGATCAAGTAATCAACAATAGAACTAATT
24979 GATACCAAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
103 46 0.52
104 1 0.01
106 1 0.01
107 40 0.45
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (103 bp):
ACATATTAATCTAGTAGGAAACCCACACAGTTAAACATAGACTTAATCTAGCTAATCATGTGCGA
AATCAAAGATCAAGTAATCAACAATAGAACTAATTTAG
Found at i:33183 original size:57 final size:57
Alignment explanation
Indices: 33091--33247 Score: 140
Period size: 59 Copynumber: 2.7 Consensus size: 57
33081 TTTTAAGGCT
* * ** * **
33091 TGAACTTAACAACTTTT-TCCACATTAGGGTTTGAACTTTTTTATCCAAGTTAGGCCC
1 TGAACTTGACAACTTTTCT-CACATTGGGGCATGAACTTTTTTATCAAAGTTAAACCC
* * *
33148 TGAACTTGACAACTTTTCTCATATTGGGGCCTGAACCTTTTTTTATTAAAGTTAAACCC
1 TGAACTTGACAACTTTTCTCACATTGGGGCATGAA-C-TTTTTTATCAAAGTTAAACCC
* * *
33207 TAAACTTGGCAA-TTATTCTCACATTGAGGCATG-ACTTTTTT
1 TGAACTTGACAACTT-TTCTCACATTGGGGCATGAACTTTTTT
33248 TTGTCTAAGT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
56 6 0.07
57 29 0.35
58 5 0.06
59 42 0.51
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (57 bp):
TGAACTTGACAACTTTTCTCACATTGGGGCATGAACTTTTTTATCAAAGTTAAACCC
Found at i:37766 original size:130 final size:129
Alignment explanation
Indices: 37575--37823 Score: 410
Period size: 130 Copynumber: 1.9 Consensus size: 129
37565 GTTTACCAAT
*
37575 AGCTAAGAACAGTAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAA
1 AGCTAAGAACAGAAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAA
**
37640 AAACAGATGAACCC-ATTTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTGCAAA
66 AAACAGACAAACCCAATTT-AA-TTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTGCAAA
37704 G
129 G
* *
37705 AGCTAAGAACAGAAAAATCAACAAAAGGGGCAATCAATAAGAATCAAACAGTACAGAAAAAGTAA
1 AGCTAAGAACAGAAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAA
* *
37770 AAACAGACAAACCCAATTTAATTGAACTGAAAGAATACGAAAGCAAAGACTGTA
66 AAACAGACAAACCCAATTTAATTGAACTGAAAGAACACAAAAGCAAAGACTGTA
37824 GTTTAAAGAA
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
129 31 0.28
130 76 0.68
131 4 0.04
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (129 bp):
AGCTAAGAACAGAAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAA
AAACAGACAAACCCAATTTAATTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTGCAAAG
Found at i:37877 original size:130 final size:129
Alignment explanation
Indices: 37577--37869 Score: 376
Period size: 130 Copynumber: 2.3 Consensus size: 129
37567 TTACCAATAG
* * *
37577 CTAAGAACAGTAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAAAA
1 CTAAGAACAGAAAAATCAACAAAAGAAGCAAACAATAAGAATCAAACAGTACAAAAAAAGTAAAA
** *
37642 ACAGATGAACCCATTTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTGCAAAGAG
66 ACAGACAAACCCATTTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTT-CAAAGAA
** * *
37707 CTAAGAACAGAAAAATCAACAAAAGGGGCAATCAATAAGAATCAAACAGTACAGAAAAAGTAAAA
1 CTAAGAACAGAAAAATCAACAAAAGAAGCAAACAATAAGAATCAAACAGTACAAAAAAAGTAAAA
* * *
37772 ACAGACAAACCCAATTT-AA-TTGAACTGAAAGAATACGAAAGCAAAGACTGTAGTTT-AAAGAA
66 ACAGACAAACCC-ATTTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTCAAAGAA
* ** *
37834 TTAAGAACAGCTAAATCAATCAATAAGAATCAAACA
1 CTAAGAACAGAAAAATCAA-CAA-AAGAAGCAAACA
37870 GTAAAGAAAC
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
127 21 0.15
128 3 0.02
129 42 0.29
130 74 0.51
131 4 0.03
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.16
Consensus pattern (129 bp):
CTAAGAACAGAAAAATCAACAAAAGAAGCAAACAATAAGAATCAAACAGTACAAAAAAAGTAAAA
ACAGACAAACCCATTTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTCAAAGAA
Found at i:40229 original size:12 final size:13
Alignment explanation
Indices: 40212--40240 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
40202 CTCCCAATTA
40212 TCTTCTTCAT-CT
1 TCTTCTTCATCCT
40224 TCTTCTTCATCCT
1 TCTTCTTCATCCT
40237 TCTT
1 TCTT
40241 ACCGGTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.07, C:0.34, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCTTCATCCT
Found at i:59540 original size:30 final size:27
Alignment explanation
Indices: 59481--59540 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
59471 CAAATTAGTC
* * *
59481 TCCCTATTATTAAATGAATCAATTTAG
1 TCCCTATTATTAAAAGAATCAAATAAG
59508 TCCCTATACTATTAAAAAGAATCAAATAAG
1 TCCCTAT--TATT-AAAAGAATCAAATAAG
59538 TCC
1 TCC
59541 AAATTGTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
29 4 0.15
30 16 0.59
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (27 bp):
TCCCTATTATTAAAAGAATCAAATAAG
Found at i:60939 original size:38 final size:38
Alignment explanation
Indices: 60897--60973 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
60887 ATGCAATCCA
60897 ACTCCTAGTATAAGGGCCTCCATAGTACTTTTACCTGT
1 ACTCCTAGTATAAGGGCCTCCATAGTACTTTTACCTGT
*
60935 ACTCCTAGTATAAGGGCCTCCATGGTACTTTTACCTGT
1 ACTCCTAGTATAAGGGCCTCCATAGTACTTTTACCTGT
60973 A
1 A
60974 GAAGCATTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (38 bp):
ACTCCTAGTATAAGGGCCTCCATAGTACTTTTACCTGT
Found at i:66084 original size:6 final size:6
Alignment explanation
Indices: 66073--66111 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
66063 AGATCAAAAT
* *
66073 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
66112 TATGAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:68435 original size:14 final size:13
Alignment explanation
Indices: 68411--68444 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
68401 GGTAAACTAT
68411 AATAAAATAATAA
1 AATAAAATAATAA
68424 AATAATAATAATAA
1 AATAA-AATAATAA
68438 AAGTAAA
1 AA-TAAA
68445 CCACATCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 11 0.58
15 3 0.16
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:68907 original size:31 final size:31
Alignment explanation
Indices: 68852--68949 Score: 160
Period size: 31 Copynumber: 3.1 Consensus size: 31
68842 AACAATCCAT
*
68852 TGACTTAAATAAAAAACTTTTGAATAGTTTAG
1 TGACTTAAAT-GAAAACTTTTGAATAGTTTAG
*
68884 TGACTTAAATGAAAATTTTTGAATAGTTTAG
1 TGACTTAAATGAAAACTTTTGAATAGTTTAG
*
68915 TGACTTAAATGAAAGCTTTTGAATAGTTTAG
1 TGACTTAAATGAAAACTTTTGAATAGTTTAG
68946 TGAC
1 TGAC
68950 CATTTTGTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 52 0.84
32 10 0.16
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTGAATAGTTTAG
Found at i:68965 original size:62 final size:60
Alignment explanation
Indices: 68852--68978 Score: 141
Period size: 62 Copynumber: 2.1 Consensus size: 60
68842 AACAATCCAT
*
68852 TGACTTAAATAAAAAACTTTTGAATAGTTTAGTGACTTAAATGAAAATTTTTGAATAGTTTAG
1 TGACTTAAATAAAAAACTTTTGAATAGTTTAGTGACTT-AATGAAAATTTTT-AA-AGTTGAG
* * * * *
68915 TGACTTAAAT-GAAAGCTTTTGAATAGTTTAGTGACCATT-TTGTAACTTTTTAAAGTTGAG
1 TGACTTAAATAAAAAACTTTTGAATAGTTTAGTGA-C-TTAATGAAAATTTTTAAAGTTGAG
68975 TGAC
1 TGAC
68979 CAAAACGTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
60 10 0.18
61 2 0.04
62 31 0.55
63 11 0.20
64 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (60 bp):
TGACTTAAATAAAAAACTTTTGAATAGTTTAGTGACTTAATGAAAATTTTTAAAGTTGAG
Found at i:72130 original size:26 final size:26
Alignment explanation
Indices: 72095--72147 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
72085 TTAATATAAT
*
72095 TTTAATTTTAAATCCATATAAAGTAA
1 TTTAAGTTTAAATCCATATAAAGTAA
72121 TTTAAGTTTAAATCCATATAAAGTAA
1 TTTAAGTTTAAATCCATATAAAGTAA
72147 T
1 T
72148 ATGAATAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (26 bp):
TTTAAGTTTAAATCCATATAAAGTAA
Found at i:74758 original size:40 final size:40
Alignment explanation
Indices: 74714--74792 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
74704 TACCAAGAAT
74714 ATAAGGACTTATAGCAATTTTAACCATTATATAATTAAGC
1 ATAAGGACTTATAGCAATTTTAACCATTATATAATTAAGC
*
74754 ATAAGGACTTGTAGCAATTTTAACCATTATATAATTAAG
1 ATAAGGACTTATAGCAATTTTAACCATTATATAATTAAG
74793 TTGTGAAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (40 bp):
ATAAGGACTTATAGCAATTTTAACCATTATATAATTAAGC
Found at i:75082 original size:24 final size:23
Alignment explanation
Indices: 75038--75082 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
75028 TTCATCATTA
*
75038 TTTTAAATTTGGTATACATATAT
1 TTTTAAATTTGGTATAAATATAT
75061 TTTTAAAATTTGGT-TAAA-ATAT
1 TTTT-AAATTTGGTATAAATATAT
75083 GCTTCAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTTAAATTTGGTATAAATATAT
Found at i:90723 original size:266 final size:260
Alignment explanation
Indices: 90171--92097 Score: 1315
Period size: 266 Copynumber: 7.3 Consensus size: 260
90161 ATTTCACAAC
* * * *
90171 CAAAGAAACAGAGGAAACACAATCAATAGTTAACTAAACTCACCAAGAGG-TTTAACTCCCCTCC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCC
* * * * * *
90235 ATTGACACACGACGCTAACTGATAACTTAAACCCCTTAAAAGGCTCCATTGACACCGTTGAACAA
66 ATTGACACACAACGCTAACTGATAAC-AAAACCCCTTAAAAAGCTCCATTGACACTGCTCAACAA
** * * * * *
90300 GAAGTCAAATTCAAGCAACTAGTCTCTAAAGTCAATTCTTCCTTTGCTCAAACTAGTCAACCTCA
130 GAAGTCAAATTTGAGC-ACCAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCA
* * * *
90365 CCAATGTTATCCTACATGGGCTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATAT-
194 CCAAAG-TATCCTACAAGAGCTACAAC-T-CATATGCAGAGTCAACACAAAGTATTTCACAT-TC
90429 AGTTAG
255 AGTTAG
* * * ** *
90435 CAAAGAAACAAAGGAGACACAATT-ACAAGTTCACAAAACTCACCAAGAGGATTGAACTCTTCAC
1 CAAAGAAACAGAGGAAACACAATTAAC-AGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTC
* * *
90499 CAATTGACACACAATGCTAACTGATAACAAAACCCCCCTTAAAAGGCTCCTTTGACACTGCTCAA
65 C-ATTGACACACAACGCTAACTGATAACAAAA--CCCCTTAAAAAGCTCCATTGACACTGCTCAA
* * *
90564 CAATAAGTCAAATTTGAGCATCCAGTCTATTGAGTTAATTCTTCCTTTTCTCAAACTAGTCAATC
127 CAAGAAGTCAAATTTGAGCA-CCAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATC
* * * * *
90629 TCATCAAAGTATCCTATCCAAGCAGCTACTAC-CATATGCAAAGTCAACAGAACA-TATTTCCCA
191 TCACCAAAGTATCCTA--CAAG-AGCTACAACTCATATGCAGAGTCAACACAA-AGTATTTCACA
90692 TTCAGTTAG
252 TTCAGTTAG
** * * * *
90701 GGAAGAAACAGAGGAAACACAATTAACTGTTCACTAAACTCACCAAGATGCTTTAACTCCCCTCC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCC
* * * * * *
90766 ATTGACACACAACGCAAAGC-CATAATTAAAAACCCTTAAAAAGCCCCATTGACACCGCTCAACA
66 ATTGACACACAACGCTAA-CTGATAA-CAAAACCCCTTAAAAAGCTCCATTGACACTGCTCAACA
* * *
90830 AGAAGTCAAATTTGAGCACCTAGTCTA-TAAGGTCAAATTCTTCCCTCGCTCAAACTAGTCAATC
129 AGAAGTCAAATTTGAGCACC-AGTCTATTAA-GT-TAATTCTTCCTTTGCTCAAACTAGTCAATC
* * *
90894 TCACCAATGTCATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACAT
191 TCACCAAAGT-ATCCTACAAGAGCTACAAC-T-CATATGCAGAGTCAACACAAAGTATTTCACAT
*
90959 ACAGTTAG
253 TCAGTTAG
* * * *
90967 CAAAGAAACAAAAG-AACAC---T---AGTTCACAAAAACTCGCCAAGAGGATTGAACTCCCCTC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCAC-TAAACTCACCAAGAGGATTGAACTCCCCTC
* * * * *
91025 CAATTGACACACAATGCTAACAGATAACTAAAA-CCCTTAAAAACCACCATTGAGACTGCTCAAC
65 C-ATTGACACACAACGCTAACTGATAAC-AAAACCCCTTAAAAAGCTCCATTGACACTGCTCAAC
* * *
91089 AAGAAGTCAAATCTGAGCACCTAGTCTATTATGTTAAATCTTCCTTTGCTCAAACTAGTCAATCT
128 AAGAAGTCAAATTTGAGCACC-AGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCT
* * * * * * * * *
91154 TATCAACA-TATCCCAGATA-AGCTACTACTTCCGTATGCATG-GTCAACAGAAAGAATTTCCCA
192 CACCAA-AGTATCCTACA-AGAGCTACAAC-T-CATATGCA-GAGTCAACACAAAGTATTTCACA
*
91216 TTTAGTTAG
252 TTCAGTTAG
** * * *
91225 TGAAGAAACAGGGGAAACACAATTAACAGTTCACTAAACTCACCAGGATGATTGAACTCCCCTCC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCC
* ** * * *
91290 ATTG--ACACAACACTAACCCATAATTAAAACCCCTTAAAAATCTCCATTGACACTTCTCAAC--
66 ATTGACACACAACGCTAACTGATAA-CAAAACCCCTTAAAAAGCTCCATTGACACTGCTCAACAA
* * * * * *
91351 -AAGTCAGATTGGAGCACAAAGTCTACTAAGTTAATTCTTCCATTGCTCAAACTAGTCAATCACA
130 GAAGTCAAATTTGAGCAC-CAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCA
* * * *
91415 CCAAAATGCCAAATTATCCTATATG-GACTAC--TTACACATGCAGAGTCAACAC--AGTATTTC
194 CC-AAA-G------TATCCTACAAGAG-CTACAACT-CATATGCAGAGTCAACACAAAGTATTTC
** **
91475 ACACACAACTAG
249 ACATTCAGTTAG
* * *
91487 CAGAGAAACAGAGGAAACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTGCCCTCC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCC
* * * * * * * *
91552 ATTGACACAAAATGCTAACCGATAATTAAAACCCCTT-AAAAGGTACCA-TG-CACCGTTCAAGA
66 ATTGACACACAACGCTAACTGATAA-CAAAACCCCTTAAAAAGCT-CCATTGACACTGCTCAACA
* ** * * *
91614 ATAAGTCAAATTCAAGCACCTACTGGTCCTAGTCT-A-CTAAGTTTTTCCTTTGCTCAAACTGGT
129 AGAAGTCAAATTTGAGCACC-A---GT-CTA-T-TAAGTTAA-TTCTTCCTTTGCTCAAACTAGT
* * * * * * * * ** * *
91677 CAATCACATCAATGGCTTAATACTATATGGGTTACTGCTTACATATACAGAGTCAACACCAAGTA
186 CAATCTCACCAA-AG--T-ATCCTACAAGAGCTACAAC-T-CATATGCAGAGTCAACACAAAGTA
** *
91742 TTTCACACGCAGCTAG
245 TTTCACATTCAGTTAG
** * * * * *
91758 TGAAGAAACAGAGGAAACACGATTAATAATTCACTGAACTCACCAAGAGGACTGAACTCCCCTCC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCC
* * * * * * *** *
91823 ATTGACACATAATGCTAACTGATAATTAAAACCTCTT-AAAGGCGCCATTGACACCATTCAAGAA
66 ATTGACACACAACGCTAACTGATAA-CAAAACCCCTTAAAAAGCTCCATTGACACTGCTCAACAA
** * *
91887 GAAGTCAAATTCAAGCACCAG-CTGATCTTAGTCTATTAAGGTT-TTCCTTTGCTCAAACAAGTC
130 GAAGTCAAATTTGAGCACCAGTCT-AT-TAAG----TTAA--TTCTTCCTTTGCTCAAACTAGTC
* * * ** * * * *
91950 AATCACACCAATGGGTTAATCTTA-AATGAAG-TATTACTTACACATGCAGAGTCCATACAAAAT
187 AATCTCACCAA--AG-T-ATCCTACAA-G-AGCTACAAC-T-CATATGCAGAGTCAACACAAAGT
92013 ATTTCACATAT-AGCTT-G
244 ATTTCACAT-TCAG-TTAG
* * * * *
92030 CTAAGAAACAGAGGAAACACAATCAATAGTTCACTAAAACTTACCAAGAGGATTGAACTCTCCTC
1 CAAAGAAACAGAGGAAACACAATTAACAGTTCACT-AAACTCACCAAGAGGATTGAACTCCCCTC
92095 CAT
65 CAT
92098 AGCCATCAAG
Statistics
Matches: 1336, Mismatches: 237, Indels: 171
0.77 0.14 0.10
Matches are distributed among these distances:
258 56 0.04
259 99 0.07
260 85 0.06
261 45 0.03
262 110 0.08
263 24 0.02
264 169 0.13
265 98 0.07
266 187 0.14
267 104 0.08
268 6 0.00
269 34 0.03
270 32 0.02
271 118 0.09
272 134 0.10
273 35 0.03
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (260 bp):
CAAAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCC
ATTGACACACAACGCTAACTGATAACAAAACCCCTTAAAAAGCTCCATTGACACTGCTCAACAAG
AAGTCAAATTTGAGCACCAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACC
AAAGTATCCTACAAGAGCTACAACTCATATGCAGAGTCAACACAAAGTATTTCACATTCAGTTAG
Found at i:91249 original size:524 final size:521
Alignment explanation
Indices: 90173--91592 Score: 1649
Period size: 524 Copynumber: 2.7 Consensus size: 521
90163 TTCACAACCA
* * *
90173 AAGAAACAGAGGAAACACAATCAA-TAGTTAACTAAACTCACCAAGA-GGTTTAACTCCCCTCCA
1 AAGAAACAGAGGAAACACAATTAACT-GTTCACTAAACTCACCAAGATGATTTAACTCCCCTCCA
* * * * *
90236 TTGACACACGACGCTAACTGATAACTT-AAACCCCTTAAAAGGCTCCATTGACACCGTTGAACAA
65 TTGACACACAACGCTAAC-CATAA-TTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAA
* * * * *
90300 GAAGTCAAATTCAAGCAACTAGTCTCTAAAGTCAATTCTTCCTTTGCTCAAACTAGTCAACCTCA
128 GAAGTCAAATTCGAGCACCTAGTCTAT-AAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCA
* *
90365 CCAATGTTATCCTACATGGGCTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATATA
192 CCAATGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATACA
* *
90430 GTTAGCAAAGAAACAAAGGAGACACAATTACAAGTTCACAAAACTCACCAAGAGGATTGAACTCT
257 GTTAGCAAAGAAACAAA--AGA-AC----ACTAGTTCACAAAACTCACCAAGAGGATTGAACTCC
* * * ** * *
90495 TCACCAATTGACACACAATGCTAACTGATAAC-AAAACCCCCCTTAAAAGGCTCCTTTGACACTG
315 CCTCCAATTGACACACAATGCTAACAGATAACTAAAA--CCCCTTAAAAACCACCATTGACACTG
* * * *
90559 CTCAACAATAAGTCAAATTTGAGCATCCAGTCTATTGAGTTAATTCTTCCTTTTCTCAAACTAGT
378 CTCAACAAGAAGTCAAATCTGAGCATCCAGTCTATTGAGTTAAATCTTCCTTTGCTCAAACTAGT
* ** *
90624 CAATCTCATCAAAGTATCCTATCCAAGCAGCTACTACCATATGCAAAGTCAACAGAACATATTTC
443 CAATCTCATCAAAGTATCCCAGACAAGCAGCTACTACCATATGCAAAGTCAACAGAACAAATTTC
90689 CCATTCAGTTAGGG
508 CCATTCAGTTAGGG
*
90703 AAGAAACAGAGGAAACACAATTAACTGTTCACTAAACTCACCAAGATGCTTTAACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAACTGTTCACTAAACTCACCAAGATGATTTAACTCCCCTCCAT
* * *
90768 TGACACACAACGCAAAGCCATAATTAAAAACCCTTAAAAAGCCCCATTGACACCGCTCAACAAGA
66 TGACACACAACGCTAA-CCATAATTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAAGA
* * *
90833 AGTCAAATTTGAGCACCTAGTCTATAAGGTCAAATTCTTCCCTCGCTCAAACTAGTCAATCTCAC
130 AGTCAAATTCGAGCACCTAGTCTATAA-GTC-AATTCTTCCATTGCTCAAACTAGTCAATCTCAC
*
90898 CAATGTCATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATACAG
193 CAATGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATACAG
*
90963 TTAGCAAAGAAACAAAAGAACACTAGTTCACAAAAACTCGCCAAGAGGATTGAACTCCCCTCCAA
258 TTAGCAAAGAAACAAAAGAACACTAGTTCAC-AAAACTCACCAAGAGGATTGAACTCCCCTCCAA
*
91028 TTGACACACAATGCTAACAGATAACTAAAA-CCCTTAAAAACCACCATTGAGACTGCTCAACAAG
322 TTGACACACAATGCTAACAGATAACTAAAACCCCTTAAAAACCACCATTGACACTGCTCAACAAG
*
91092 AAGTCAAATCTGAGCA-CCTAGTCTATT-ATGTTAAATCTTCCTTTGCTCAAACTAGTCAATCTT
387 AAGTCAAATCTGAGCATCC-AGTCTATTGA-GTTAAATCTTCCTTTGCTCAAACTAGTCAATCTC
* * * **
91155 ATCAACA-TATCCCAGATAAGCTA-CTACTTCCGTATGCATGGTCAACAGAA-AGAATTTCCCAT
450 ATCAA-AGTATCCCAGACAAGC-AGCTACTACCATATGCAAAGTCAACAGAACA-AATTTCCCAT
* *
91217 TTAGTTAGTG
512 TCAGTTAGGG
* * * *
91227 AAGAAACAGGGGAAACACAATTAACAGTTCACTAAACTCACCAGGATGATTGAACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAACTGTTCACTAAACTCACCAAGATGATTTAACTCCCCTCCAT
* * **
91292 TG--ACACAACACTAACCCATAATTAAAACCCCTTAAAAATCTCCATTGACACTTCTCAAC---A
66 TGACACACAACGCTAA-CCATAATTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAAGA
* * ** * *
91352 AGTCAGATTGGAGCACAAAGTCTACTAAGTTAATTCTTCCATTGCTCAAACTAGTCAATCACACC
130 AGTCAAATTCGAGCACCTAGTCTA-TAAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCACC
* * *
91417 AAAATGCCAAATTATCCTATAT-GG--ACTACTTACACATGCAGAGTCAACAC--AGTATTTCAC
194 --AATG-----TTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCAC
* ** * * * *
91477 ACACAACTAGCAGAGAAACAGAGGAAACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGA
252 ATACAGTTAGCAAAGAAACAAAAG-AACAC------TAGTTCACAAAACTCACCAAGAGGATTGA
* * * *
91542 ACTGCCCTCC-ATTGACACAAAATGCTAACCGATAATTAAAACCCCTTAAAA
310 ACTCCCCTCCAATTGACACACAATGCTAACAGATAACTAAAACCCCTTAAAA
91593 GGTACCATGC
Statistics
Matches: 776, Mismatches: 85, Indels: 62
0.84 0.09 0.07
Matches are distributed among these distances:
518 31 0.04
519 23 0.03
520 35 0.05
521 5 0.01
522 73 0.09
523 4 0.01
524 201 0.26
525 48 0.06
526 90 0.12
527 12 0.02
529 2 0.00
530 49 0.06
531 94 0.12
532 109 0.14
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (521 bp):
AAGAAACAGAGGAAACACAATTAACTGTTCACTAAACTCACCAAGATGATTTAACTCCCCTCCAT
TGACACACAACGCTAACCATAATTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAAGAA
GTCAAATTCGAGCACCTAGTCTATAAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCACCAA
TGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATACAGTTA
GCAAAGAAACAAAAGAACACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTCCAATTGA
CACACAATGCTAACAGATAACTAAAACCCCTTAAAAACCACCATTGACACTGCTCAACAAGAAGT
CAAATCTGAGCATCCAGTCTATTGAGTTAAATCTTCCTTTGCTCAAACTAGTCAATCTCATCAAA
GTATCCCAGACAAGCAGCTACTACCATATGCAAAGTCAACAGAACAAATTTCCCATTCAGTTAGG
G
Found at i:91800 original size:271 final size:270
Alignment explanation
Indices: 90131--92097 Score: 936
Period size: 264 Copynumber: 7.4 Consensus size: 270
90121 TCCATATGGC
* * *
90131 TACTAGTTACATATGCAGAGCCAACA-C-AGTATTTCACA-AC--C-A--AAGAAACAGAGGAAA
1 TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAGTAAGAAACAGAGGAAA
* * * ** *
90188 CACAATCAATAGTTAACTAAACTCACCAAGAGG-TTTAACTCCCCTCCATTGACACACGACGCTA
66 CACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACT-CCCTCCATTGACACAAAATGCTA
* * * * *
90252 ACTGATAACTT-AAACCCCTTAAAAGGCTCCATTGACACCGTTGAACAAGAAGTCAAATTCAAGC
130 ACCGATAA-TTAAAACCCCTT-AAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATTCAAGC
*** * * *
90316 A--A-CT-AGTCTCTAAAGT-C-AA--TTCTTCCTTTGCTCAAACTAGTCAACCTCACCAAT-G-
193 ACCAGCTGA-TC-CTAGTCTACTAAGGTT-TTCCTTTGCTCAAACAAGTCAATCACACCAATGGC
* * *
90371 TT-ATCCTACATG-GG
255 TTAATCTTAAATGAAG
* * * * * * * * *
90385 CTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAACAAAGGA
1 -TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAG-TAAGAAACAGAGGA
* * * * *
90450 GACACAATTACA-AGTTCACAAAACTCACCAAGAGGATTGAACTCTTCACCAATTGACACACAAT
64 AACACAATTA-ATAGTTCACTAAACTCACCAAGAGGATTGAACTC-CCTCC-ATTGACACAAAAT
* * * * *** * *
90514 GCTAACTGATAA-CAAAACCCCCCTTAAAAGGCTCCTTTGACACTGCTCAACAATAAGTCAAATT
126 GCTAACCGATAATTAAAA--CCCCTT-AAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATT
** * * * *
90578 TGAGCATCCAGTCT-AT--TGAG--T--TAA--TTCTTCCTTTTCTCAAACTAGTCAATCTCATC
188 CAAGCA-CCAG-CTGATCCT-AGTCTACTAAGGTT-TTCCTTTGCTCAAACAAGTCAATCACACC
* * *
90634 AA-AG--T-ATCCT--ATCCAAG
249 AATGGCTTAATCTTAAAT-GAAG
* * * * * * ** * *
90651 CAGCTAC-TACCATATGCAAAGTCAACA-GAACATATTTCCCATTCAGTTAGGGAAGAAACAGAG
1 TA-CTACTTA-CACATGCAGAGTCAACACCAA-GTATTTCACACACAGCTA-GTAAGAAACAGAG
* * * *
90714 GAAACACAATTAACT-GTTCACTAAACTCACCAAGATGCTTTAACTCCCCTCCATTGACACACAA
62 GAAACACAATTAA-TAGTTCACTAAACTCACCAAGAGGATTGAACT-CCCTCCATTGACACAAAA
* * * * * ** *
90778 CGCAAAGCC-ATAATTAAAAACCCTTAAAAAGCCCCATTGACACCGCTCAACAAGAAGTCAAATT
125 TGCTAA-CCGATAATTAAAACCCCTT-AAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATT
** * * * * *
90842 TGAGCACCTAGTCT-AT--AAGGTC-A--AA--TTCTTCCCTCGCTCAAACTAGTCAATCTCACC
188 CAAGCACC-AG-CTGATCCTA-GTCTACTAAGGTT-TTCCTTTGCTCAAACAAGTCAATCACACC
* * * *
90899 AAT-G--TCATCCTACATG-GG
249 AATGGCTTAATCTTAAATGAAG
* * * * * * * *
90917 CTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATACAGTTAGCAAAGAAACAAAAG-
1 -TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAG-TAAGAAACAGAGGA
* * *
90981 AACAC------TAGTTCACAAAAACTCGCCAAGAGGATTGAACTCCCCTCCAATTGACACACAAT
64 AACACAATTAATAGTTCAC-TAAACTCACCAAGAGGATTGAACT-CCCTCC-ATTGACACAAAAT
* * ** * *** *
91040 GCTAACAGATAACTAAAA-CCCTTAAAAACCACCATTGAGACTGCTCAACAAGAAGTCAAA-TCT
126 GCTAACCGATAATTAAAACCCCTT-AAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATTC-
* * * ** *
91103 GAGCACCTAGTCT-AT--TATGT-TA--AA--TCTTCCTTTGCTCAAACTAGTCAATCTTATCAA
189 AAGCACC-AG-CTGATCCTA-GTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAA
* ** *
91160 ---CAT-ATCCCAGAT-AAG
251 TGGCTTAATCTTAAATGAAG
* ** ** * * *** * *
91175 CTACTACTTCCGTATGCATG-GTCAACAGAAAGAATTTCCCATTTAGTTAGTGAAGAAACAGGGG
1 -TACTACTTACACATGCA-GAGTCAACACCAAGTATTTCACACACAGCTAGT-AAGAAACAGAGG
* * * *
91239 AAACACAATTAACAGTTCACTAAACTCACCAGGATGATTGAACTCCCCTCCATTGACACAACA--
63 AAACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACT-CCCTCCATTGACACAAAATG
* ** * ** * * **
91302 CTAACCCATAATTAAAACCCCTTAAAAATCTCCATTGACA-C-TTC-TCAACAAGTCAGATTGGA
127 CTAACCGATAATTAAAACCCCTT-AAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATTCAA
* * *
91364 GCA-CA----A----AGTCTACTAAGTTAATTCTTCCATTGCTCAAACTAGTCAATCACACCAAA
191 GCACCAGCTGATCCTAGTCTACTAAG---GTT-TTCCTTTGCTCAAACAAGTCAATCACACC--A
* * *
91420 ATGCCAAATT-ATCCTATATG--G
250 ATGGC---TTAATCTTAAATGAAG
* *
91441 -ACTACTTACACATGCAGAGTCAACA-C-AGTATTTCACACACAACTAGCAGAGAAACAGAGGAA
1 TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAGTA-AGAAACAGAGGAA
91503 ACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTGCCCTCCATTGACACAAAATGCT
65 ACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACT-CCCTCCATTGACACAAAATGCT
* * *
91568 AACCGATAATTAAAACCCCTTAAAAGGTACCA-TG-CACCGTTCAAGAATAAGTCAAATTCAAGC
129 AACCGATAATTAAAACCCCTT-AAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATTCAAGC
* * ** *
91631 ACCTA-CTGGTCCTAGTCTACTAAGTTTTTCCTTTGCTCAAACTGGTCAATCACATCAATGGCTT
193 ACC-AGCTGATCCTAGTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGCTT
* *
91695 AATAC-TATATG-GG
257 AAT-CTTAAATGAAG
* * * *
91708 TTACTGCTTACATATACAGAGTCAACACCAAGTATTTCACACGCAGCTAGTGAAGAAACAGAGGA
1 -TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAGT-AAGAAACAGAGGA
* * * * *
91773 AACACGATTAATAATTCACTGAACTCACCAAGAGGACTGAACTCCCCTCCATTGACACATAATGC
64 AACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACT-CCCTCCATTGACACAAAATGC
* * *
91838 TAACTGATAATTAAAACCTCTTAAAGGCGCCATTGACACCATTCAAGAAGAAGTCAAATTCAAGC
128 TAACCGATAATTAAAACCCCTTAAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATTCAAGC
* * *
91903 ACCAGCTGATCTTAGTCTATTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGGTTA
193 ACCAGCTGATCCTAGTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGCTTA
91968 ATCTTAAATGAAG
258 ATCTTAAATGAAG
* * * * * * * *
91981 TATTACTTACACATGCAGAGTCCATACAAAATATTTCACATATAGCTTGCTAAGAAACAGAGGAA
1 TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAG-TAAGAAACAGAGGAA
* *
92046 ACACAATCAATAGTTCACTAAAACTTACCAAGAGGATTGAACTCTCCTCCAT
65 ACACAATTAATAGTTCACT-AAACTCACCAAGAGGATTGAACTC-CCTCCAT
92098 AGCCATCAAG
Statistics
Matches: 1374, Mismatches: 220, Indels: 218
0.76 0.12 0.12
Matches are distributed among these distances:
250 2 0.00
251 3 0.00
253 3 0.00
255 22 0.02
257 12 0.01
258 61 0.04
259 81 0.06
260 90 0.07
261 43 0.03
262 102 0.07
263 17 0.01
264 177 0.13
265 103 0.07
266 177 0.13
267 97 0.07
268 8 0.01
269 23 0.02
270 36 0.03
271 116 0.08
272 161 0.12
273 29 0.02
274 11 0.01
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (270 bp):
TACTACTTACACATGCAGAGTCAACACCAAGTATTTCACACACAGCTAGTAAGAAACAGAGGAAA
CACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTCCCTCCATTGACACAAAATGCTAA
CCGATAATTAAAACCCCTTAAAGGCACCATTGACACCATTCAAGAAGAAGTCAAATTCAAGCACC
AGCTGATCCTAGTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGCTTAATC
TTAAATGAAG
Found at i:92020 original size:272 final size:269
Alignment explanation
Indices: 91441--92097 Score: 831
Period size: 272 Copynumber: 2.4 Consensus size: 269
91431 TCCTATATGG
* * *
91441 ACTACTTACACATGCAGAGT-CAACACAGTATTTCACACACAACTAGCAGAGAAACAGAGGAAAC
1 ACTACTTACACATGCAGAGTCCAACAAAGTATTTCACACACAGCTAGTA-AGAAACAGAGGAAAC
*
91505 ACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTGCCCTCCATTGACACAAAATGCTAA
65 ACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCATTGACACAAAATGCTAA
* * *
91570 CCGATAATTAAAACCCCTTAAAAGGTACCATGCACCGTTCAAGAATAAGTCAAATTCAAGCACCT
130 CCGATAATTAAAACCCCTTAAAAGGCACCATGCACCATTCAAGAAGAAGTCAAATTCAAGCACCT
* * ** *
91635 ACTGGTCCTAGTCTACTAAGTTTTTCCTTTGCTCAAACTGGTCAATCACATCAATGGCTTAATAC
195 ACTGATCCTAGTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGCTTAATAC
* *
91700 TATATGGGTT
260 TAAATGAGTT
* * * *
91710 ACTGCTTACATATACAGAGT-CAACACCAAGTATTTCACACGCAGCTAGTGAAGAAACAGAGGAA
1 ACTACTTACACATGCAGAGTCCAACA--AAGTATTTCACACACAGCTAGT-AAGAAACAGAGGAA
* * * * *
91774 ACACGATTAATAATTCACTGAACTCACCAAGAGGACTGAACTCCCCTCCATTGACACATAATGCT
63 ACACAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCATTGACACAAAATGCT
* * *
91839 AACTGATAATTAAAACCTCTT-AAAGGCGCCATTGACACCATTCAAGAAGAAGTCAAATTCAAGC
128 AACCGATAATTAAAACCCCTTAAAAGGCACCA-TG-CACCATTCAAGAAGAAGTCAAATTCAAGC
* * *
91903 ACC-AGCTGATCTTAGTCTATTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGGTT
191 ACCTA-CTGATCCTAGTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGCTT
91967 AAT-CTTAAATGAAG-T
255 AATAC-TAAATG-AGTT
* * * * *
91982 ATTACTTACACATGCAGAGTCCATACAAAATATTTCACATATAGCTTGCTAAGAAACAGAGGAAA
1 ACTACTTACACATGCAGAGTCCA-ACAAAGTATTTCACACACAGCTAG-TAAGAAACAGAGGAAA
* * *
92047 CACAATCAATAGTTCACTAAAACTTACCAAGAGGATTGAACTCTCCTCCAT
64 CACAATTAATAGTTCACT-AAACTCACCAAGAGGATTGAACTCCCCTCCAT
92098 AGCCATCAAG
Statistics
Matches: 331, Mismatches: 45, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
269 22 0.07
270 8 0.02
271 113 0.34
272 153 0.46
273 32 0.10
274 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (269 bp):
ACTACTTACACATGCAGAGTCCAACAAAGTATTTCACACACAGCTAGTAAGAAACAGAGGAAACA
CAATTAATAGTTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCATTGACACAAAATGCTAAC
CGATAATTAAAACCCCTTAAAAGGCACCATGCACCATTCAAGAAGAAGTCAAATTCAAGCACCTA
CTGATCCTAGTCTACTAAGGTTTTCCTTTGCTCAAACAAGTCAATCACACCAATGGCTTAATACT
AAATGAGTT
Found at i:93642 original size:10 final size:9
Alignment explanation
Indices: 93572--93661 Score: 51
Period size: 9 Copynumber: 9.4 Consensus size: 9
93562 TTATTTCATA
*
93572 AAAAAAATT
1 AAAAATATT
*
93581 AAAAATCTT
1 AAAAATATT
93590 AAAGAATTATT
1 AAA-AA-TATT
*
93601 AAAAATAGGAT
1 AAAAATA--TT
*
93612 AAAAATATC
1 AAAAATATT
93621 AACAAATA-T
1 AA-AAATATT
93630 AAAAATTATT
1 AAAAA-TATT
93640 --AAATATT
1 AAAAATATT
93647 ACAAAAATATT
1 --AAAAATATT
93658 AAAA
1 AAAA
93662 TAAATATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
7 4 0.06
8 6 0.10
9 22 0.35
10 10 0.16
11 21 0.33
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:94184 original size:11 final size:10
Alignment explanation
Indices: 94154--94246 Score: 52
Period size: 10 Copynumber: 9.3 Consensus size: 10
94144 CCAGTTCAAG
*
94154 TTTTTATGA-
1 TTTTTATAAT
94163 TTTTTATAAT
1 TTTTTATAAT
*
94173 TTTTTATAAA
1 TTTTTATAAT
*
94183 TTTATATAA-
1 TTTTTATAAT
*
94192 -GTTT-TAAT
1 TTTTTATAAT
94200 GTTTTTA-AATTT
1 -TTTTTATAA--T
94212 TTTTTATAATTT
1 TTTTTATAA--T
*
94224 TTTTTACAAT
1 TTTTTATAAT
*
94234 TTTTTATTAT
1 TTTTTATAAT
94244 TTT
1 TTT
94247 GTAATAATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
7 3 0.04
8 2 0.03
9 8 0.12
10 34 0.51
11 6 0.09
12 14 0.21
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:94227 original size:13 final size:12
Alignment explanation
Indices: 94201--94243 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
94191 AGTTTTAATG
94201 TTTTTA-AATTT
1 TTTTTATAATTT
94212 TTTTTATAATTT
1 TTTTTATAATTT
*
94224 TTTTTACAATTT
1 TTTTTATAATTT
94236 TTTATTAT
1 TTT-TTAT
94244 TTTGTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 6 0.21
12 19 0.68
13 3 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:97334 original size:18 final size:18
Alignment explanation
Indices: 97301--97336 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
97291 TGTTTAGTAG
* *
97301 TATTTTTGACATAAAAAA
1 TATTTTTGAAAAAAAAAA
97319 TATTTTTGAAAAAAAAAA
1 TATTTTTGAAAAAAAAAA
97337 CTAGCTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (18 bp):
TATTTTTGAAAAAAAAAA
Found at i:97720 original size:13 final size:13
Alignment explanation
Indices: 97691--97751 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
97681 TAAATCAAGT
*
97691 TTTTCAAAAAT-AA
1 TTTTC-AAAATCAC
97704 TTTTCAAAATCAC
1 TTTTCAAAATCAC
97717 TTTTTCAAAA-CAC
1 -TTTTCAAAATCAC
* * *
97730 TTTTTAAAAGCAT
1 TTTTCAAAATCAC
97743 TTTTCAAAA
1 TTTTCAAAA
97752 ACAATAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 13 0.32
13 19 0.46
14 9 0.22
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.41
Consensus pattern (13 bp):
TTTTCAAAATCAC
Found at i:97752 original size:14 final size:13
Alignment explanation
Indices: 97704--97751 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
97694 TCAAAAATAA
97704 TTTTCAAAATCACT
1 TTTTCAAAA-CACT
97718 TTTTCAAAACACT
1 TTTTCAAAACACT
97731 TTTT-AAAAGCA-T
1 TTTTCAAAA-CACT
97743 TTTTCAAAA
1 TTTTCAAAA
97752 ACAATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.28
13 14 0.44
14 9 0.28
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (13 bp):
TTTTCAAAACACT
Found at i:97752 original size:26 final size:27
Alignment explanation
Indices: 97690--97756 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 27
97680 TTAAATCAAG
* *
97690 TTTTTCAAAAATAATTTTCAAAATCAC
1 TTTTTCAAAAACAATTTTCAAAAGCAC
* *
97717 TTTTTC-AAAACACTTTTTAAAAGCA-
1 TTTTTCAAAAACAATTTTCAAAAGCAC
97742 TTTTTCAAAAACAAT
1 TTTTTCAAAAACAAT
97757 AATTATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 6 0.18
26 22 0.65
27 6 0.18
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.40
Consensus pattern (27 bp):
TTTTTCAAAAACAATTTTCAAAAGCAC
Found at i:98032 original size:20 final size:20
Alignment explanation
Indices: 98007--98071 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
97997 CCATAAAATT
98007 TAACAAAATTAAATTATGTA
1 TAACAAAATTAAATTATGTA
98027 TAACAACTACCA-TAAA--AT-T-
1 TAACAA--A--ATTAAATTATGTA
98046 TAACAAAATTAAATTATGTA
1 TAACAAAATTAAATTATGTA
98066 TAACAA
1 TAACAA
98072 CTACATGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 18
0.67 0.00 0.33
Matches are distributed among these distances:
15 1 0.03
16 4 0.11
17 1 0.03
18 2 0.06
19 7 0.19
20 13 0.36
21 2 0.06
22 1 0.03
23 4 0.11
24 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (20 bp):
TAACAAAATTAAATTATGTA
Found at i:98049 original size:39 final size:39
Alignment explanation
Indices: 97995--98075 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
97985 GTTGTAAGCT
97995 TACCATAAAATTTAACAAAATTAAATTATGTATAACAAC
1 TACCATAAAATTTAACAAAATTAAATTATGTATAACAAC
98034 TACCATAAAATTTAACAAAATTAAATTATGTATAACAAC
1 TACCATAAAATTTAACAAAATTAAATTATGTATAACAAC
98073 TAC
1 TAC
98076 ATGTATTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (39 bp):
TACCATAAAATTTAACAAAATTAAATTATGTATAACAAC
Found at i:104629 original size:256 final size:253
Alignment explanation
Indices: 104198--104889 Score: 838
Period size: 256 Copynumber: 2.7 Consensus size: 253
104188 AACCATGTTT
* * *
104198 AATTGGAATAAACAATTAATTAAAGAAATCTTGATTAGCAGTGAAAAAAAAACTTCAAAAGCAAT
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGC-G-G--TAAAAAACTTCAAAAGCAAA
*
104263 GGAGAGAAACC---AAAATGCAATACAATCTCGTCAACTAAGTATTACACTGTTTTTGGATGAAC
62 GGAGAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAAC
*
104325 TATGTTCAACTTGAATAAACAACTAATTAAAGAAATCTTGAGTAGCAGT-GAACAAAAAAAAAAT
127 TATGTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGAGTAGCAGTCG-A-AAAAAAAAAAT
** * *
104389 CAAAAGCAAAATGCAATTGATCACATAT-GACTAAGTATTACACTGTTTTCTGTTGAACTAAGGT
190 CAAAAGCAAAATGCAATAAAT--CATATCGACTAAGTATTACACTGTTATCTGATGAACTAAGGT
104453 C
253 C
* *
104454 AATTGGAATAAACAATTAATTGAAGAAATCTCGATTAGCGGTAAAAGAACTTCAAAAGCAACGGA
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCGGTAAAA-AACTTCAAAAGCAAAGGA
*
104519 GAGAAACCAGTAAAATGCAATACAATGTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTAT
65 GAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTAT
*
104584 GTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTTCGAAAAAAAAAAATCAAA
130 GTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGAGTAGCAG-TCGAAAAAAAAAAATCAAA
* * * *
104649 ATCAAAATGCGATAAATCATATCGACTAAGTATTACACTGTTATCTGATGACCTAAGTTC
194 AGCAAAATGCAATAAATCATATCGACTAAGTATTACACTGTTATCTGATGAACTAAGGTC
* * * * * * * * *
104709 AACTGGAATAAACAACTAATCAAATAAATCTTGGATTAGCAGTGAAAAACAATAAAAAGCAAATT
1 AATTGGAATAAACAATTAATTAAAGAAATC-TCGATTAGCGGTAAAAAAC-TTCAAAAGC-AA--
* * * * * * * *
104774 AGAAAAAAAAAACAGTAAAATGCAAAACAATCACATCGACTAAGTATTACACTGTTATCT-GATG
61 AG-GAGAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTT-TTTGGATG
* ** * *
104838 AACTAAGTTCAATTCAAATAAACAATTAATTAAACAAATCTTGAGTAGCAGT
124 AACTATGTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGAGTAGCAGT
104890 TTAAAAAATT
Statistics
Matches: 380, Mismatches: 42, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
252 4 0.01
253 25 0.07
254 6 0.02
255 62 0.16
256 180 0.47
257 4 0.01
258 1 0.00
259 2 0.01
260 94 0.25
261 2 0.01
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (253 bp):
AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCGGTAAAAAACTTCAAAAGCAAAGGAG
AGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTATG
TTCAATTTGAATAAACAACTAATTAAAGAAATCTTGAGTAGCAGTCGAAAAAAAAAAATCAAAAG
CAAAATGCAATAAATCATATCGACTAAGTATTACACTGTTATCTGATGAACTAAGGTC
Found at i:104781 original size:139 final size:137
Alignment explanation
Indices: 104663--104930 Score: 376
Period size: 139 Copynumber: 1.9 Consensus size: 137
104653 AAATGCGATA
* * **
104663 AATCATATCGACTAAGTATTACACTGTTATCTGATGACCTAAGTTCAACTGGAATAAACAACTAA
1 AATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAACTCAAATAAACAACTAA
* * *
104728 TCAAATAAATCTTGGATTAGCAGTGAAAAACAATAAAAAGCAAATTAGAAAAAAAAAACAGTAAA
66 TCAAACAAATCTT-GAGTAGCAGTGAAAAA-AATAAAAAGCAAATGAGAAAAAAAAAACAGTAAA
104793 ATGCAAAAC
129 ATGCAAAAC
* *
104802 AATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTCAAATAAACAATTAA
1 AATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAACTCAAATAAACAACTAA
* ** * * *
104867 TTAAACAAATCTTGAGTAGCAGTTTAAAAAATTAAAAGCAACTGAG-AAAACAAAACAGTAAAAT
66 TCAAACAAATCTTGAGTAGCAGTGAAAAAAATAAAAAGCAAATGAGAAAAAAAAAACAGTAAAAT
104931 ACAATAAAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
136 17 0.15
137 14 0.12
138 13 0.11
139 70 0.61
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.25
Consensus pattern (137 bp):
AATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAACTCAAATAAACAACTAA
TCAAACAAATCTTGAGTAGCAGTGAAAAAAATAAAAAGCAAATGAGAAAAAAAAAACAGTAAAAT
GCAAAAC
Found at i:110579 original size:58 final size:58
Alignment explanation
Indices: 110515--110687 Score: 204
Period size: 59 Copynumber: 2.9 Consensus size: 58
110505 TTAATATAAT
* * * * *
110515 ATTTGATATTTGAACTTCACATTTTTTCTTAATTTGATACCTCAACTTTTTTT-ATCAA
1 ATTTGATAATTAAACTTGACATTTTTTCTTAATTTGATACCT-AAATTTTTTTAACCAA
* * *
110573 ATTTGATAACTCAACTTGACACTTTTTTCTTAATTTGATACCTAAATTTTTTTAAACCCA
1 ATTTGATAATTAAACTTGACA-TTTTTTCTTAATTTGATACCTAAATTTTTTT-AACCAA
* * *
110633 ATTTAATACTTAAACTTGACATTTTTTCCTAATTTGATACCTAAATATTTTTTAA
1 ATTTGATAATTAAACTTGACATTTTTTCTTAATTTGATACCTAAAT-TTTTTTAA
110688 GATTAAATTT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
58 26 0.26
59 47 0.47
60 26 0.26
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.49
Consensus pattern (58 bp):
ATTTGATAATTAAACTTGACATTTTTTCTTAATTTGATACCTAAATTTTTTTAACCAA
Found at i:110608 original size:32 final size:30
Alignment explanation
Indices: 110527--110612 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 30
110517 TTGATATTTG
*
110527 AACTTCACATTTTTTCTTAATTTGATACCTC
1 AACTT-ACATTTTTTCTTAATTTGATAACTC
*
110558 AACTT---TTTTTATC-AAATTTGATAACTC
1 AACTTACATTTTT-TCTTAATTTGATAACTC
110585 AACTTGACACTTTTTTCTTAATTTGATA
1 AACTT-ACA-TTTTTTCTTAATTTGATA
110613 CCTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
27 22 0.49
28 2 0.04
31 7 0.16
32 14 0.31
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (30 bp):
AACTTACATTTTTTCTTAATTTGATAACTC
Found at i:110800 original size:15 final size:16
Alignment explanation
Indices: 110768--110808 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
110758 TTTATTATGC
*
110768 TAAAAAAA-TCAGTTT
1 TAAAAAAATTCAGTGT
110783 TAAAAAAATTCA-TGT
1 TAAAAAAATTCAGTGT
110798 TAAAAATAATT
1 TAAAAA-AATT
110809 ATTGATCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (16 bp):
TAAAAAAATTCAGTGT
Found at i:123550 original size:13 final size:12
Alignment explanation
Indices: 123529--123587 Score: 50
Period size: 14 Copynumber: 4.7 Consensus size: 12
123519 TAAAAGAAAT
123529 GAAAAAAAGGAG
1 GAAAAAAAGGAG
*
123541 GAAAACAAAGGAA
1 GAAAA-AAAGGAG
123554 GAAGTAAAAAGGAATG
1 GAA--AAAAAGG-A-G
123570 GAAAAAAA--AG
1 GAAAAAAAGGAG
123580 GAAAAAAA
1 GAAAAAAA
123588 TTAAATTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.22
11 1 0.03
12 5 0.12
13 9 0.22
14 10 0.25
15 3 0.08
16 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (12 bp):
GAAAAAAAGGAG
Found at i:128931 original size:67 final size:66
Alignment explanation
Indices: 128829--128962 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 66
128819 CGGAAAATAT
* * *
128829 TTTAATAATTTCTTAAAGAAAAGGATGAAATAAACGACGCATAATTTTACTAATTAGATTCAAAG
1 TTTAATAAATTCTTAAAGAAAAGAAAGAAATAAACGACGCATAATTTTACTAATTAGATTCAAAG
128894 G
66 G
* * * * *
128895 TTTAATAAATTCTTAAAAGAAAATAAAGTAATAAACGAGGTATAATTTTACTGATTAGATTCAAA
1 TTTAATAAATTCTT-AAAGAAAAGAAAGAAATAAACGACGCATAATTTTACTAATTAGATTCAAA
128960 GG
65 GG
128962 T
1 T
128963 GATTCTTAAC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 13 0.22
67 46 0.78
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.33
Consensus pattern (66 bp):
TTTAATAAATTCTTAAAGAAAAGAAAGAAATAAACGACGCATAATTTTACTAATTAGATTCAAAG
G
Found at i:129858 original size:57 final size:58
Alignment explanation
Indices: 129653--129869 Score: 195
Period size: 60 Copynumber: 3.7 Consensus size: 58
129643 GTATATATTT
* * * * * * * *
129653 GGTACCTCAACTTGTCTTTATAGTTCAATTTGGTACCTACA-TTTTTTTTTTCCAAAATTA
1 GGTACCTAAACTTGGCCTTAAAGTTCAATTTAGTACCTA-AGCTGTTTTTGTCC--AATTA
* * * *
129713 GGTACCTAAACTTGGCCTTAATGTTCAATTTCGTGCCTAAGCCATTTTTTTGTCCAATTA
1 GGTACCTAAACTTGGCCTTAAAGTTCAATTTAGTACCTAAG-C-TGTTTTTGTCCAATTA
* * *
129773 GGTACCTAAACTTGGCCTCAAGGTTCAATTTAGTTCCTAAG-TGTTTTTGTCCAATTA
1 GGTACCTAAACTTGGCCTTAAAGTTCAATTTAGTACCTAAGCTGTTTTTGTCCAATTA
* * * * *
129830 GGTACCTAAATTTGACTTTAAAGCTCAATTTGGTACCTAA
1 GGTACCTAAACTTGGCCTTAAAGTTCAATTTAGTACCTAA
129870 AATTGGCTTC
Statistics
Matches: 132, Mismatches: 22, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
57 47 0.36
59 1 0.01
60 74 0.56
62 10 0.08
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (58 bp):
GGTACCTAAACTTGGCCTTAAAGTTCAATTTAGTACCTAAGCTGTTTTTGTCCAATTA
Found at i:131210 original size:16 final size:16
Alignment explanation
Indices: 131189--131219 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
131179 AACATGACCG
131189 TTCACATAGCAATCCA
1 TTCACATAGCAATCCA
131205 TTCACATAGCAATCC
1 TTCACATAGCAATCC
131220 TCAAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (16 bp):
TTCACATAGCAATCCA
Found at i:131480 original size:21 final size:23
Alignment explanation
Indices: 131429--131483 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
131419 GTAACTCTTT
*
131429 TTAAAAGATTAATAGTCAAAATAA
1 TTAAAA-AATAATAGTCAAAATAA
*
131453 TTAAAAAATAATAGTC-AAATTA
1 TTAAAAAATAATAGTCAAAATAA
131475 -TAAAAAATA
1 TTAAAAAATA
131484 TATATATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.31
22 5 0.17
23 9 0.31
24 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (23 bp):
TTAAAAAATAATAGTCAAAATAA
Found at i:131480 original size:22 final size:23
Alignment explanation
Indices: 131438--131481 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
131428 TTTAAAAGAT
*
131438 TAATAGTCAAAATAATTAAAAAA
1 TAATAGTCAAAATAATAAAAAAA
*
131461 TAATAGTC-AAATTATAAAAAA
1 TAATAGTCAAAATAATAAAAAA
131482 TATATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (23 bp):
TAATAGTCAAAATAATAAAAAAA
Found at i:133900 original size:21 final size:22
Alignment explanation
Indices: 133863--133903 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
133853 TATACAAAAT
133863 AAATGTTAAAACATTATAATAA
1 AAATGTTAAAACATTATAATAA
133885 AAAT-TTAAATAC-TTATAAT
1 AAATGTTAAA-ACATTATAAT
133904 TAGTAGTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATGTTAAAACATTATAATAA
Found at i:134565 original size:20 final size:21
Alignment explanation
Indices: 134540--134583 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
134530 ATCAGTTTAA
*
134540 TAAAATGTTTATA-TATTT-TT
1 TAAAAT-TTTAGATTATTTATT
134560 TAAAATTTTAGATTATTTATT
1 TAAAATTTTAGATTATTTATT
134581 TAA
1 TAA
134584 TTATTGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TAAAATTTTAGATTATTTATT
Found at i:145182 original size:23 final size:21
Alignment explanation
Indices: 145118--145183 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 21
145108 TTGTAATATT
145118 TTTTAAAATTTTAAATTTATTAA
1 TTTTAAAA--TTAAATTTATTAA
*
145141 TTTTACATAA-TAACTTTATTATA
1 TTTTA-A-AATTAAATTTATTA-A
145164 TTTTAAAATTAAATATTATT
1 TTTTAAAATTAAAT-TTATT
145184 TTAATCATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 2 0.06
22 15 0.42
23 16 0.44
24 1 0.03
25 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAAATTAAATTTATTAA
Found at i:146383 original size:2 final size:2
Alignment explanation
Indices: 146376--146402 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
146366 TATTAATGAA
146376 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
146403 AATTAAAGTC
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:149715 original size:30 final size:30
Alignment explanation
Indices: 149674--149761 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
149664 CTCGGGGGCC
*
149674 TATCAGTGCTTTTTCTTGGTTTCTCCCTGG
1 TATCGGTGCTTTTTCTTGGTTTCTCCCTGG
*
149704 TATCGGTGCTTTTCCTTGGTTTCTCCCTGG
1 TATCGGTGCTTTTTCTTGGTTTCTCCCTGG
* * * *
149734 TGTCGGTGCTTCTTCGTGGTTTGTCCCT
1 TATCGGTGCTTTTTCTTGGTTTCTCCCT
149762 TTGATCCATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.03, C:0.25, G:0.24, T:0.48
Consensus pattern (30 bp):
TATCGGTGCTTTTTCTTGGTTTCTCCCTGG
Found at i:150634 original size:83 final size:85
Alignment explanation
Indices: 150537--150783 Score: 408
Period size: 85 Copynumber: 2.9 Consensus size: 85
150527 CATATATGTG
* * *
150537 TGTATATATTCACATTTAAAATTGTTTTCCCAAGCTGAATTGCATGTACTTGTGCATTTAAAAGA
1 TGTATTTATTCACATTTAAAATTGTTTTCCCTAGCTGAATTACATGTACTTGTGCATTTAAAAGA
*
150602 ATACAGTGTCT-TTAA-ATA
66 ATACAGTGTCTATAAATATA
* *
150620 TGTATTTATTCACATTTAAATTTGTTTTCCCTAGCTGAATTACATGTACTTGTGCGTTTAAAAGA
1 TGTATTTATTCACATTTAAAATTGTTTTCCCTAGCTGAATTACATGTACTTGTGCATTTAAAAGA
150685 ATACAGTGTCTATAAATATA
66 ATACAGTGTCTATAAATATA
*
150705 TGTATTTATTCACATTTAAAATTGTTTTCCCTAGCTGAATTACATGTACTTTTGCATTTAAAAGA
1 TGTATTTATTCACATTTAAAATTGTTTTCCCTAGCTGAATTACATGTACTTGTGCATTTAAAAGA
*
150770 ATCCAGTGTCTATA
66 ATACAGTGTCTATA
150784 GCTGTAAAAG
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
83 71 0.47
84 3 0.02
85 78 0.51
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (85 bp):
TGTATTTATTCACATTTAAAATTGTTTTCCCTAGCTGAATTACATGTACTTGTGCATTTAAAAGA
ATACAGTGTCTATAAATATA
Found at i:161684 original size:60 final size:60
Alignment explanation
Indices: 161573--161691 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 60
161563 AATATTATTA
* *
161573 AGCATTTAAGTTAAATTTATGATAACTTCTTTAATCATTAAAAAATGTATAATAATTGAT
1 AGCATTTAAGTTAAATTTATGATAACTCCTTTAATCAATAAAAAATGTATAATAATTGAT
* *
161633 AGCATTTCAGTTTGAAA-TTATGATAACTCCTTTAATTAAT-AAAAATGTATAATAATTGA
1 AGCATTTAAG-TT-AAATTTATGATAACTCCTTTAATCAATAAAAAATGTATAATAATTGA
161692 AAACATAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
60 28 0.53
61 22 0.42
62 3 0.06
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (60 bp):
AGCATTTAAGTTAAATTTATGATAACTCCTTTAATCAATAAAAAATGTATAATAATTGAT
Done.