Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001997.1 Hibiscus syriacus cultivar Beakdansim tig00004088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 112143
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:9726 original size:28 final size:27
Alignment explanation
Indices: 9693--9787 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 27
9683 TTAAAAATAC
9693 TTTAAATATCTAAATAAAAATAATATAT
1 TTTAAATAT-TAAATAAAAATAATATAT
* * *** * *
9721 TTTAAATCTTAATTTTGATTAAAAATAT
1 TTTAAATATTAAATAAAAAT-AATATAT
*
9749 TTTAAATATTTAAATAAAATATAATGTAT
1 TTTAAATA-TTAAATAAAA-ATAATATAT
9778 TTTAAATATT
1 TTTAAATATT
9788 TTTTTAAAAT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
27 6 0.12
28 23 0.47
29 19 0.39
30 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTTAAATATTAAATAAAAATAATATAT
Found at i:12480 original size:70 final size:68
Alignment explanation
Indices: 12367--12500 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 68
12357 TTGATACCCA
12367 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAGAGATGCTTGGTC
1 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGA-A-ATGCTTGGTC
12432 TTTTT
64 TTTTT
12437 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAAATGCTTGGTCT
1 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAAATGCTTGGTCT
12501 GTTTATTGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 11 0.17
69 1 0.02
70 52 0.81
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (68 bp):
CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAAATGCTTGGTCTT
TTT
Found at i:22345 original size:45 final size:45
Alignment explanation
Indices: 22292--22379 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
22282 GGGACCACAC
* * *
22292 CGCTTGGAGCTATTCGAGATAATGCTCATGACCATGGGACCATGT
1 CGCTTGGAGCTATGCGAGATAATGCGCATGAACATGGGACCATGT
* * *
22337 CGCTTGGAGTTATGCGAGGTATTGCGCATGAACATGGGACCAT
1 CGCTTGGAGCTATGCGAGATAATGCGCATGAACATGGGACCAT
22380 TCACCATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (45 bp):
CGCTTGGAGCTATGCGAGATAATGCGCATGAACATGGGACCATGT
Found at i:25466 original size:21 final size:22
Alignment explanation
Indices: 25442--25482 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25432 ATAATCGTCG
*
25442 TAATTGTCAA-ATAAATAAACC
1 TAATTCTCAATATAAATAAACC
*
25463 TAATTCTCAATTTAAATAAA
1 TAATTCTCAATATAAATAAA
25483 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.34
Consensus pattern (22 bp):
TAATTCTCAATATAAATAAACC
Found at i:27492 original size:26 final size:27
Alignment explanation
Indices: 27463--27521 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
27453 ATAATTTTCC
* *
27463 TTAAAGGATTTGTGTT-ATCTTAATCG
1 TTAAAGGATTTGAGTTCATATTAATCG
27489 TTAACAAGGATTTGAGTTCATATTAATCG
1 TT-A-AAGGATTTGAGTTCATATTAATCG
27518 TTAA
1 TTAA
27522 TCTAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 2 0.07
28 13 0.46
29 11 0.39
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
TTAAAGGATTTGAGTTCATATTAATCG
Found at i:27501 original size:28 final size:29
Alignment explanation
Indices: 27466--27521 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
27456 ATTTTCCTTA
* *
27466 AAGGATTTGTGTT-ATCTTAATCGTTAAC
1 AAGGATTTGAGTTCATATTAATCGTTAAC
27494 AAGGATTTGAGTTCATATTAATCGTTAA
1 AAGGATTTGAGTTCATATTAATCGTTAA
27522 TCTAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (29 bp):
AAGGATTTGAGTTCATATTAATCGTTAAC
Found at i:27853 original size:29 final size:29
Alignment explanation
Indices: 27821--27885 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
27811 ATCCGTTTAT
27821 TTTTTTAAGC-CTAATAATATTTTCGGTCA
1 TTTTTT-AGCGCTAATAATATTTTCGGTCA
*
27850 TTTTTTAGCGTCTAATAATGTTTTCGGTCA
1 TTTTTTAGCG-CTAATAATATTTTCGGTCA
27880 TTTTTT
1 TTTTTT
27886 CGAAATTCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 3 0.09
29 6 0.18
30 24 0.73
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (29 bp):
TTTTTTAGCGCTAATAATATTTTCGGTCA
Found at i:35534 original size:111 final size:111
Alignment explanation
Indices: 35396--35728 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
35386 ATTACAAAAA
*
35396 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTATTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
35461 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
35507 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAGTTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
35572 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCTAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
35618 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
35683 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
35729 ACGATTTTCA
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:35822 original size:18 final size:17
Alignment explanation
Indices: 35792--35835 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
35782 ATTATATTAG
35792 TAAAATATTAAATAAAA
1 TAAAATATTAAATAAAA
*
35809 TAAAATACTTAAATAAAT
1 TAAAATA-TTAAATAAAA
35827 TAAATATAT
1 TAAA-ATAT
35836 AATAGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 14 0.58
19 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATTAAATAAAA
Found at i:39076 original size:15 final size:15
Alignment explanation
Indices: 39056--39089 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
39046 CAAAATGCTC
*
39056 GGTGGAGATTAAGGT
1 GGTGGAGATTAAAGT
39071 GGTGGAGATTAAAGT
1 GGTGGAGATTAAAGT
39086 GGTG
1 GGTG
39090 TTTGCTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.26
Consensus pattern (15 bp):
GGTGGAGATTAAAGT
Found at i:39347 original size:15 final size:15
Alignment explanation
Indices: 39327--39487 Score: 225
Period size: 15 Copynumber: 10.5 Consensus size: 15
39317 TAATAAGGTT
39327 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
39342 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
39357 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
39372 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
39387 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
39402 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
39417 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
39432 AATTATTATAAAATGGA
1 ATTTATTTTAAAAT--A
39449 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
39467 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
39481 ATTTATT
1 ATTTATT
39488 AGTATGGATT
Statistics
Matches: 133, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
14 12 0.09
15 107 0.80
17 1 0.01
18 1 0.01
20 12 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:39505 original size:32 final size:32
Alignment explanation
Indices: 39467--40054 Score: 274
Period size: 32 Copynumber: 19.4 Consensus size: 32
39457 TTTTAAAATA
39467 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
39499 ATTTA-TTT---TAA---A--A-TATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
39521 ATTTATTATAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
39553 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
39575 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
39607 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
39629 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
39661 ATTGA-TTT--AT--TTTA-AAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
39687 ATTTA--TT--AT--TGTAGTT-TTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTG
* *
39713 ATTTATTTTAAATAATTTATTTGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
39745 ATTTATTTTAAA-ATATAAATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * * *
39774 ATTGTAGTTGTATGGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* * *
39807 ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-TA-AATAATTTA--TT--AGTATGGATTG
*
39847 ATTTATTCTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
39879 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * * *
39911 ATTTATTTTAAAATGGATTGATTTATTATTGTAGTTG
1 ATTTATTTT-AAAT-AATTTA-TTAGTA-TGGA-TTG
** * ** * * *
39948 TATGGA-TTGATTTATTTTA-AAATATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTG
39979 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
40011 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
40043 ATTTATTTTAAA
1 ATTTATTTTAAA
40055 ATATGGATTG
Statistics
Matches: 428, Mismatches: 62, Indels: 132
0.69 0.10 0.21
Matches are distributed among these distances:
22 41 0.10
23 7 0.02
24 3 0.01
25 13 0.03
26 34 0.08
27 4 0.01
28 9 0.02
29 10 0.02
30 15 0.04
31 30 0.07
32 196 0.46
33 12 0.03
34 14 0.03
35 7 0.02
36 12 0.03
37 7 0.02
38 4 0.01
39 1 0.00
40 9 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:39515 original size:22 final size:22
Alignment explanation
Indices: 39490--39532 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39480 AATTTATTAG
* *
39490 TATGGATTGATTTATTTTAAAA
1 TATGGATTAATTTATTATAAAA
39512 TATGGATTAATTTATTATAAA
1 TATGGATTAATTTATTATAAA
39533 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGGATTAATTTATTATAAAA
Found at i:39533 original size:54 final size:54
Alignment explanation
Indices: 39467--40237 Score: 665
Period size: 54 Copynumber: 14.1 Consensus size: 54
39457 TTTTAAAATA
*
39467 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
39521 ATTTATTATAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
39575 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
39629 ATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGATTG
* * *
39687 ATTTA--TT--AT--TGTAGTT-TTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * ** ***
39731 ATTTGTATGAATTGATTTATTTTAAAATATAAATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
39793 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
39847 ATTTATTCTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * ** ***
39897 ATTTGTATGGATTGATTTATTTTAAAATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
** ** * ** * * *
39957 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
*
40011 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
40065 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
40123 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
40177 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
40231 ATTTATT
1 ATTTATT
40238 ATTGTAGTTG
Statistics
Matches: 584, Mismatches: 77, Indels: 112
0.76 0.10 0.14
Matches are distributed among these distances:
44 7 0.01
46 1 0.00
47 5 0.01
48 33 0.06
49 5 0.01
50 20 0.03
51 3 0.01
52 27 0.05
53 8 0.01
54 307 0.53
55 20 0.03
56 12 0.02
57 11 0.02
58 61 0.10
59 2 0.00
60 20 0.03
62 19 0.03
63 5 0.01
64 18 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:39560 original size:22 final size:22
Alignment explanation
Indices: 39544--39586 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
39534 AATTTATTAG
39544 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39566 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
39587 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:39649 original size:36 final size:36
Alignment explanation
Indices: 39607--39832 Score: 96
Period size: 36 Copynumber: 5.7 Consensus size: 36
39597 GTATGGATTG
39607 ATTTATTT-TA-AAATATAGATTGATTTATTTTAAATA
1 ATTTATTTGTATAAAT-T-GATTGATTTATTTTAAATA
**
39643 ATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGA
1 ATTTATTTGTATAAATTGATTGATTTATTTT--AA-AT--A
** *
39684 TTGATTTATTATTGTAGTTTTATGGATTGATTTATTTTAAATA
1 ---ATTTA-T-TTGTA--TAAATTGATTGATTTATTTTAAATA
* * * * *
39727 ATTTATTTGTATGAATTGATTTATTTTAAAATATAAATTG
1 ATTTATTTGTATAAATTGATTGA-TTT--ATTTTAAA-TA
** *
39767 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
1 ATTTA-T-TTGTA--TAAATTGATTGATTTATTTTAAATA
* * *
39807 ATTTATTAGTATAGATTGATTTATTT
1 ATTTATTTGTATAAATTGATTGATTT
39833 TAAAATATGG
Statistics
Matches: 145, Mismatches: 23, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
36 41 0.28
37 6 0.04
38 13 0.09
39 10 0.07
40 17 0.12
41 8 0.06
42 5 0.03
43 4 0.03
44 14 0.10
45 3 0.02
46 7 0.05
48 17 0.12
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (36 bp):
ATTTATTTGTATAAATTGATTGATTTATTTTAAATA
Found at i:39753 original size:80 final size:80
Alignment explanation
Indices: 39467--39968 Score: 517
Period size: 80 Copynumber: 6.2 Consensus size: 80
39457 TTTTAAAATA
* * *
39467 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTATAA
1 ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTA-T-T--
*
39532 ATAATTTA-TTAGTATGGATTG
62 AT--TGTAGTT-GTATGGATTG
* * * * * * *
39553 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T
1 ATTTATTTT-AAATA---ATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
*** *
39613 -TT-TA-AAATATAGATTG
62 ATTGTAGTTGTATGGATTG
39629 ATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTTGTAT-GA---ATTGATTTATTTTAAAATATGGATTGATTTATT
*
39694 ATTGTAGTTTTATGGATTG
62 ATTGTAGTTGTATGGATTG
**
39713 ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATAAATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
39778 TAGTTGTATGGATTG
66 TAGTTGTATGGATTG
*
39793 ATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAAATATGGATTGATTTATTCTA
1 ATTTATTTTAAATAATTTATTTGTATGA-ATTGATTTATTTTAAAATATGGATTGATTTA-T-T-
*
39857 AATAATTTA-TTAGTATGGATTG
62 -AT--TGTAGTT-GTATGGATTG
*
39879 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AAA-ATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
39942 TAGTTGTATGGATTG
66 TAGTTGTATGGATTG
39957 ATTTATTTTAAA
1 ATTTATTTTAAA
39969 ATATGGATTG
Statistics
Matches: 355, Mismatches: 35, Indels: 60
0.79 0.08 0.13
Matches are distributed among these distances:
72 9 0.03
73 1 0.00
75 5 0.01
76 24 0.07
77 2 0.01
78 28 0.08
79 3 0.01
80 121 0.34
81 2 0.01
82 4 0.01
83 6 0.02
84 49 0.14
85 5 0.01
86 74 0.21
87 5 0.01
88 2 0.01
90 15 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTG
Found at i:39815 original size:218 final size:213
Alignment explanation
Indices: 39566--40300 Score: 694
Period size: 218 Copynumber: 3.5 Consensus size: 213
39556 TATTTTAAAA
*
39566 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * **
39631 TTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAA-ATATGGA-TTG-ATTTAT
66 TTATTCTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAATA-ATGGATTTGTATGGAT
* *
39693 T-ATTGTAGTTTT-ATGGATTGATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAA
126 TGATT-TA-TTTTAATGGATTGATTTA--TT--AT--TGTAGTTGTATGAATTGATTTATTTTAA
39756 AATATAAATTGATTTA-TT-AT-TGTAGTT-G
183 AATATAAATTGATTTATTTAATATGTA-TTAG
*
39784 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
**
39849 TTATTCTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
66 TTATTCTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATGGATTTGTATGGATTGATT
* **
39914 TATTTTAAAATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTG
131 TATTTT--AATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAAATATAAATTG
*
39979 ATTTATTTTAAATAATTTATTAG
194 ATTTA-TTT-AAT-ATGTATTAG
*
40002 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* ** *
40067 TTA-T-T--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
66 TTATTCTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATGGATTTGTATGGATTGAT
* **
40125 TTATTTTAA---A-TAATTTATTA--GTA--TG---G-ATTGATTTATTTTAAAATATGGATTGA
130 TTATTTTAATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAAATATAAATTGA
*
40178 TTTATTTTAAATAATTTATTAG
195 TTTA-TTT-AAT-ATGTATTAG
* * * * * *** **
40200 TATGAATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATAAATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
* *
40258 TTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAA
65 TTTATTCTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
40301 ATATAGATTG
Statistics
Matches: 463, Mismatches: 31, Indels: 66
0.83 0.06 0.12
Matches are distributed among these distances:
191 7 0.02
192 20 0.04
193 2 0.00
194 3 0.01
196 4 0.01
197 4 0.01
198 90 0.19
199 1 0.00
202 2 0.00
204 3 0.01
206 9 0.02
207 1 0.00
210 2 0.00
212 92 0.20
213 2 0.00
214 26 0.06
215 8 0.02
216 12 0.03
217 7 0.02
218 168 0.36
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (213 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTCTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATGGATTTGTATGGATTGATT
TATTTTAATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAAATATAAATTGAT
TTATTTAATATGTATTAG
Found at i:39973 original size:22 final size:22
Alignment explanation
Indices: 39902--39990 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
39892 AATTTATTTG
39902 TATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAAA
***
39923 -ATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
39948 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39970 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
39991 TAATTTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
20 13 0.23
21 1 0.02
22 23 0.41
23 3 0.05
24 2 0.04
25 1 0.02
26 13 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:40122 original size:32 final size:32
Alignment explanation
Indices: 40081--40220 Score: 201
Period size: 32 Copynumber: 4.7 Consensus size: 32
40071 TATTGTAGTT
40081 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
40113 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
40145 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
40168 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
40199 GTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
40221 ATATGGATTG
Statistics
Matches: 97, Mismatches: 1, Indels: 20
0.82 0.01 0.17
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.04
32 67 0.69
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:40128 original size:18 final size:18
Alignment explanation
Indices: 40105--40161 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
40095 ATTTTAAATA
40105 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* * *
40123 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGGATTG
40137 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
40155 ATTTATT
1 ATTTATT
40162 TTAAAATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:40171 original size:22 final size:22
Alignment explanation
Indices: 40146--40188 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
40136 AATTTATTAG
40146 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
40168 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
40189 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:40305 original size:22 final size:22
Alignment explanation
Indices: 40280--40322 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
40270 AATTTATTAG
40280 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
40302 TATAGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
40323 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:40318 original size:54 final size:54
Alignment explanation
Indices: 39947--40332 Score: 208
Period size: 54 Copynumber: 7.0 Consensus size: 54
39937 TATTGTAGTT
*
39947 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTA
* * * ** * *
40001 GTATGGATTGATTTATTTT--AA-ATA-ATTTATTTGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTA--TT--A
* *** *
40055 ATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTA-T-TT-TA-AAATATAGATTGATTTATTTTAAATAATTTATTA
* * *
40113 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTA
* * * * * *
40167 ATATGGATTGATTTATTTT--AA-ATA-ATTTA-TTAGTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAAATATAGATTGATTTA-TTTTAAATAATTTA--TT--A
* *** *
40221 ATATGGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTA-T-TT-TA-AAATATAGATTGATTTATTTTAAATAATTTATTA
*
40279 GTATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTA
40333 TTGTAGTTGT
Statistics
Matches: 246, Mismatches: 48, Indels: 76
0.66 0.13 0.21
Matches are distributed among these distances:
43 2 0.01
44 3 0.01
45 1 0.00
46 2 0.01
47 2 0.01
49 4 0.02
50 18 0.07
51 2 0.01
52 4 0.02
54 99 0.40
55 9 0.04
56 9 0.04
57 6 0.02
58 31 0.13
59 5 0.02
60 11 0.04
61 5 0.02
62 30 0.12
63 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
GTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTA
Found at i:40382 original size:30 final size:30
Alignment explanation
Indices: 40346--40402 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
40336 TAGTTGTATG
* *
40346 AATTATTTAAATTTCAGTATTGTAAAATAA
1 AATTATTTAAATCTCAGTATTGCAAAATAA
40376 AATTATTTAAATCTCAGTATTGCAAAA
1 AATTATTTAAATCTCAGTATTGCAAAA
40403 CTCTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (30 bp):
AATTATTTAAATCTCAGTATTGCAAAATAA
Found at i:42059 original size:7 final size:7
Alignment explanation
Indices: 42033--42075 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
42023 AATTTTCAAA
42033 CCTAAAC
1 CCTAAAC
*
42040 CCTTAAAT
1 CC-TAAAC
*
42048 ACTAAAC
1 CCTAAAC
42055 CCTAAAC
1 CCTAAAC
42062 CCTAAAC
1 CCTAAAC
42069 CCTAAAC
1 CCTAAAC
42076 TAAAAACCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:42082 original size:21 final size:21
Alignment explanation
Indices: 42058--42097 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42048 ACTAAACCCT
*
42058 AAACCCTAAACCCTAAACTAA
1 AAACCATAAACCCTAAACTAA
* *
42079 AAACCATAATCTCTAAACT
1 AAACCATAAACCCTAAACT
42098 TTATACCCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCATAAACCCTAAACTAA
Found at i:46609 original size:16 final size:16
Alignment explanation
Indices: 46588--46619 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46578 ATCATTTTAT
46588 TTTATTAAAATTAACA
1 TTTATTAAAATTAACA
*
46604 TTTATTCAAATTAACA
1 TTTATTAAAATTAACA
46620 GTAAAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTATTAAAATTAACA
Found at i:46641 original size:3 final size:3
Alignment explanation
Indices: 46633--46665 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46623 AAAGAATGCA
46633 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46666 GTTTCCGTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47902 original size:4 final size:4
Alignment explanation
Indices: 47893--47920 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47883 CAATGCATGT
47893 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
47921 TTGAACAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:53040 original size:26 final size:25
Alignment explanation
Indices: 53011--53065 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
53001 GATTTTTGGT
*
53011 TTTTGTTATTTTTTTACTTTCTTTT-C
1 TTTTGTTATTTTATT--TTTCTTTTCC
53037 TTTTGTTATTTTATTTTTCTTTTCC
1 TTTTGTTATTTTATTTTTCTTTTCC
53062 TTTT
1 TTTT
53066 CTTTGTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 5 0.19
26 14 0.52
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (25 bp):
TTTTGTTATTTTATTTTTCTTTTCC
Found at i:53153 original size:18 final size:19
Alignment explanation
Indices: 53127--53162 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
53117 TTTCTACACA
53127 ATAAAATAA-AAATTAAAT
1 ATAAAATAATAAATTAAAT
*
53145 ATAATATAATAAATTAAA
1 ATAAAATAATAAATTAAA
53163 GTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAATAATAAATTAAAT
Found at i:53671 original size:22 final size:22
Alignment explanation
Indices: 53671--54277 Score: 698
Period size: 22 Copynumber: 27.6 Consensus size: 22
53661 ATATAAAAAA
*
53671 AATT-ATTTTAAAATATGAATT
1 AATTTATTTTAAAATATGGATT
* **
53692 GATTTATTTTAAAATATGGAAA
1 AATTTATTTTAAAATATGGATT
* *
53714 AATTTGTTTTAAAATATCGATT
1 AATTTATTTTAAAATATGGATT
* ** **
53736 GATTTATTTTAAAATATAAAAA
1 AATTTATTTTAAAATATGGATT
*
53758 AATTTATTTTAAAATATGAATT
1 AATTTATTTTAAAATATGGATT
* *
53780 GATTTATTTTAAAATATGGA-A
1 AATTTATTTTAAAATATGGATT
*
53801 AATTTTATTTTAAAATATGAATT
1 AA-TTTATTTTAAAATATGGATT
* **
53824 GATTTATTTTAAAATATGGAAA
1 AATTTATTTTAAAATATGGATT
53846 AATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
*
53868 GATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
* *
53890 GATTTATTTTAAAATATGAATT
1 AATTTATTTTAAAATATGGATT
* *
53912 TATTTATTTTAAAATATGAATT
1 AATTTATTTTAAAATATGGATT
* **
53934 TATTTATTTTAAAATATGGAAA
1 AATTTATTTTAAAATATGGATT
53956 AATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
* *
53978 GATTTATTTTAAAATATTGATT
1 AATTTATTTTAAAATATGGATT
* * * **
54000 GATTTATTTTAAAAAATGAAAA
1 AATTTATTTTAAAATATGGATT
* *
54022 AAATTATTTTAAAATATAGATT
1 AATTTATTTTAAAATATGGATT
* *
54044 GATTTATTTTAAAATATGGA-A
1 AATTTATTTTAAAATATGGATT
54065 AATTTTATTTTAAAATATGGATT
1 AA-TTTATTTTAAAATATGGATT
* * *
54088 GATTTGTTTTAAAATATGAATT
1 AATTTATTTTAAAATATGGATT
*
54110 GATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
* * *
54132 GAGTTATTTTAAAATATAGATT
1 AATTTATTTTAAAATATGGATT
* **
54154 GATTTATTTTAAAATATGGAAA
1 AATTTATTTTAAAATATGGATT
*
54176 AAGTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
*
54198 GATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
*
54220 GATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATATGGATT
* *
54242 GATTTATTTTAAAATATGAATT
1 AATTTATTTTAAAATATGGATT
*
54264 GATTTATTTTAAAA
1 AATTTATTTTAAAA
54278 ATTTTATTAT
Statistics
Matches: 502, Mismatches: 79, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
21 5 0.01
22 495 0.99
23 2 0.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (22 bp):
AATTTATTTTAAAATATGGATT
Found at i:54846 original size:24 final size:24
Alignment explanation
Indices: 54819--54873 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
54809 TTAAAATAAT
54819 AAACGAACGAACGTAAACAAACAG
1 AAACGAACGAACGTAAACAAACAG
* **
54843 AAACGAACGAATGTAAACAAACCT
1 AAACGAACGAACGTAAACAAACAG
54867 AAACGAA
1 AAACGAA
54874 AGTTTACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.58, C:0.20, G:0.15, T:0.07
Consensus pattern (24 bp):
AAACGAACGAACGTAAACAAACAG
Found at i:55564 original size:13 final size:13
Alignment explanation
Indices: 55520--55566 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
55510 CTGTTCTTTG
*
55520 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
55534 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
55546 TTTATTTAAAATAA
1 -ATATTTAAAATAA
55560 ATATTTA
1 ATATTTA
55567 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:56441 original size:15 final size:14
Alignment explanation
Indices: 56417--56458 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
56407 TGACAGTAAG
*
56417 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
56432 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
56446 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
56459 GCTGAATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:56449 original size:20 final size:20
Alignment explanation
Indices: 56417--56458 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
56407 TGACAGTAAG
*
56417 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
56437 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
56457 TT
1 TT
56459 GCTGAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:57031 original size:3 final size:3
Alignment explanation
Indices: 57023--57090 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
57013 AATATATATT
*
57023 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57071 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
57091 TGGGTAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:57481 original size:114 final size:113
Alignment explanation
Indices: 57342--57607 Score: 412
Period size: 114 Copynumber: 2.3 Consensus size: 113
57332 TTTTGATGAG
*
57342 TTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
*
57406 GAAAAAAATAACCCATCAAGTAAT-AGATT-TGATCAAAAAGGTTGAACAAA
65 GAAAAAAATAACCCATCAAGTAATGA-ATTCAGA-C-AAAAGGTTGAACAAA
*
57456 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
** * *
57521 GCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
66 AAAAAAATAACCCATCAAGTAATGAATTCAGACAAAAGGTTGAACAAA
57569 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
1 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
57608 TGAATTCAAA
Statistics
Matches: 142, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
113 53 0.37
114 85 0.60
115 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
AAAAAAATAACCCATCAAGTAATGAATTCAGACAAAAGGTTGAACAAA
Found at i:57644 original size:65 final size:65
Alignment explanation
Indices: 57540--57672 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
57530 ATCCATCAAG
*
57540 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
* *
57605 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
57670 TGA
1 TGA
57673 GTTCTTCTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (65 bp):
TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
Found at i:57671 original size:24 final size:23
Alignment explanation
Indices: 57636--57680 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
57626 TGAACAAATT
57636 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
57660 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
57681 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:57690 original size:178 final size:178
Alignment explanation
Indices: 57441--58141 Score: 1321
Period size: 178 Copynumber: 3.9 Consensus size: 178
57431 GATTTGATCA
*
57441 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
* * *
57506 TATGAACTTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATT
66 TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCAGACAAAAGGTTGAACAAATT
57571 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
131 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
57619 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
*
57684 TATGAACCTTCTCTGGCAAAAATAATCCATCATGTGATGAATTCAGACAAAAGGTTGAACAAATT
66 TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCAGACAAAAGGTTGAACAAATT
57749 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
131 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
57797 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
*
57862 TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCGGACAAAAGGTTGAACAAATT
66 TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCAGACAAAAGGTTGAACAAATT
*
57927 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAATTCAAAC
131 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
57975 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
*
58040 TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCGGACAAAAGGTTGAACAAATT
66 TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCAGACAAAAGGTTGAACAAATT
*
58105 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA
131 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
58142 GTTCTTCTCA
Statistics
Matches: 517, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 517 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (178 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
TATGAACCTTCTCGGGCAAAAATAATCCATCATGTGATGAATTCAGACAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
Found at i:57822 original size:65 final size:65
Alignment explanation
Indices: 57718--57850 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
57708 ATCCATCATG
*
57718 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
* *
57783 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
57848 TGA
1 TGA
57851 GTTCTTCTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (65 bp):
TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
Found at i:57849 original size:24 final size:23
Alignment explanation
Indices: 57814--57858 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
57804 TGAACAAATT
57814 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
57838 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
57859 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:57905 original size:291 final size:288
Alignment explanation
Indices: 57604--58366 Score: 855
Period size: 291 Copynumber: 2.6 Consensus size: 288
57594 CATTCTTCAG
* *
57604 ATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAT
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
57669 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCATGTGATGAATTCAGACAA
66 ATGAGTTCTTCTCATTATGAA-CTTCTCTGG-AAAAATACTCCATCATGTGATGAATTCAG-CAA
57734 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAACAA
128 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAACAA
*
57799 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTA
193 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
57864 TGAACCTTCTCGGGCAAAAATAATCCATCAT
258 TGAACCTTCTCGGGCAAAAATAATCCATCAA
* *
57895 GTGATGAATTCGGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*** ** **** * * ** **
57960 ATGA-TGAAT-TCA--AACAAAAGGT-T-GAACAAATTCTTC-TCAT-T-ATGAACTTCTTCTTC
66 ATGAGTTCTTCTCATTATGAACTTCTCTGGAA-AAATACTCCATCATGTGATGAA-TTCAGC-AA
**** * ** * ** *
58016 CTTCTTCATATGAGTTCTTCTCATTATGAACCTTC-TCGGGCAAAAATAATCCATCATG-TGATG
128 AAGGTTGA-ACAAATTCTTCTCATTATGAA-CTTCTTC-TTC----AT--T-CTTCA-GATGATG
**
58079 AATTCGGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
182 AATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
* * * *
58144 TCTTCTCATTATGAACCTTCTCTGGCAATATTGATCCATCAA
247 TCTTCTCATTATGAACCTTCTCGGGCAAAAATAATCCATCAA
*
58186 ATGATGAATTCAGACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * * *
58251 ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAGCAAA
66 ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA-ATACTCCATCATGTGAT-GAATTCAGCAAA
* *
58316 AGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
129 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
58367 CAAGTTCTTC
Statistics
Matches: 371, Mismatches: 74, Indels: 55
0.74 0.15 0.11
Matches are distributed among these distances:
281 6 0.02
282 7 0.02
283 26 0.07
284 12 0.03
285 1 0.00
286 1 0.00
287 3 0.01
288 2 0.01
289 4 0.01
290 10 0.03
291 240 0.65
292 3 0.01
293 4 0.01
295 4 0.01
296 3 0.01
297 11 0.03
298 23 0.06
299 4 0.01
300 5 0.01
301 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (288 bp):
ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAATACTCCATCATGTGATGAATTCAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAACAAAAG
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACCTTCTCGGGCAAAAATAATCCATCAA
Found at i:58000 original size:65 final size:65
Alignment explanation
Indices: 57896--58028 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
57886 ATCCATCATG
**
57896 TGATGAATTCGGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
57961 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
58026 TGA
1 TGA
58029 GTTCTTCTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (65 bp):
TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
Found at i:58027 original size:24 final size:23
Alignment explanation
Indices: 57992--58036 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
57982 TGAACAAATT
57992 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
58016 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
58037 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:58159 original size:113 final size:113
Alignment explanation
Indices: 57960--58531 Score: 812
Period size: 113 Copynumber: 5.1 Consensus size: 113
57950 CCTTCTTCAG
* *
57960 ATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAT
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
58025 ATGAGTTCTTCTCATTATGAACCTTCTCGGGCAAAAATAATCCATCAT
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAATTGATCCATCAA
* *
58073 GTGATGAATTCGGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
58138 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATATTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAATTGATCCATCAA
*
58186 ATGATGAATTCAGACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
58251 ATGAGTTCTTCTCATTATGAA-CTTCTCTGG-AAAAGCTGCTCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAA-TTGATCCATCAA
* * * *
58298 GTGATAGATTTGAG-CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 ATGAT-GAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* **
58362 GATGACAAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAA
65 GATG---AGTTCTTCTCATTATGAAC-CTTCTCTGGCAAAATTGATCCATCAA
* * * * *
58414 ATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTTTTATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
**
58479 ATGAGTTCTTCTCATTATGAA-CTTCTCTGGCAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAATTGATCCATCAA
*
58526 GTGATG
1 ATGATG
58532 GATTTGAATC
Statistics
Matches: 413, Mismatches: 36, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
111 6 0.01
112 101 0.24
113 211 0.51
115 23 0.06
116 67 0.16
117 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAATTGATCCATCAA
Found at i:58440 original size:228 final size:225
Alignment explanation
Indices: 57960--58538 Score: 887
Period size: 228 Copynumber: 2.6 Consensus size: 225
57950 CCTTCTTCAG
* *
57960 ATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAT
1 ATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
58025 ATGAGTTCTTCTCATTATGAACCTTCTCGGGCAAAA-ATAATCCATCATGTGATGAATTCG-GAC
66 ATGAGTTCTTCTCATTATGAA-CTTCTCTGG-AAAAGATGATCCATCAAGTGATG-ATTTGAGAC
58088 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
128 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
58153 TATGAACCTTCTCTGGCAATATTGATCCATCAA
193 TATGAACCTACTCTGGCAATATTGATCCATCAA
*
58186 ATGATGAATTCAGACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
58251 ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAG-CAA
66 ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAAGTGAT-GATTTGAGACAA
*
58315 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACAAGTTCTTCTCA
130 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG---AGTTCTTCTCA
*
58380 TTATGAACTCTAC-CTGGCAATGTTGATCCATCAA
192 TTATGAAC-CTACTCTGGCAATATTGATCCATCAA
* * *
58414 ATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTTTTATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
58479 ATGAGTTCTTCTCATTATGAACTTCTCTGGCAATGTTGATCCATCAAGTGATGGATTTGA
66 ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAAGTGAT-GATTTGA
58539 ATCTTTGCTA
Statistics
Matches: 325, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
224 4 0.01
225 78 0.24
226 85 0.26
228 155 0.48
229 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (225 bp):
ATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAAGTGATGATTTGAGACAAA
AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACCTACTCTGGCAATATTGATCCATCAA
Found at i:59482 original size:83 final size:83
Alignment explanation
Indices: 59331--59744 Score: 758
Period size: 83 Copynumber: 5.0 Consensus size: 83
59321 TTTACTATGA
* * * * *
59331 GCAAATTCATCTTCCAAATTCAATGATTGG-TCTGCCCAACCAGATTAGCTAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
59395 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
59413 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
59478 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
59496 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
59561 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
59579 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTTAAAGAACAC
1 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
59644 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
59662 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
59727 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
59745 AGTCTCTTTC
Statistics
Matches: 324, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
82 29 0.09
83 295 0.91
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (83 bp):
GCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:60899 original size:10 final size:10
Alignment explanation
Indices: 60886--60927 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
60876 TTGACCTTCC
60886 TTTTTCTTTT
1 TTTTTCTTTT
*
60896 TTTTT-TCTT
1 TTTTTCTTTT
60905 TTTTTCTTTT
1 TTTTTCTTTT
60915 TTTTTCTTTT
1 TTTTTCTTTT
60925 TTT
1 TTT
60928 CTTTCTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:60906 original size:8 final size:8
Alignment explanation
Indices: 60885--60939 Score: 65
Period size: 8 Copynumber: 6.4 Consensus size: 8
60875 CTTGACCTTC
60885 CTTTTTCTT
1 CTTTTT-TT
*
60894 TTTTTTTT
1 CTTTTTTT
60902 CTTTTTTT
1 CTTTTTTT
60910 CTTTTTTTTT
1 C--TTTTTTT
60920 CTTTTTTT
1 CTTTTTTT
60928 CTTTCTTTT
1 CTTT-TTTT
60937 CTT
1 CTT
60940 CAAGCATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
8 21 0.51
9 12 0.29
10 8 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
CTTTTTTT
Found at i:60906 original size:9 final size:9
Alignment explanation
Indices: 60886--60939 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
60876 TTGACCTTCC
60886 TTTTTCTTT
1 TTTTTCTTT
*
60895 TTTTTTTCTT
1 TTTTTCT-TT
60905 TTTTTCTTT
1 TTTTTCTTT
60914 TTTTT-TCTT
1 TTTTTCT-TT
60923 TTTTTCTTT
1 TTTTTCTTT
*
60932 CTTTTCTT
1 TTTTTCTT
60940 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
8 1 0.03
9 29 0.74
10 9 0.23
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:60907 original size:17 final size:16
Alignment explanation
Indices: 60885--60939 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
60875 CTTGACCTTC
60885 CTTTTTCTTTTTTTTTT
1 CTTTTT-TTTTTTTTTT
60902 CTTTTTTTCTTTTTTTTT
1 C-TTTTTT-TTTTTTTTT
*
60920 CTTTTTTTCTTTCTTTT
1 CTTTTTTT-TTTTTTTT
60937 CTT
1 CTT
60940 CAAGCATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 1 0.03
17 18 0.53
18 15 0.44
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
CTTTTTTTTTTTTTTT
Found at i:60908 original size:19 final size:19
Alignment explanation
Indices: 60886--60936 Score: 86
Period size: 18 Copynumber: 2.7 Consensus size: 19
60876 TTGACCTTCC
60886 TTTTTCTTTTTTTTTTCTT
1 TTTTTCTTTTTTTTTTCTT
60905 TTTTTC-TTTTTTTTTCTT
1 TTTTTCTTTTTTTTTTCTT
60923 TTTTTCTTTCTTTT
1 TTTTTCTTT-TTTT
60937 CTTCAAGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.60
19 8 0.27
20 4 0.13
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTCTT
Found at i:72307 original size:13 final size:13
Alignment explanation
Indices: 72263--72309 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
72253 CTGTTCTTTG
*
72263 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
72277 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
72289 TTTATTTAAAATAA
1 -ATATTTAAAATAA
72303 ATATTTA
1 ATATTTA
72310 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:73188 original size:15 final size:15
Alignment explanation
Indices: 73164--73205 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
73154 TGACAGTAAG
*
73164 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTCTT
73179 TTTCTTTTCTTTCTT
1 TTTCTTTTCTTTCTT
73194 TTT-TGTTTCTTT
1 TTTCT-TTTCTTT
73206 GCTGAATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTCTTTTCTTTCTT
Found at i:73202 original size:20 final size:20
Alignment explanation
Indices: 73164--73205 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
73154 TGACAGTAAG
73164 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTTTTTCT
*
73184 TTTCT-TTCTTTTTTGTTTCT
1 TTTCTCTTCTTTCTT-TTTCT
73204 TT
1 TT
73206 GCTGAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTCTCTTCTTTCTTTTTCT
Found at i:73779 original size:3 final size:3
Alignment explanation
Indices: 73771--73826 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
73761 AATATATATT
*
73771 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73819 TAA TAA TA
1 TAA TAA TA
73827 TGGGTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79639 original size:29 final size:30
Alignment explanation
Indices: 79588--79648 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
79578 TGGTAATAAC
* *
79588 AAATTAAAGGGCTAAAACAGC-AAAATAGA
1 AAATTAAAAGACTAAAACAGCAAAAATAGA
**
79617 AAATTAAAAGACTAAAATGGCAAAAATAGA
1 AAATTAAAAGACTAAAACAGCAAAAATAGA
79647 AA
1 AA
79649 CATAGGGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (30 bp):
AAATTAAAAGACTAAAACAGCAAAAATAGA
Found at i:80874 original size:9 final size:8
Alignment explanation
Indices: 80849--80873 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
80839 CGTTTGACTC
80849 TCTTTTTT
1 TCTTTTTT
80857 TCTTTTTT
1 TCTTTTTT
80865 TCTTTTTT
1 TCTTTTTT
80873 T
1 T
80874 TTTATCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:81729 original size:40 final size:41
Alignment explanation
Indices: 81630--81869 Score: 177
Period size: 40 Copynumber: 5.6 Consensus size: 41
81620 AAAGGTGATA
* *
81630 ACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGG-TG
1 ACACGGTTCCTACGTGATGAGGA-GGCTGG--ATCTGAGGGATG
*
81673 ACACGGCTCCTACGTGATGAGGAGGTCTGG-TC-GAGGGATG
1 ACACGGTTCCTACGTGATGAGGAGG-CTGGATCTGAGGGATG
* * *
81713 GCACGGTTCCTACGTGATGAAGACGGCTGGCCATCTTTAGGAGTGGTGATA
1 ACACGGTTCCTACGTGATGAGGA-GGCTGG--ATC--T--GA--GG-GATG
* *
81764 ACTCGGTTCCTACGTGATGAGGACGGCTGGCTATCTAAGGG-TG
1 ACACGGTTCCTACGTGATGAGGA-GGCTGG--ATCTGAGGGATG
* * *
81807 ACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GAGGGATG
1 ACACGGTTCCTACGTGATGAGGAG-GCTGGATCTGAGGGATG
81847 ACACGGTTCCTACGTGATGAGGA
1 ACACGGTTCCTACGTGATGAGGA
81870 CGACTGGCCA
Statistics
Matches: 161, Mismatches: 20, Indels: 35
0.75 0.09 0.16
Matches are distributed among these distances:
39 8 0.05
40 53 0.33
41 2 0.01
42 2 0.01
43 53 0.33
44 1 0.01
45 2 0.01
47 1 0.01
48 2 0.01
49 1 0.01
50 2 0.01
51 34 0.21
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.23
Consensus pattern (41 bp):
ACACGGTTCCTACGTGATGAGGAGGCTGGATCTGAGGGATG
Found at i:81805 original size:134 final size:134
Alignment explanation
Indices: 81533--81887 Score: 463
Period size: 134 Copynumber: 2.7 Consensus size: 134
81523 GTTCGGGTCG
* * * * ** ** *
81533 TCTAAGGGTGACATGGTTCCTACGTGATGAGGAAATCTAATC-AGGGGATGACATTGCTCCTACG
1 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGA-GGGATGACACGGTTCCTACG
* *
81597 TGATGAAGA-GTTCTTGGCCATC--TA--A-AGGTGATAACACGGTTCCTACGTGATGAGGACGA
65 TGATGAAGACG-AC-TGGCCATCTTTAGGAGTGGTGATAACACGGTTCCTACGTGATGAGGACGA
*
81656 CTGGTTA
128 CTGGCTA
* * *
81663 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGAGGGATGGCACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
* * *
81728 GATGAAGACGGCTGGCCATCTTTAGGAGTGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTG
66 GATGAAGACGACTGGCCATCTTTAGGAGTGGTGATAACACGGTTCCTACGTGATGAGGACGACTG
81793 GCTA
131 GCTA
81797 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
*
81862 GATGAGGACGACTGGCCATCTTTAGG
66 GATGAAGACGACTGGCCATCTTTAGG
81888 GATCATGGTT
Statistics
Matches: 198, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
129 8 0.04
130 62 0.31
131 4 0.02
133 1 0.01
134 123 0.62
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (134 bp):
TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
GATGAAGACGACTGGCCATCTTTAGGAGTGGTGATAACACGGTTCCTACGTGATGAGGACGACTG
GCTA
Found at i:81935 original size:28 final size:28
Alignment explanation
Indices: 81895--81976 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 28
81885 AGGGATCATG
* *
81895 GTTTCAAGAGAAATC-GATTCAAAGATTT
1 GTTTCAAAAGAAA-CAGACTCAAAGATTT
81923 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
81951 GTTTCAAGAA-AAACA-AGCTCAAAGAT
1 GTTTCAA-AAGAAACAGA-CTCAAAGAT
81977 AATGCGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.04
28 45 0.92
29 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:82580 original size:31 final size:31
Alignment explanation
Indices: 82530--82590 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
82520 AAGGGAAACG
82530 ACTCAAAGATGGTTTTATTT-TAAGAGAAACAA
1 ACTCAAAGAT-GTTTTATTTCT-AGAGAAACAA
82562 ACTCAAAGAT-TTTGTATTTCTAGAGAAAC
1 ACTCAAAGATGTTT-TATTTCTAGAGAAAC
82591 TGCCTCAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 3 0.11
31 13 0.48
32 11 0.41
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (31 bp):
ACTCAAAGATGTTTTATTTCTAGAGAAACAA
Found at i:83024 original size:29 final size:27
Alignment explanation
Indices: 82992--83082 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 27
82982 ATGTTTTAAG
82992 AGAAACATACTCAAAGATTTTTTCTCAAA
1 AGAAACA-ACTCAAAGATTTTTT-TCAAA
*
83021 AGAAATAACTCAAAGATTTTTATTCAAA
1 AGAAACAACTCAAAGATTTTT-TTCAAA
* *
83049 ATG-AACAAACTCAAATATTTGTTTCAAA
1 A-GAAAC-AACTCAAAGATTTTTTTCAAA
83077 AGAAAC
1 AGAAAC
83083 TGTCTCAAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.02
28 32 0.59
29 21 0.39
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (27 bp):
AGAAACAACTCAAAGATTTTTTTCAAA
Found at i:83101 original size:121 final size:119
Alignment explanation
Indices: 82795--83112 Score: 336
Period size: 120 Copynumber: 2.6 Consensus size: 119
82785 TGAGACGAAT
* * * **
82795 TTTTTTCCAAAGGAAACAATCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGAGAGACAAA
1 TTTTTTCAAAAGG-AACAAACTCAAA-GAT--TTTTTCAAAAGAAACTGTCTCAAGAGAGACAAA
* * * * **
82860 ATTTGTTTTTAAAGAAATAAACTAAAAGATGATTTTGTTAGTAGAAACAAACTCAAAGA
62 ATATG-TTTTAAAGAAACAAACTAAAAGATGATTTTCTCAAAAGAAACAAACTCAAAGA
* * * *
82919 TTTTTTCAAAAGGAATAGACTCCAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATAT
1 TTTTTTCAAAAGGAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATAT
* * * *
82984 GTTTTAAGAGAAACATACTCAAAGAT-TTTTTCTCAAAAGAAA-TAACTCAAAGA
66 GTTTTAA-AGAAACAAACTAAAAGATGATTTTCTCAAAAGAAACAAACTCAAAGA
* *
83037 TTTTTATTCAAAATGAACAAACTCAAATATTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA
1 -TTTT-TTCAAAAGGAACAAACTCAAAGATTT-TTTCAAAAGAAACTGTCTCAAGAGAGACAAAA
83102 -ATCGTTTTAAA
63 TAT-GTTTTAAA
83113 ATATTCAAAG
Statistics
Matches: 165, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
118 10 0.06
119 21 0.13
120 74 0.45
121 38 0.23
122 2 0.01
123 8 0.05
124 12 0.07
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (119 bp):
TTTTTTCAAAAGGAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATAT
GTTTTAAAGAAACAAACTAAAAGATGATTTTCTCAAAAGAAACAAACTCAAAGA
Found at i:83349 original size:36 final size:36
Alignment explanation
Indices: 83309--83390 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
83299 AAAGGAAAAA
* * *
83309 TGTCTCAAGCGAGACGAAGTTTG-TTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAACTTTGTTTTTAA-AGAAAT
* * *
83345 TGTCTTAAGTGATACAAACTTTGTTTTTAAAGAAAT
1 TGTCTCAAGCGAGACAAACTTTGTTTTTAAAGAAAT
83381 TGTCTCAAGC
1 TGTCTCAAGC
83391 AAAACAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAACTTTGTTTTTAAAGAAAT
Found at i:83398 original size:36 final size:36
Alignment explanation
Indices: 83309--83403 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 36
83299 AAAGGAAAAA
* * * *
83309 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAAACAAAATTTGTTTTAAGAGAAAT
* * * *
83345 TGTCTTAAGTGATACAAACTTTGTTTTTAA-AGAAAT
1 TGTCTCAAGCGAAACAAAATTTG-TTTTAAGAGAAAT
*
83381 TGTCTCAAGCAAAACAAAATTTG
1 TGTCTCAAGCGAAACAAAATTTG
83404 AGAAAATGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
36 41 0.87
37 6 0.13
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (36 bp):
TGTCTCAAGCGAAACAAAATTTGTTTTAAGAGAAAT
Found at i:83436 original size:168 final size:166
Alignment explanation
Indices: 83244--83568 Score: 399
Period size: 167 Copynumber: 1.9 Consensus size: 166
83234 ATCTTTGAAA
* * * *
83244 ATCTCAAGTGATATTAATTTTGTTTTAA-ACGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAA
1 ATCTCAAGTGAGATCAACTTTG-TTTAATACGAAACAAATTCAAAATTTGTATCTC-AAGGAAAA
* ** * *
83308 ATGTCTCAAGCGAGAC-GAAGTTTG-TTTT-AAGAGAATTTGTCTTAAGTGATACAAACTTTGTT
64 ATGTCTCAAGCGAGACGGAA-TTTGTTTTTCAAGA-AA-TTGTCTCAAACGAGACAAAATTTGTT
*
83370 TTTAAAGAAA-TTGTCTCAAGCAAAACAAAATTTGAGAAAATG
126 TTT--AGAAAGCTGTCTCAAGCAAAACAAAATTTGAGAAAATG
** *
83412 ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGTATCTCAAGGAAAAAT
1 ATCTCAAGTGAGATCAACTTTGTTTAATACGAAACAAATTCAAAATTTGTATCTCAAGGAAAAAT
* *
83477 GTCTCCAGTGAGACGGAATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAAAATTTGTTTTTAG
66 GTCTCAAGCGAGACGGAATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAAAATTTGTTTTTAG
* *
83542 AAAGCTGTCTCAAGCGAGACAAAATTT
131 AAAGCTGTCTCAAGCAAAACAAAATTT
83569 TCTTTGAAAG
Statistics
Matches: 135, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
165 5 0.04
166 20 0.15
167 55 0.41
168 51 0.38
169 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (166 bp):
ATCTCAAGTGAGATCAACTTTGTTTAATACGAAACAAATTCAAAATTTGTATCTCAAGGAAAAAT
GTCTCAAGCGAGACGGAATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAAAATTTGTTTTTAG
AAAGCTGTCTCAAGCAAAACAAAATTTGAGAAAATG
Found at i:83526 original size:36 final size:35
Alignment explanation
Indices: 83493--83616 Score: 155
Period size: 35 Copynumber: 3.5 Consensus size: 35
83483 AGTGAGACGG
*
83493 AATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAA
1 AATTTGTTTTT-AAGAAATTGTCTCAAGCGAGACAA
*
83529 AATTTGTTTTT-AGAAAGCTGTCTCAAGCGAGACAA
1 AATTTGTTTTTAAGAAA-TTGTCTCAAGCGAGACAA
*
83564 AATTT-TCTTTGAAAGAAATTGTCTCAAGCGAGACAAA
1 AATTTGT-TTT-TAAGAAATTGTCTCAAGCGAGAC-AA
83601 AATTTG-TTTTAAGAAA
1 AATTTGTTTTTAAGAAA
83617 AACACCCTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
34 6 0.08
35 30 0.39
36 29 0.38
37 12 0.16
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (35 bp):
AATTTGTTTTTAAGAAATTGTCTCAAGCGAGACAA
Found at i:83560 original size:35 final size:35
Alignment explanation
Indices: 83493--83616 Score: 137
Period size: 36 Copynumber: 3.5 Consensus size: 35
83483 AGTGAGACGG
*
83493 AATTTGTTTTTCAAGAAA-TTGTCTCAAACGAGACAA
1 AATTTGTTTTT--AGAAAGTTGTCTCAAGCGAGACAA
*
83529 AATTTGTTTTTAGAAAGCTGTCTCAAGCGAGACAA
1 AATTTGTTTTTAGAAAGTTGTCTCAAGCGAGACAA
*
83564 AATTT-TCTTT-GAAAGAAATTGTCTCAAGCGAGACAAA
1 AATTTGTTTTTAGAAAG---TTGTCTCAAGCGAGAC-AA
*
83601 AATTTGTTTTAAGAAA
1 AATTTGTTTTTAGAAA
83617 AACACCCTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
33 5 0.07
34 9 0.12
35 21 0.28
36 26 0.35
37 7 0.09
38 3 0.04
39 4 0.05
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (35 bp):
AATTTGTTTTTAGAAAGTTGTCTCAAGCGAGACAA
Found at i:83918 original size:4 final size:4
Alignment explanation
Indices: 83902--84591 Score: 1322
Period size: 4 Copynumber: 174.2 Consensus size: 4
83892 ATGCAAATTT
*
83902 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
83947 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
83995 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84043 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84091 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84137 TATG TATG TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84183 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84231 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84279 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84327 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84375 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84423 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84471 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84519 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84567 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
84592 TTTCTCGATC
Statistics
Matches: 677, Mismatches: 2, Indels: 14
0.98 0.00 0.02
Matches are distributed among these distances:
2 6 0.01
3 3 0.00
4 668 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:93908 original size:29 final size:29
Alignment explanation
Indices: 93866--93947 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
93856 GTGATGGCCA
*
93866 TAGGACGCCATGCAATCCATGCGATCTTG
1 TAGGACGCCATGCAATCCAGGCGATCTTG
*
93895 TAGGACGTCATGCAATCCAGGCGATCTTG
1 TAGGACGCCATGCAATCCAGGCGATCTTG
*
93924 TAGAACGCCATGCAATCCAGGCGA
1 TAGGACGCCATGCAATCCAGGCGA
93948 CATACAGGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.21
Consensus pattern (29 bp):
TAGGACGCCATGCAATCCAGGCGATCTTG
Found at i:94042 original size:28 final size:28
Alignment explanation
Indices: 94002--94058 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
93992 ACGAGCCAAT
*
94002 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGTCTTAGACGA
94030 GGAGAGGTCGCCATGCAGTCTTAGACGA
1 GGAGAGGTCGCCATGCAGTCTTAGACGA
94058 G
1 G
94059 TCATACGAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.19
Consensus pattern (28 bp):
GGAGAGGTCGCCATGCAGTCTTAGACGA
Found at i:94127 original size:29 final size:29
Alignment explanation
Indices: 94077--94181 Score: 149
Period size: 29 Copynumber: 3.6 Consensus size: 29
94067 GCCAATGGAG
* *
94077 AGGTCGCCATGCAG-CCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
*
94106 AGGTCGCCATGTAGTCCCGGCGACCTTTT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
**
94135 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
94164 AGGTCGCCATGTAGTCCC
1 AGGTCGCCATGTAGTCCC
94182 ATGTAGTCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
29 67 0.97
30 2 0.03
ACGTcount: A:0.16, C:0.31, G:0.30, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:94542 original size:25 final size:26
Alignment explanation
Indices: 94492--94542 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
94482 CTTGGTCGCC
**
94492 GAGATTGCAGCCGAAGAAAGGGAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
94518 GAGATTGCAGCCG-AGAAAGAAAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
94543 AGGGAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.45, C:0.12, G:0.35, T:0.08
Consensus pattern (26 bp):
GAGATTGCAGCCGAAGAAAGAAAGAA
Found at i:94744 original size:41 final size:41
Alignment explanation
Indices: 94699--94787 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
94689 TATATGATTG
* *
94699 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
94740 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
94781 TTAGTTT
1 TTAGTTT
94788 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:94830 original size:45 final size:45
Alignment explanation
Indices: 94727--94858 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
94717 TACATAAATT
*
94727 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
94769 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
94813 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
94859 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:94935 original size:32 final size:33
Alignment explanation
Indices: 94899--94975 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
94889 TTAGTTAGTA
94899 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
94931 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
94965 ATTTTATTAGT
1 AGTTTATTAGT
94976 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:95062 original size:15 final size:14
Alignment explanation
Indices: 95042--95072 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
95032 GTTTATTAGT
95042 TTATTATATTATAAG
1 TTATTATATTA-AAG
95057 TTATTATATTAAAG
1 TTATTATATTAAAG
95071 TT
1 TT
95073 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:97216 original size:17 final size:17
Alignment explanation
Indices: 97194--97226 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
97184 TAATGATTTT
*
97194 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
97211 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
97227 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:97243 original size:24 final size:22
Alignment explanation
Indices: 97211--97279 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
97201 AAATCATTAC
97211 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
97233 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
97258 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
97280 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:97455 original size:14 final size:14
Alignment explanation
Indices: 97436--97475 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
97426 TAGTAATAAT
97436 TATTAAATCATTAG
1 TATTAAATCATTAG
*
97450 TATTAAATCATTAT
1 TATTAAATCATTAG
*
97464 TA-TAAATAATTA
1 TATTAAATCATTA
97476 CTAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:97524 original size:26 final size:25
Alignment explanation
Indices: 97421--97908 Score: 317
Period size: 26 Copynumber: 19.7 Consensus size: 25
97411 GTATTCTATA
* *
97421 ATTATTAGT-AATAATTATTA-AATC
1 ATTATTA-TAAATCATTATTATAATG
*
97445 ATTAGTATTAAATCATTATTATAA--
1 ATTATTA-TAAATCATTATTATAATG
* * * * *
97469 ATAATTACTAAATAATAACTA-AATT
1 ATTATTA-TAAATCATTATTATAATG
97494 ATTATTATAAAATCATTATTATAATG
1 ATTATTAT-AAATCATTATTATAATG
* *
97520 ATTATTATCAAATCATTACTA-AATC
1 ATTATTAT-AAATCATTATTATAATG
* * *
97545 ATCAAATCATTAAAT-A-T-TTA-AATC
1 AT--TATTA-TAAATCATTATTATAATG
*
97569 ATTA-T-TAAATCATTTTTATAATG
1 ATTATTATAAATCATTATTATAATG
97592 ATTATTACTAAATCATTATTATAATG
1 ATTATTA-TAAATCATTATTATAATG
*
97618 ATTATTATCAAATCATTACTATAATG
1 ATTATTAT-AAATCATTATTATAATG
* * *
97644 ATTATTATCAAATTATTACTA-AATC
1 ATTATTAT-AAATCATTATTATAATG
* * *
97669 ATCAAATCATTAAAT-A-T-TTA-AATC
1 AT--TATTA-TAAATCATTATTATAATG
*
97693 ATTA-T-TAAATCATTTTTATAATG
1 ATTATTATAAATCATTATTATAATG
*
97716 ATTATTGCTAAATCATTATTATAATG
1 ATTATT-ATAAATCATTATTATAATG
*
97742 ATTATTATCAAATCATTACTATAATG
1 ATTATTAT-AAATCATTATTATAATG
* *
97768 ATTATTATCAAATCATTACTA-AATC
1 ATTATTAT-AAATCATTATTATAATG
* * *
97793 ATCAATCATTAAAT-A-T-TTA-AATC
1 AT-TATTA-TAAATCATTATTATAATG
*
97816 ATTA-T-TAAATCATTTTTATAATG
1 ATTATTATAAATCATTATTATAATG
97839 ATTATTACTAAATCATTATTATAATG
1 ATTATTA-TAAATCATTATTATAATG
*
97865 ATTATTATCAAATCATTACTATAATG
1 ATTATTAT-AAATCATTATTATAATG
97891 ATTATTATCAAATCATTA
1 ATTATTAT-AAATCATTA
97909 CTAAATCATC
Statistics
Matches: 381, Mismatches: 45, Indels: 74
0.76 0.09 0.15
Matches are distributed among these distances:
19 15 0.04
20 3 0.01
21 3 0.01
22 12 0.03
23 31 0.08
24 43 0.11
25 46 0.12
26 211 0.55
27 15 0.04
28 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (25 bp):
ATTATTATAAATCATTATTATAATG
Found at i:97525 original size:12 final size:13
Alignment explanation
Indices: 97434--97908 Score: 213
Period size: 12 Copynumber: 37.1 Consensus size: 13
97424 ATTAGTAATA
97434 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
97448 AGTATTAAATCATT
1 ATTA-TAAATCATT
97462 ATTATAAAT-A--
1 ATTATAAATCATT
97472 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
97483 ATAACTAAATTATT
1 ATTA-TAAATCATT
97497 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
97511 ATTAT-AATGATT
1 ATTATAAATCATT
97523 ATTATCAAATCATT
1 ATTAT-AAATCATT
97537 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
97556 AAATATTTAAATCATT
1 --AT-TATAAATCATT
97572 A-T-TAAATCATT
1 ATTATAAATCATT
* *
97583 TTTAT-AATGATT
1 ATTATAAATCATT
97595 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
97609 ATTAT-AATGATT
1 ATTATAAATCATT
97621 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
97635 ACTAT-AATGATT
1 ATTATAAATCATT
*
97647 ATTATCAA--ATT
1 ATTATAAATCATT
*
97658 ATTACTAAATCATC
1 ATTA-TAAATCATT
* * * * *
97672 A-AATCATTAAAT
1 ATTATAAATCATT
97684 ATT-TAAATCATT
1 ATTATAAATCATT
97696 A-T-TAAATCATT
1 ATTATAAATCATT
* *
97707 TTTAT-AATGATT
1 ATTATAAATCATT
*
97719 ATTGCTAAATCATT
1 ATT-ATAAATCATT
*
97733 ATTAT-AATGATT
1 ATTATAAATCATT
97745 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
97759 ACTAT-AATGATT
1 ATTATAAATCATT
97771 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
97785 A--CTAAATCATCA
1 ATTATAAATCAT-T
* *
97797 ATCATTAA--A-T
1 ATTATAAATCATT
97807 ATT-TAAATCATT
1 ATTATAAATCATT
97819 A-T-TAAATCATT
1 ATTATAAATCATT
* *
97830 TTTAT-AATGATT
1 ATTATAAATCATT
97842 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
97856 ATTAT-AATGATT
1 ATTATAAATCATT
97868 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
97882 ACTAT-AATGATT
1 ATTATAAATCATT
97894 ATTATCAAATCATT
1 ATTAT-AAATCATT
97908 A
1 A
97909 CTAAATCATC
Statistics
Matches: 355, Mismatches: 59, Indels: 94
0.70 0.12 0.19
Matches are distributed among these distances:
9 3 0.01
10 6 0.02
11 59 0.17
12 125 0.35
13 18 0.05
14 118 0.33
15 1 0.00
16 8 0.02
17 1 0.00
18 3 0.01
19 11 0.03
20 1 0.00
21 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:97662 original size:124 final size:124
Alignment explanation
Indices: 97450--97966 Score: 898
Period size: 124 Copynumber: 4.2 Consensus size: 124
97440 AAATCATTAG
* * * * * * *
97450 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATTATTATTATAAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
*
97512 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
97571 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
*
97636 CTATAATGATTATTATCAAATTATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
*
97695 TATTAAATCATTTTTATAATGATTATTGCTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
97760 CTATAATGATTATTATCAAATCATTACTAAATCATC-AATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
97818 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
*
97883 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATTAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
*
97942 TATTAAATAATTTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
97967 ATAAATACAT
Statistics
Matches: 378, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
121 18 0.05
123 139 0.37
124 221 0.58
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (124 bp):
TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:97923 original size:97 final size:95
Alignment explanation
Indices: 97725--97927 Score: 259
Period size: 97 Copynumber: 2.1 Consensus size: 95
97715 GATTATTGCT
97725 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
1 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
* *
97790 ATCATCAATCATTAAATATTTAAATCATTATT
66 ATCATCAATCATCAAATATTTAAATC--TATC
* *
97822 AAATCATTTTTATAATGATTATTA-CTAAATCATTATTATAATGATTATTATCAAATCATTACTA
1 AAATCATTATTATAATGATTATTATC-AAATCATTACTATAATGATTATTATCAAATCATTACTA
* * *
97886 TAATGAT-TATTATCAAATCATTACTAAATC-ATC
65 -AATCATCAATCATCAAAT-ATT--TAAATCTATC
97919 AAATCATTA
1 AAATCATTA
97928 AATATTTAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
96 1 0.01
97 78 0.84
98 8 0.09
100 6 0.06
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (95 bp):
AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
ATCATCAATCATCAAATATTTAAATCTATC
Found at i:97957 original size:247 final size:248
Alignment explanation
Indices: 97494--97966 Score: 894
Period size: 247 Copynumber: 1.9 Consensus size: 248
97484 TAACTAAATT
*
97494 ATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
1 ATTATTATAAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
97559 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATT
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATT
*
97624 ATCAAATCATTACTATAATGATTATTATCAAATTATTACTAAATCATCAAATCATTAAATATTTA
131 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
*
97689 AATCATTATTAAATCATTTTTATAATGATTATTGCTAAATCATTATTATAATG
196 AATCATTATTAAATAATTTTTATAATGATTATTGCTAAATCATTATTATAATG
*
97742 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC-AATCATTAAA
1 ATTATTATAAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
97806 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATT
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATT
97871 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
131 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
*
97936 AATTATTATTAAATAATTTTTATAATGATTA
196 AATCATTATTAAATAATTTTTATAATGATTA
97967 ATAAATACAT
Statistics
Matches: 220, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
247 168 0.76
248 52 0.24
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (248 bp):
ATTATTATAAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATT
ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
AATCATTATTAAATAATTTTTATAATGATTATTGCTAAATCATTATTATAATG
Found at i:100853 original size:26 final size:24
Alignment explanation
Indices: 100795--100853 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
100785 CTAATAAACC
*
100795 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
100819 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
100847 TAATAAT
1 TAATAAT
100854 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:101647 original size:42 final size:47
Alignment explanation
Indices: 101591--101703 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 47
101581 GTTTAAATAC
*
101591 ACTAACAAATTAATTAATATTTTTT-TAT-AT-T-TA-ATAACTTAA
1 ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
*
101633 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAA-T-ATTTTTTATATAATAT-ATATATAACTTAA
*
101683 ACTAATAAACTAATATAATAT
1 ACTAACAAACTAAT-TAATAT
101704 AACTTAAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
42 15 0.25
43 1 0.02
44 7 0.12
45 3 0.05
46 2 0.03
47 1 0.02
49 4 0.07
50 23 0.39
51 3 0.05
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.42
Consensus pattern (47 bp):
ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
Found at i:101703 original size:28 final size:30
Alignment explanation
Indices: 101663--101725 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
101653 ATTTTTTATA
*
101663 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
101693 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
101721 TAATA
1 TAATA
101726 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:101732 original size:28 final size:28
Alignment explanation
Indices: 101667--101732 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
101657 TTTATATAAT
*
101667 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
101695 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
101723 ATAATTTATA
1 ATAATATATA
101733 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:101735 original size:21 final size:21
Alignment explanation
Indices: 101702--101750 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
101692 CTAATATAAT
101702 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
101723 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
101744 ATTAACT
1 A-TAACT
101751 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:102336 original size:20 final size:20
Alignment explanation
Indices: 102311--102383 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
102301 CCATGCACAG
102311 CATGCATCCCACAACTCCCC
1 CATGCATCCCACAACTCCCC
**
102331 CATGCATTCCCACGTC-CCATGCAC
1 CATGCA-TCCCACAACTCC---C-C
102355 AGCATGCATCCCACAACTCCCC
1 --CATGCATCCCACAACTCCCC
102377 CATGCAT
1 CATGCAT
102384 GCTCCAATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
20 15 0.37
21 7 0.17
22 1 0.02
23 2 0.05
24 1 0.02
25 7 0.17
26 8 0.20
ACGTcount: A:0.25, C:0.48, G:0.10, T:0.18
Consensus pattern (20 bp):
CATGCATCCCACAACTCCCC
Found at i:102350 original size:46 final size:46
Alignment explanation
Indices: 102291--102383 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
102281 CCATGCACAG
102291 TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
1 TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
102337 TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
1 TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
102383 T
1 T
102384 GCTCCAATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.47, G:0.11, T:0.18
Consensus pattern (46 bp):
TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
Found at i:102476 original size:29 final size:29
Alignment explanation
Indices: 102443--102533 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
102433 AACACCACAC
* *
102443 AGGTCGCTCGGATGCCATGGCGACCTCTA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
102472 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
102501 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
102530 AGGT
1 AGGT
102534 TGCTGTAGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:102689 original size:2 final size:2
Alignment explanation
Indices: 102682--102713 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
102672 TGATTAAATA
102682 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102714 CAACTTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105345 original size:59 final size:59
Alignment explanation
Indices: 105252--105372 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 59
105242 AAAATTTGTG
* *
105252 AATCCCACACATGAATATCACCCAAATCCATTTATACATAATTTTTGTGCCTTAATGTC
1 AATCCCACACATGAATATCACCCAAATCCATTTATACATAAATTTTGTGCCTTAATGAC
* *** * *
105311 AATCCCACACATGAATATCATCCAAATTTGTTTATATATAAATTTTGTGCCTTGATGAC
1 AATCCCACACATGAATATCACCCAAATCCATTTATACATAAATTTTGTGCCTTAATGAC
105370 AAT
1 AAT
105373 TTTATTCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (59 bp):
AATCCCACACATGAATATCACCCAAATCCATTTATACATAAATTTTGTGCCTTAATGAC
Done.