Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010866.1 Kokia drynarioides strain JFW-HI SEQ_125834, 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: 164310
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 11 characters in sequence are not A, C, G, or T
Found at i:686 original size:25 final size:23
Alignment explanation
Indices: 649--732 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
639 ACACTAGAGC
649 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
*
672 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTCTGT
** * *
697 GCTCTCTGACTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
*
720 GCTCTCTGATTAG
1 GCTCTCTGTTTAG
733 TACTTGTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
23 32 0.60
24 1 0.02
25 17 0.32
26 3 0.06
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:728 original size:23 final size:23
Alignment explanation
Indices: 670--737 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
660 AGCACGTCTC
*
670 GTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG--ATTAGCACTTTGT
*
695 GTGCTCTCTGACTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
718 GTGCTCTCTGATTAGTACTT
1 GTGCTCTCTGATTAGCACTT
738 GTTTAGCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 29 0.74
25 10 0.26
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:753 original size:34 final size:33
Alignment explanation
Indices: 707--770 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
697 GCTCTCTGAC
*
707 TAGCACTTTGTGTGCTCTCTGATTAGTACTTGTT
1 TAGCACTGTGTGTGCTCTCTG-TTAGTACTTGTT
*
741 TAGCACTGTGTGTGCTCTTTGTTAGTACTT
1 TAGCACTGTGTGTGCTCTCTGTTAGTACTT
771 TGGTACTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 9 0.32
34 19 0.68
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (33 bp):
TAGCACTGTGTGTGCTCTCTGTTAGTACTTGTT
Found at i:18186 original size:79 final size:76
Alignment explanation
Indices: 18090--18316 Score: 224
Period size: 79 Copynumber: 2.9 Consensus size: 76
18080 TACTGTTAAC
* * * * * * * * *
18090 AATAG-AAATAGAATAAATTTTGTTG-ACCAGCGGGAATAGAATCTTGAAACAGAATTGTTTAAT
1 AATAGAAAATCGAATAAATTCTGTTGAACGA-CAGAAATAAAATCCTGAAACAGAATTATTCAAT
18153 TGATTTCTGTCTGGA
65 TGATTT-T-T-TGGA
*
18168 AATAGAAAATCGAATAAATTCTATTGAACGACAGAAATAAAATCCTGAAACAGAATTATTCAATT
1 AATAGAAAATCGAATAAATTCTGTTGAACGACAGAAATAAAATCCTGAAACAGAATTATTCAATT
**
18233 GATTTTTTTTA
66 GATTTTTTGGA
* * * * **
18244 AACAAAAAATCGAATAAATTCTGTTGAATCGATAGGAATAAAATCCTGAAATGGAATTATTCAAT
1 AATAGAAAATCGAATAAATTCTGTTGAA-CGACAGAAATAAAATCCTGAAACAGAATTATTCAAT
*
18309 TAATTTTT
65 TGATTTTT
18317 GTTTACAAAG
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
76 27 0.21
77 40 0.32
78 6 0.05
79 50 0.40
80 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (76 bp):
AATAGAAAATCGAATAAATTCTGTTGAACGACAGAAATAAAATCCTGAAACAGAATTATTCAATT
GATTTTTTGGA
Found at i:18271 original size:76 final size:78
Alignment explanation
Indices: 18173--18321 Score: 230
Period size: 77 Copynumber: 1.9 Consensus size: 78
18163 CTGGAAATAG
*
18173 AAAATCGAATAAATTCTATTGAA-CGACAGAAATAAAATCCTGAAACAGAATTATTCAATTGATT
1 AAAATCGAATAAATTCTATTGAATCGACAGAAATAAAATCCTGAAACAGAATTATTCAATTAATT
18237 TTT-TTTAAACAA
66 TTTGTTTAAACAA
* * * **
18249 AAAATCGAATAAATTCTGTTGAATCGATAGGAATAAAATCCTGAAATGGAATTATTCAATTAATT
1 AAAATCGAATAAATTCTATTGAATCGACAGAAATAAAATCCTGAAACAGAATTATTCAATTAATT
18314 TTTGTTTA
66 TTTGTTTA
18322 CAAAGAGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
76 22 0.34
77 39 0.60
78 4 0.06
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (78 bp):
AAAATCGAATAAATTCTATTGAATCGACAGAAATAAAATCCTGAAACAGAATTATTCAATTAATT
TTTGTTTAAACAA
Found at i:22281 original size:4 final size:4
Alignment explanation
Indices: 22272--22297 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22262 TAACTTGAAT
22272 TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TG
22298 AATTGAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:27023 original size:8 final size:8
Alignment explanation
Indices: 27010--27052 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
27000 TGCTAAATGT
27010 TTTTTAAA
1 TTTTTAAA
27018 TTTTT-AA
1 TTTTTAAA
27025 TTTTTAAA
1 TTTTTAAA
27033 TATTTTATAA
1 T-TTTTA-AA
*
27043 TTCTTAAA
1 TTTTTAAA
27051 TT
1 TT
27053 ATTTGTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 7 0.23
8 12 0.39
9 9 0.29
10 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTTAAA
Found at i:27028 original size:15 final size:16
Alignment explanation
Indices: 27010--27039 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27000 TGCTAAATGT
27010 TTTTTAAAT-TTTTAA
1 TTTTTAAATATTTTAA
27025 TTTTTAAATATTTTA
1 TTTTTAAATATTTTA
27040 TAATTCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTAAATATTTTAA
Found at i:27049 original size:18 final size:18
Alignment explanation
Indices: 27017--27056 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
27007 TGTTTTTTAA
*
27017 ATTTTTAATTTTTAAA-T
1 ATTTTTAATTCTTAAATT
27034 ATTTTATAATTCTTAAATT
1 ATTTT-TAATTCTTAAATT
27053 ATTT
1 ATTT
27057 GTTGAGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTAATTCTTAAATT
Found at i:32658 original size:21 final size:23
Alignment explanation
Indices: 32640--32702 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
32630 TTAAATAATA
32640 CAAA-AAT-TAAAATTAATAACT
1 CAAATAATATAAAATTAATAACT
*
32661 CAAATAATATAAAATATATATATCT
1 CAAATAATATAAAAT-TA-ATAACT
* *
32686 C-AATTATAAAAAATTAA
1 CAAATAATATAAAATTAA
32703 AAAAGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 8 0.23
24 13 0.37
25 6 0.17
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (23 bp):
CAAATAATATAAAATTAATAACT
Found at i:33006 original size:27 final size:27
Alignment explanation
Indices: 32946--33010 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
32936 TTCGAGCGGG
*
32946 TGGTGCCTTTGGGGTAGGCGGCACCAA
1 TGGTGCCTTTGGGATAGGCGGCACCAA
* * *
32973 TGGTGCCTTTTGGATAGGCGGCACTAG
1 TGGTGCCTTTGGGATAGGCGGCACCAA
*
33000 TGTTGCCTTTG
1 TGGTGCCTTTG
33011 TCCAAACTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.12, C:0.20, G:0.37, T:0.31
Consensus pattern (27 bp):
TGGTGCCTTTGGGATAGGCGGCACCAA
Found at i:33150 original size:26 final size:26
Alignment explanation
Indices: 33110--33160 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
33100 ATTTTAACAA
* * *
33110 CAAATTTTTTTAAGAAGGAAAGGAAG
1 CAAAATTTTTGAAGAAGAAAAGGAAG
33136 CAAAATTTTTGAAGAAGAAAAGGAA
1 CAAAATTTTTGAAGAAGAAAAGGAA
33161 ACAGAAGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.24
Consensus pattern (26 bp):
CAAAATTTTTGAAGAAGAAAAGGAAG
Found at i:34657 original size:58 final size:58
Alignment explanation
Indices: 34593--34947 Score: 247
Period size: 58 Copynumber: 6.0 Consensus size: 58
34583 ACTAAAGGGC
* * * * *
34593 AAAATGGTAA-TTTTCGACACTTCGAGGTCGAAAATTGAATTTTTGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGAAAATTCGAGGT-AAAAATGGAATTTTTGAAAGTTCGGGGGT
* * ** *
34651 AAAATGGTAATTTTTGGAAAAAAAATCAAGGTAAAAATGGAGCTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGG---AAAATTCGAGGTAAAAATGGAATTTTTGAAAGTTCGGGGGT
* *
34712 AAAATGGTAATTTTTGGAAAATTAG-GGTTAAAAATGGAATTTTT-AGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAAATTCGAGG-TAAAAATGGAATTTTTGA-AAGTTCGGGGGT
* * * * *
34770 AAAATGGTAATTTTTGGAAAAATCGAGATAAAAATGGAGTTTTGGGAAAGTT-TGGGGT
1 AAAATGGTAATTTTTGGAAAATTCGAGGTAAAAATGGAATTTT-TGAAAGTTCGGGGGT
* * * * * * * *
34828 CATAAT-GTAATTTTTGGAAAGTTCAAGGGTCAGAATGTAATTTTTGTAAAGTTCAAGGGTT
1 -AAAATGGTAATTTTTGGAAAATTCGA-GGTAAAAATGGAATTTTTG-AAAGTTC-GGGGGT
* * * * * * *
34889 GAAAT-ATAATTTTT-AAAAAGTTTAGAGGTTAAAATGTAATTTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAAA--TTCGAGGTAAAAATGGAATTTTT-GAAAGTTCGGGGGT
34948 CAAAGTATGA
Statistics
Matches: 232, Mismatches: 48, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
57 2 0.01
58 99 0.43
59 39 0.17
60 35 0.15
61 49 0.21
62 8 0.03
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAAATTCGAGGTAAAAATGGAATTTTTGAAAGTTCGGGGGT
Found at i:34662 original size:29 final size:29
Alignment explanation
Indices: 34630--34785 Score: 106
Period size: 29 Copynumber: 5.3 Consensus size: 29
34620 TCGAAAATTG
34630 AATTTTTGAAAGTTCGGGGGTAAAATGGT
1 AATTTTTGAAAGTTCGGGGGTAAAATGGT
** **
34659 AATTTTTGGAAAAAAAATC-AAGGTAAAAATGG-
1 AATTTTT-G---AAAGTTCGGGGGT-AAAATGGT
** *
34691 AGCTTTTGGAAGTTCGGGGGTAAAATGGT
1 AATTTTTGAAAGTTCGGGGGTAAAATGGT
* * *
34720 AATTTTTGGAAAATT-AGGGTTAAAAATGG-
1 AATTTTT-GAAAGTTCGGGGGT-AAAATGGT
*
34749 AATTTTT-AGAAGTTCGAGGGTAAAATGGT
1 AATTTTTGA-AAGTTCGGGGGTAAAATGGT
34778 AATTTTTG
1 AATTTTTG
34786 GAAAAATCGA
Statistics
Matches: 93, Mismatches: 21, Indels: 25
0.67 0.15 0.18
Matches are distributed among these distances:
27 1 0.01
28 22 0.24
29 36 0.39
30 13 0.14
31 1 0.01
32 8 0.09
33 12 0.13
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
AATTTTTGAAAGTTCGGGGGTAAAATGGT
Found at i:34721 original size:119 final size:115
Alignment explanation
Indices: 34593--34814 Score: 286
Period size: 119 Copynumber: 1.9 Consensus size: 115
34583 ACTAAAGGGC
* * * * * *
34593 AAAATGGTAA-TTTTCGACACTTCGAGGTCGAAAATTGAATTTTT-GAAAGTTCGGGGGTAAAAT
1 AAAATGGTAATTTTTCGAAAATTAG-GGTCAAAAATGGAATTTTTAG-AAGTTCGAGGGTAAAAT
*
34656 GGTAATTTTTGGAAAAAAAATCAAGGTAAAAATGGAGCTTTTGGAAGTTCGGGGGT
64 GGTAATTTTTGG---AAAAATCAAGATAAAAATGGAG-TTTTGGAAGTTCGGGGGT
* *
34712 AAAATGGTAATTTTTGGAAAATTAGGGTTAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAATGG
1 AAAATGGTAATTTTTCGAAAATTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAATGG
*
34777 TAATTTTTGGAAAAATCGAGATAAAAATGGAGTTTTGG
66 TAATTTTTGGAAAAATCAAGATAAAAATGGAGTTTTGG
34815 GAAAGTTTGG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
115 6 0.07
116 20 0.22
119 54 0.59
120 11 0.12
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (115 bp):
AAAATGGTAATTTTTCGAAAATTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAATGG
TAATTTTTGGAAAAATCAAGATAAAAATGGAGTTTTGGAAGTTCGGGGGT
Found at i:34748 original size:30 final size:29
Alignment explanation
Indices: 34708--34873 Score: 94
Period size: 29 Copynumber: 5.7 Consensus size: 29
34698 GGAAGTTCGG
34708 GGGT-AAAATGGTAATTTTTGGAAAATTA
1 GGGTAAAAATGGTAATTTTTGGAAAATTA
* *
34736 GGGTTAAAAATGG-AATTTTTAG-AAGTTCGA
1 GGG-TAAAAATGGTAATTTTTGGAAAATT--A
* *
34766 GGGT-AAAATGGTAATTTTTGGAAAAATC
1 GGGTAAAAATGGTAATTTTTGGAAAATTA
* * * * *
34794 GAGATAAAAATGG-AGTTTTGGGAAAGTTTG
1 G-GGTAAAAATGGTAATTTTTGGAAA-ATTA
* * *
34824 GGGTCATAAT-GTAATTTTTGGAAAGTTCAA
1 GGGTAAAAATGGTAATTTTTGGAAAATT--A
* *
34854 GGGTCAGAAT-GTAATTTTTG
1 GGGTAAAAATGGTAATTTTTG
34874 TAAAGTTCAA
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
28 18 0.17
29 46 0.43
30 42 0.40
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGGTAATTTTTGGAAAATTA
Found at i:34879 original size:30 final size:30
Alignment explanation
Indices: 34824--34949 Score: 130
Period size: 30 Copynumber: 4.2 Consensus size: 30
34814 GGAAAGTTTG
*
34824 GGGTCATAATGTAATTTTTGGAAAGTTCAA
1 GGGTCAGAATGTAATTTTTGGAAAGTTCAA
*
34854 GGGTCAGAATGTAATTTTTGTAAAGTTCAA
1 GGGTCAGAATGTAATTTTTGGAAAGTTCAA
* * ** *
34884 GGGT-TGAAATATAATTTTTAAAAAGTT-TA
1 GGGTCAG-AATGTAATTTTTGGAAAGTTCAA
* * *
34913 GAGGTTAAAATGTAATTTTTGGAAAGTTCGA
1 G-GGTCAGAATGTAATTTTTGGAAAGTTCAA
34944 GGGTCA
1 GGGTCA
34950 AAGTATGATT
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
29 3 0.04
30 73 0.94
31 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGTCAGAATGTAATTTTTGGAAAGTTCAA
Found at i:34902 original size:60 final size:60
Alignment explanation
Indices: 34835--34947 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
34825 GGTCATAATG
** * *
34835 TAATTTTTGGAAAGTTCAAG-GGTCAGAATGTAATTTTTGTAAAGTTCAAGGGTTGAAATA
1 TAATTTTTAAAAAGTT-AAGAGGTCAAAATGTAATTTTTGGAAAGTTCAAGGGTTGAAATA
* * *
34895 TAATTTTTAAAAAGTTTAGAGGTTAAAATGTAATTTTTGGAAAGTTCGAGGGT
1 TAATTTTTAAAAAGTTAAGAGGTCAAAATGTAATTTTTGGAAAGTTCAAGGGT
34948 CAAAGTATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (60 bp):
TAATTTTTAAAAAGTTAAGAGGTCAAAATGTAATTTTTGGAAAGTTCAAGGGTTGAAATA
Found at i:35933 original size:3 final size:3
Alignment explanation
Indices: 35927--35968 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
35917 TTAAACCTAT
35927 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35969 AACCTATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36721 original size:6 final size:6
Alignment explanation
Indices: 36705--36772 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
36695 CCATTTCAAA
* *
36705 TTAAA- TTAAAT TTAAAT TTAAAT TTACGA- -TAAAT TTAAAT TTAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT
* *
36751 ATAAAT TTAAAC TT-AAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAA
36773 ATCAAAAGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
4 1 0.02
5 11 0.22
6 37 0.74
7 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:43620 original size:96 final size:96
Alignment explanation
Indices: 43436--43627 Score: 223
Period size: 96 Copynumber: 2.0 Consensus size: 96
43426 TTTTTGGGAA
* * * *
43436 AAGGATATTCGATTATCCCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATATTTCA
1 AAGGATATTCGATTATCCCAATTTGAAGAAAGATTACACCTAGTAAGTTAAGGCACAATATTTCA
*
43501 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 GAATCGAAGATAAAGAAACATTGCCTCGATT
* **
43532 AAGGGTATTCGATTATTTCAATTTGAAGGAAA-ATTACACCTAGTAAGTTAAGGCACAA-ATTTT
1 AAGGATATTCGATTATCCCAATTTGAA-GAAAGATTACACCTAGTAAGTTAAGGCACAATA-TTT
*
43595 C-GAAACTCGAA-ATAAA-AGAATATTGCCTCGATT
64 CAG-AA-TCGAAGATAAAGA-AACATTGCCTCGATT
43628 TTAAAGTTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
95 3 0.04
96 70 0.85
97 9 0.11
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCCCAATTTGAAGAAAGATTACACCTAGTAAGTTAAGGCACAATATTTCA
GAATCGAAGATAAAGAAACATTGCCTCGATT
Found at i:43939 original size:29 final size:28
Alignment explanation
Indices: 43908--44249 Score: 245
Period size: 29 Copynumber: 11.8 Consensus size: 28
43898 TTTGGGAAAA
*
43908 TTCGGGGTTAAAAATGGAATTTTTAGATA-
1 TTCGGGG-TAAAAATGGAATTTTTGGA-AG
43937 TTCAGGGGTAAAAA-GGTAA-TTTT-GAGAG
1 TTC-GGGGTAAAAATGG-AATTTTTGGA-AG
** * * *
43965 TTTCAAGG-AAAAAAGGATTTTTTGAAAG
1 -TTCGGGGTAAAAATGGAATTTTTGGAAG
* *
43993 TTTTGGGGTCAAAAATGGAATCTTTGGAAG
1 -TTCGGGGT-AAAAATGGAATTTTTGGAAG
*
44023 TTTGGGGGTAAAAA-GGTAA-TTTT-GAGAG
1 -TTCGGGGTAAAAATGG-AATTTTTGGA-AG
* * * * *
44051 TTTTGAGGTCTAGAATGGAGA-TTTTGGAGG
1 -TTCGGGGT-AAAAATGGA-ATTTTTGGAAG
44081 TTCGGGAGTAAAAATGGAATTTTTGGAAG
1 TTCGGG-GTAAAAATGGAATTTTTGGAAG
*
44110 TTTTGGGGTCAAAAATGGAATTTTTGGAAG
1 -TTCGGGGT-AAAAATGGAATTTTTGGAAG
*
44140 TTCGAGGGTAAAAATAGAATTTTTGGAAG
1 TTCG-GGGTAAAAATGGAATTTTTGGAAG
* *
44169 TTTCGAGGTTAAAAAT-GAATTTTTGAAAG
1 -TTCG-GGGTAAAAATGGAATTTTTGGAAG
44198 TTCGGGGGTAAAAATGGAATTTTTGGAAG
1 TTC-GGGGTAAAAATGGAATTTTTGGAAG
*
44227 TTTGAGGGTAAAAATGGAATTTT
1 TTCG-GGGTAAAAATGGAATTTT
44250 CAAACAATTT
Statistics
Matches: 257, Mismatches: 32, Indels: 48
0.76 0.09 0.14
Matches are distributed among these distances:
27 11 0.04
28 49 0.19
29 114 0.44
30 81 0.32
31 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (28 bp):
TTCGGGGTAAAAATGGAATTTTTGGAAG
Found at i:44036 original size:58 final size:59
Alignment explanation
Indices: 43973--44249 Score: 325
Period size: 58 Copynumber: 4.7 Consensus size: 59
43963 AGTTTCAAGG
* * * * *
43973 AAAAAAGGATTTTTTGAAAGTTTTGGGGTCAAAAATGGAATCTTTGGAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGT
* * * * *
44032 AAAAA-GGTAA-TTTT-GAGAGTTTTGAGGTCTAGAATGGAGA-TTTTGGAGGTTCGGGAGT
1 AAAAATGG-AATTTTTGGA-AGTTTTGGGGTCAAAAATGGA-ATTTTTGGAAGTTCGGGGGT
*
44090 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGT
* * * * *
44149 AAAAATAGAATTTTTGGAAGTTTCGAGGTTAAAAAT-GAATTTTTGAAAGTTCGGGGGT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGT
44207 AAAAATGGAATTTTTGGAAG-TTTGAGGGT-AAAAATGGAATTTT
1 AAAAATGGAATTTTTGGAAGTTTTG-GGGTCAAAAATGGAATTTT
44250 CAAACAATTT
Statistics
Matches: 185, Mismatches: 24, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
57 10 0.05
58 95 0.51
59 78 0.42
60 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGT
Found at i:44104 original size:117 final size:117
Alignment explanation
Indices: 43973--44246 Score: 337
Period size: 117 Copynumber: 2.4 Consensus size: 117
43963 AGTTTCAAGG
* * * * *
43973 AAAAAAGGATTTTTTGAAAGTTTTGGGGTCAAAAATGGAATCTTTGGAAGTTTGGGGGTAAAAA-
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAAAT
* * * * *
44037 GGTAA-TTTT-GAGAGTTTTGAGGTCT-AGAATGGAGA-TTTTGGAGGTTCGGGAGT
66 AG-AATTTTTGGA-AGTTTCGAGGT-TAAAAAT-GA-ATTTTTGAAAGTTCGGGAGT
*
44090 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAAT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAAAT
*
44155 AGAATTTTTGGAAGTTTCGAGGTTAAAAATGAATTTTTGAAAGTTCGGGGGT
66 AGAATTTTTGGAAGTTTCGAGGTTAAAAATGAATTTTTGAAAGTTCGGGAGT
44207 AAAAATGGAATTTTTGGAAG-TTTGAGGGT-AAAAATGGAAT
1 AAAAATGGAATTTTTGGAAGTTTTG-GGGTCAAAAATGGAAT
44247 TTTCAAACAA
Statistics
Matches: 139, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
116 16 0.12
117 102 0.73
118 19 0.14
119 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (117 bp):
AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAAAT
AGAATTTTTGGAAGTTTCGAGGTTAAAAATGAATTTTTGAAAGTTCGGGAGT
Found at i:44162 original size:87 final size:87
Alignment explanation
Indices: 43998--44249 Score: 284
Period size: 87 Copynumber: 2.9 Consensus size: 87
43988 GAAAGTTTTG
*
43998 GGGTCAAAAATGGAATCTTTGGAAGTTTGGGGGTAAAAA-GGTAA-TTTT-GAGAGTTTTGA-GG
1 GGGT-AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGG-AATTTTTGGA-AG-TTTGAGGG
* *
44059 TCTAGAATGGAGATTTTGG-AGGTTCG-
62 T-AAAAATGGA-ATTTTGGAAGGTTCGA
* *
44085 GGAGTAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTA
1 GG-GTAAAAATGGAATTTTTGGAAGTTTGGGGGT-AAAAATGGAATTTTTGGAAGTTTGAGGGTA
* *
44150 AAAATAGAATTTTTGGAAGTTTCGA
64 AAAATGGAA-TTTTGGAAGGTTCGA
* * *
44175 GGTTAAAAAT-GAATTTTTGAAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTAAA
1 GGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTAAA
44239 AATGGAATTTT
66 AATGGAATTTT
44250 CAAACAATTT
Statistics
Matches: 143, Mismatches: 13, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
86 4 0.03
87 67 0.47
88 44 0.31
89 24 0.17
90 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (87 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTAAA
AATGGAATTTTGGAAGGTTCGA
Found at i:45331 original size:12 final size:12
Alignment explanation
Indices: 45314--45367 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
45304 TTAATGTTTT
*
45314 TTATTATTACTA
1 TTATTATTAATA
45326 TTATTATTAATA
1 TTATTATTAATA
* *
45338 TTATTAATAGCACA
1 TTATTATTA--ATA
45352 TTTATTATTAATA
1 -TTATTATTAATA
45365 TTA
1 TTA
45368 ACAAACATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 22 0.65
13 2 0.06
14 2 0.06
15 8 0.24
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:46067 original size:6 final size:6
Alignment explanation
Indices: 46051--46104 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
46041 ATATTTATAA
* * * *
46051 TAAATTT TAAATT TAAATA TAAATC TAAATT TAAATT TAAA-A CAAATT
1 TAAA-TT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
46099 TAAATT
1 TAAATT
46105 CAAAATCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
5 3 0.08
6 32 0.82
7 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:46079 original size:18 final size:18
Alignment explanation
Indices: 46058--46103 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
46048 TAATAAATTT
*
46058 TAAATTTAAATATAAATC
1 TAAATTTAAATATAAAAC
*
46076 TAAATTTAAATTTAAAAC
1 TAAATTTAAATATAAAAC
46094 -AAATTTAAAT
1 TAAATTTAAAT
46104 TCAAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATTTAAATATAAAAC
Found at i:46099 original size:17 final size:17
Alignment explanation
Indices: 46059--46137 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
46049 AATAAATTTT
* *
46059 AAATTTAAATATAAATC
1 AAATTTAAATTTAAAAC
46076 TAAATTTAAATTTAAAAC
1 -AAATTTAAATTTAAAAC
*
46094 AAATTTAAATTCAAAATC
1 AAATTTAAATTTAAAA-C
*
46112 -AATTT-AATCTTAAAAT
1 AAATTTAAAT-TTAAAAC
46128 AAATCTTAAA
1 AAAT-TTAAA
46138 ATGGGTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.06
17 28 0.55
18 18 0.35
19 2 0.04
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTTAAATTTAAAAC
Found at i:46832 original size:200 final size:200
Alignment explanation
Indices: 46473--47070 Score: 863
Period size: 200 Copynumber: 3.0 Consensus size: 200
46463 TTTCATTGAC
* ** ** * * ** * *
46473 TTGGCATTCTTCTCAATATCTCATCAGGAAGACGACTGCATCACTTGTTTTGATCCACTTCTCTA
1 TTGGTATTCTTCTCTGTATCTCATCAGGAAGATAACCGCCTCACTTGTTTCAATCCGCTTCTCTG
* * ** * * * * * * *
46538 TGTTTCCTCAAGAAGACGGATTTGGTTCAGTTCTCTGTATCTCATCAAGAAGCTAACCTTTTTAT
66 TATCTAATCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTAT
* *
46603 TGCTTCGTCCTGCTTCTTAGTATCTCATCAGGAAGCTGGGGTCGAAGATTTGCTCGCATTGAGCC
131 TGCTTCGTTCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTCGAAGATTTGCTCGCATTGAGCC
46668 TCGAG
196 TCGAG
* *
46673 TTGGTATTTTTCTCTGTATCTCATCAGGAAGATAACCGCCTCACTTGTTTCAATCCGCTTTTCTG
1 TTGGTATTCTTCTCTGTATCTCATCAGGAAGATAACCGCCTCACTTGTTTCAATCCGCTTCTCTG
* * *
46738 TATCTCATTAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCAGCAGGAAGCTAACCTTTTTAT
66 TATCTAATCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTAT
46803 TGCTTCGTTCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTCGAAGATTTGCTCGCATTGAGCC
131 TGCTTCGTTCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTCGAAGATTTGCTCGCATTGAGCC
46868 TCGAG
196 TCGAG
* * *
46873 TTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGTCTCACTTGTTTCAATCCGCTTCTCTG
1 TTGGTATTCTTCTCTGTATCTCATCAGGAAGATAACCGCCTCACTTGTTTCAATCCGCTTCTCTG
46938 TATCTAATCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTAT
66 TATCTAATCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTAT
* * * * *
47003 TGTTTCGTTTTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTCGAAGATTTGTTCGCTTTGAGCC
131 TGCTTCGTTCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTCGAAGATTTGCTCGCATTGAGCC
47068 TCG
196 TCG
47071 TTCCATTGAT
Statistics
Matches: 358, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
200 358 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (200 bp):
TTGGTATTCTTCTCTGTATCTCATCAGGAAGATAACCGCCTCACTTGTTTCAATCCGCTTCTCTG
TATCTAATCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTAT
TGCTTCGTTCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTCGAAGATTTGCTCGCATTGAGCC
TCGAG
Found at i:58087 original size:3 final size:3
Alignment explanation
Indices: 58034--58072 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
58024 ATTTACTAAA
58034 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
58073 GCACATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:58814 original size:29 final size:30
Alignment explanation
Indices: 58780--58861 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 30
58770 TATAATAAGT
*
58780 TTTAAATTTAAATTTAAATATAAATCTAAA
1 TTTAAATTTAAATTTAAATACAAATCTAAA
*
58810 -TTAAATTTAAATTTTAAA-ACAAATTTAAA
1 TTTAAATTTAAA-TTTAAATACAAATCTAAA
* *
58839 TTTAAA-ATAAATTTAAATTCAAA
1 TTTAAATTTAAATTTAAATACAAA
58862 ATCAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 6 0.13
29 28 0.62
30 11 0.24
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATACAAATCTAAA
Found at i:58819 original size:35 final size:34
Alignment explanation
Indices: 58780--58890 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 34
58770 TATAATAAGT
** *
58780 TTTAAATTTAAATTTAAATATAAATCTAAATTAAA
1 TTTAAATTTAAA-ACAAATATAAATCTAAAATAAA
* *
58815 TTTAAATTTTAAAACAAATTTAAATTTAAAATAAA
1 TTTAAA-TTTAAAACAAATATAAATCTAAAATAAA
* *
58850 TTTAAATTCAAAATC-AAT-TTAATCTTAAAATAAA
1 TTTAAATTTAAAA-CAAATATAAATC-TAAAATAAA
58884 TCTTAAA
1 T-TTAAA
58891 ATGAGTTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
33 4 0.06
34 19 0.30
35 35 0.55
36 6 0.09
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (34 bp):
TTTAAATTTAAAACAAATATAAATCTAAAATAAA
Found at i:58844 original size:17 final size:17
Alignment explanation
Indices: 58780--58890 Score: 116
Period size: 17 Copynumber: 6.4 Consensus size: 17
58770 TATAATAAGT
*
58780 TTTAAATTTAAATTTAAA
1 TTTAAATTTAAA-ATAAA
* * *
58798 TATAAATCTAAATTAAA
1 TTTAAATTTAAAATAAA
*
58815 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
58833 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
58850 TTTAAATTCAAAATCAA
1 TTTAAATTTAAAATAAA
58867 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
58884 TCTTAAA
1 T-TTAAA
58891 ATGAGTTTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.04
17 47 0.60
18 26 0.33
19 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:58846 original size:7 final size:6
Alignment explanation
Indices: 58780--58857 Score: 81
Period size: 6 Copynumber: 13.3 Consensus size: 6
58770 TATAATAAGT
* *
58780 TTTAAA TTTAAA TTTAAA TATAAA TCTAAA -TTAAA TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** *
58828 -ACAAA TTTAAA TTTAAA -ATAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
58858 CAAAATCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
5 11 0.19
6 42 0.71
7 6 0.10
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:74693 original size:20 final size:20
Alignment explanation
Indices: 74664--74708 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
74654 TTATTTTTCA
*
74664 ATAAACATACATACAAAATT
1 ATAAAAATACATACAAAATT
*
74684 ATAAAAATACATATAAAATT
1 ATAAAAATACATACAAAATT
74704 ATAAA
1 ATAAA
74709 TAAATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAAATACATACAAAATT
Found at i:78711 original size:29 final size:29
Alignment explanation
Indices: 78670--78861 Score: 120
Period size: 30 Copynumber: 6.5 Consensus size: 29
78660 TTTATTTAAA
* *
78670 AAAAATTATATTTTGACCCTAAATTTCTC
1 AAAAATTACATTTTAACCCTAAATTTCTC
* *
78699 AAAAATCACATTTTAACTCTTAAATTT-TC
1 AAAAATTACATTTTAAC-CCTAAATTTCTC
* * * * * *
78728 CATAATTACGTTTTGACCCATGAACTTCTC
1 AAAAATTACATTTTAACCC-TAAATTTCTC
* *
78758 AAAAATCACATTTTAACCCTTAAATTTTTC
1 AAAAATTACATTTTAACCC-TAAATTTCTC
* * **
78788 CAAAATTACAATTTTACCCCTAAAACATC-C
1 AAAAATTAC-ATTTTAACCCT-AAATTTCTC
* * *
78818 AAAAATTAAAAATTTAACCCAAAACTTT-TC
1 AAAAATT-ACATTTTAACCCTAAA-TTTCTC
*
78848 CAAAATTACATTTT
1 AAAAATTACATTTT
78862 TTTCCTCTGA
Statistics
Matches: 118, Mismatches: 37, Indels: 16
0.69 0.22 0.09
Matches are distributed among these distances:
28 1 0.01
29 41 0.35
30 62 0.53
31 14 0.12
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCTAAATTTCTC
Found at i:78766 original size:59 final size:59
Alignment explanation
Indices: 78671--78861 Score: 183
Period size: 60 Copynumber: 3.2 Consensus size: 59
78661 TTATTTAAAA
** * *
78671 AAAATTATATTTTGACCCTAAATTTCTCAAAAATCACATTTTAACTCTTAAA-TTTTCC
1 AAAATTACGTTTTGACCCTAAACTTCTCAAAAATCACATTTTAACCCTTAAATTTTTCC
* *
78729 ATAATTACGTTTTGACCCATGAACTTCTCAAAAATCACATTTTAACCCTTAAATTTTTCC
1 AAAATTACGTTTTGACCC-TAAACTTCTCAAAAATCACATTTTAACCCTTAAATTTTTCC
* * * * * * *
78789 AAAATTACAATTTT-ACCCCTAAAACATC-CAAAAATTAAAAATTTAACCC-AAAACTTTTCC
1 AAAATTAC-GTTTTGA-CCCT-AAACTTCTCAAAAA-TCACATTTTAACCCTTAAATTTTTCC
*
78849 AAAATTACATTTT
1 AAAATTACGTTTT
78862 TTTCCTCTGA
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
58 15 0.13
59 36 0.32
60 38 0.34
61 23 0.21
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATTACGTTTTGACCCTAAACTTCTCAAAAATCACATTTTAACCCTTAAATTTTTCC
Found at i:78968 original size:59 final size:60
Alignment explanation
Indices: 78905--79043 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 60
78895 CCCGAGCATG
* * * * *
78905 CAAAAAATACCATTTTTGACCCTGAAC-ATTCAAATATTACCATTTTGCCCTCAAAAATT
1 CAAAAATTACCATTTTTGACCCTGAACTATTCAAAGATCACCATTTAGCCCTCAAAAATC
* * * * *
78964 CAAAAATTACCA-TTTTGACCCCGAACTTTTCCAAGATCACCATTTAGCCCTCGAACATC
1 CAAAAATTACCATTTTTGACCCTGAACTATTCAAAGATCACCATTTAGCCCTCAAAAATC
79023 CAAAAATTACC-TTTTTG-CCCT
1 CAAAAATTACCATTTTTGACCCT
79044 CAAATTTATA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
58 16 0.24
59 51 0.76
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (60 bp):
CAAAAATTACCATTTTTGACCCTGAACTATTCAAAGATCACCATTTAGCCCTCAAAAATC
Found at i:79043 original size:29 final size:29
Alignment explanation
Indices: 78865--79044 Score: 134
Period size: 29 Copynumber: 6.1 Consensus size: 29
78855 ACATTTTTTT
* *
78865 CCTCTGAACAT-CTAAAATTAACATTTTGC
1 CCTC-GAACATCCAAAAATTACCATTTTGC
* * * *
78894 CCCCGAGCATGCAAAAAATACCATTTTTGAC
1 CCTCGAACATCCAAAAATTACCA-TTTTG-C
* *
78925 CCT-GAACATTCAAATATTACCATTTTGC
1 CCTCGAACATCCAAAAATTACCATTTTGC
* * *
78953 CCTCAAAAATTCAAAAATTACCATTTTGAC
1 CCTCGAACATCCAAAAATTACCATTTTG-C
* * * *
78983 CC-CGAACTTTTCC-AAGATCACCATTTAGC
1 CCTCGAAC--ATCCAAAAATTACCATTTTGC
*
79012 CCTCGAACATCCAAAAATTACCTTTTTGC
1 CCTCGAACATCCAAAAATTACCATTTTGC
79041 CCTC
1 CCTC
79045 AAATTTATAA
Statistics
Matches: 117, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
28 12 0.10
29 60 0.51
30 40 0.34
31 5 0.04
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.30
Consensus pattern (29 bp):
CCTCGAACATCCAAAAATTACCATTTTGC
Found at i:79056 original size:29 final size:29
Alignment explanation
Indices: 79024--79079 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
79014 TCGAACATCC
* * *
79024 AAAAATTACCTTTTTGCCCTCAAATTTAT
1 AAAAATCACATTTTTGACCTCAAATTTAT
*
79053 AAAAATCACATTTTTTACCTCAAATTT
1 AAAAATCACATTTTTGACCTCAAATTT
79080 TCCAAAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAAATCACATTTTTGACCTCAAATTTAT
Found at i:81050 original size:4 final size:4
Alignment explanation
Indices: 81023--81071 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
81013 TCTAAACCCC
* * * *
81023 ATAT ATAG ATAG ATAG ATAG ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
81071 A
1 A
81072 GAGAGAGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (4 bp):
ATAT
Found at i:81076 original size:2 final size:2
Alignment explanation
Indices: 81071--81096 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
81061 ATATATATAT
81071 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
81097 GATGGATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:81867 original size:5 final size:5
Alignment explanation
Indices: 81857--81881 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
81847 TTTATACTAT
81857 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
81882 AACTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:81910 original size:15 final size:15
Alignment explanation
Indices: 81856--81910 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
81846 CTTTATACTA
*
81856 TTTTTATTTTAT-TT
1 TTTTTATTTTATAAT
*
81870 TATTTTATTTTA-AAC
1 T-TTTTATTTTATAAT
*
81885 TTTGT-TTTTATAAT
1 TTTTTATTTTATAAT
81899 TTTTTATTTTAT
1 TTTTTATTTTAT
81911 TTTACATGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 17 0.53
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTATAAT
Found at i:82987 original size:2 final size:2
Alignment explanation
Indices: 82974--83015 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
82964 TTATTAAGGA
* *
82974 AT AT AC AT AT AT AT AT AT AT AC 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 AT AT AT AT AT
83016 GATGAGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:83251 original size:2 final size:2
Alignment explanation
Indices: 83244--83269 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83234 TCAAAGCCAT
83244 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
83270 AAATTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:85018 original size:20 final size:23
Alignment explanation
Indices: 84986--85053 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 23
84976 AATCTTTAAA
84986 GATATG-AAATCTTAAAAGATTT
1 GATATGTAAATCTTAAAAGATTT
*
85008 G-T-TGT-AATCTTAGAAGATTT
1 GATATGTAAATCTTAAAAGATTT
85028 GATTATGTAAATCTT-AAAGATTT
1 GA-TATGTAAATCTTAAAAGATTT
85051 GAT
1 GAT
85054 TTTGTAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 17 0.44
21 1 0.03
22 3 0.08
23 12 0.31
24 6 0.15
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.41
Consensus pattern (23 bp):
GATATGTAAATCTTAAAAGATTT
Found at i:85047 original size:23 final size:23
Alignment explanation
Indices: 84988--85059 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
84978 TCTTTAAAGA
84988 TATG-AAATCTTAAAAGATTTG--
1 TATGTAAATCTT-AAAGATTTGAT
85009 T-TGT-AATCTTAGAAGATTTGAT
1 TATGTAAATCTTA-AAGATTTGAT
85031 TATGTAAATCTTAAAGATTTGAT
1 TATGTAAATCTTAAAGATTTGAT
*
85054 TTTGTA
1 TATGTA
85060 GATTGCTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.02
20 16 0.36
21 1 0.02
22 1 0.02
23 18 0.41
24 7 0.16
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.44
Consensus pattern (23 bp):
TATGTAAATCTTAAAGATTTGAT
Found at i:89487 original size:86 final size:86
Alignment explanation
Indices: 89258--89477 Score: 309
Period size: 86 Copynumber: 2.6 Consensus size: 86
89248 ATAATTATAA
* * *
89258 TAAAATAAAAATGATCC-GATTCGAGGTCCGACTCGGGATTCGATCCGACATAATAAAAGAAAAC
1 TAAAATAAAAATGA-CCTGATTCGAGGTCCGACTCGAGATCCGACCCGACATAATAAAAGAAAAC
*
89322 CCTAAATTCCAAAGTAGGGGCT
65 CCTAAATTCCAAAGTAGGGGCC
* * * * * *
89344 TAAAATAAAAATGACTTGATTCGAGGTCCAACTCGAGATCTGTCTCGACATAATAAAA-AGAACC
1 TAAAATAAAAATGACCTGATTCGAGGTCCGACTCGAGATCCGACCCGACATAATAAAAGAAAACC
89408 CTAAATTCCCAAAGTAGGGGCC
66 CTAAATT-CCAAAGTAGGGGCC
*
89430 TAAAATAAAAATGACCTGATTCGAGGTCCGACTCGAAATCCGACCCGA
1 TAAAATAAAAATGACCTGATTCGAGGTCCGACTCGAGATCCGACCCGA
89478 AATCCTAAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
85 13 0.11
86 103 0.89
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (86 bp):
TAAAATAAAAATGACCTGATTCGAGGTCCGACTCGAGATCCGACCCGACATAATAAAAGAAAACC
CTAAATTCCAAAGTAGGGGCC
Found at i:89749 original size:17 final size:17
Alignment explanation
Indices: 89727--89770 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
89717 AAGTTATAAC
89727 AAATTA-TAAAAATATA
1 AAATTATTAAAAATATA
89743 TAAATTATTTAAAAATATA
1 -AAATTA-TTAAAAATATA
89762 AAA-TATTAA
1 AAATTATTAA
89771 TGTTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.16
17 8 0.32
18 3 0.12
19 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTATTAAAAATATA
Found at i:90275 original size:38 final size:38
Alignment explanation
Indices: 90226--90337 Score: 115
Period size: 38 Copynumber: 2.9 Consensus size: 38
90216 ATTGTCTCTA
*
90226 TTTTTTT-AGTTTTAT-AATTTTATAATTTATTATATT
1 TTTTTTTAAGTTTTATAAATTTTATAATTTATTATATG
*
90262 TTTTTTATAAGTTTTATAAAATTTTAATAATTT-TAATATG
1 TTTTTT-TAAGTTTTAT-AAATTTT-ATAATTTATTATATG
* **
90302 TTTTATTAA-TTTTATAAAAAATTATAATTTATTATA
1 TTTTTTTAAGTTTTAT-AAATTTTATAATTTATTATA
90338 AAATTTAATC
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
36 6 0.09
37 8 0.12
38 24 0.38
39 3 0.05
40 16 0.25
41 7 0.11
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (38 bp):
TTTTTTTAAGTTTTATAAATTTTATAATTTATTATATG
Found at i:90276 original size:9 final size:8
Alignment explanation
Indices: 90235--90318 Score: 50
Period size: 9 Copynumber: 10.0 Consensus size: 8
90225 ATTTTTTTAG
90235 TTTTATAA
1 TTTTATAA
90243 TTTTATAA
1 TTTTATAA
*
90251 -TTTATTA
1 TTTTATAA
90258 TATTT-T--
1 T-TTTATAA
90264 TTTTATAA
1 TTTTATAA
90272 GTTTTATAAAA
1 -TTTTAT--AA
90283 TTTTAATAA
1 TTTT-ATAA
*
90292 TTTTAATATG
1 TTTT-ATA-A
90302 TTTTATTAA
1 TTTTA-TAA
90311 TTTTATAA
1 TTTTATAA
90319 AAAATTATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 22
0.71 0.03 0.25
Matches are distributed among these distances:
5 3 0.05
6 2 0.03
7 6 0.10
8 12 0.19
9 25 0.40
10 10 0.16
11 4 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:90295 original size:19 final size:20
Alignment explanation
Indices: 90263--90343 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 20
90253 TATTATATTT
*
90263 TTTTTATAAGTTTTATAAAA
1 TTTTAATAAGTTTTATAAAA
**
90283 TTTTAATAA-TTTTA-ATATG
1 TTTTAATAAGTTTTATA-AAA
*
90302 TTTTATTAA-TTTTATAAAA
1 TTTTAATAAGTTTTATAAAA
** *
90321 AATT-ATAATTTATTATAAAA
1 TTTTAATAAGTT-TTATAAAA
90341 TTT
1 TTT
90344 AATCATATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 4 0.09
19 24 0.52
20 18 0.39
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTAATAAGTTTTATAAAA
Found at i:96293 original size:104 final size:104
Alignment explanation
Indices: 96021--96329 Score: 581
Period size: 104 Copynumber: 3.0 Consensus size: 104
96011 TTACACCTTG
96021 CAAAATGTATAGGTTGCCAACTTTCTCCCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
1 CAAAATGTATAGGTTGCCAACTTTCTCCCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
*
96086 AGTTTTTTAACTTAATAACGATCTTGCA---ACTCGAGT
66 AGTTTTTTGACTTAATAACGATCTTGCACCCACTCGAGT
96122 CAAAATGTATAGGTTGCCAACTTTCT-CCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
1 CAAAATGTATAGGTTGCCAACTTTCTCCCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
96186 AGTTTTTTGACTTAATAACGATCTTGCACCCACTCGAGT
66 AGTTTTTTGACTTAATAACGATCTTGCACCCACTCGAGT
96225 CAAAATGTATAGGTTGCCAACTTTCTCCCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
1 CAAAATGTATAGGTTGCCAACTTTCTCCCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
96290 AGTTTTTTGACTTAATAACGATCTTGCACCCACTCGAGT
66 AGTTTTTTGACTTAATAACGATCTTGCACCCACTCGAGT
96329 C
1 C
96330 TAGAATACCC
Statistics
Matches: 203, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
100 65 0.32
101 26 0.13
103 34 0.17
104 78 0.38
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (104 bp):
CAAAATGTATAGGTTGCCAACTTTCTCCCCTTTCATAAATAAAAGGGCTCCACGAGACACCTTTA
AGTTTTTTGACTTAATAACGATCTTGCACCCACTCGAGT
Found at i:96465 original size:17 final size:17
Alignment explanation
Indices: 96437--96509 Score: 103
Period size: 17 Copynumber: 4.4 Consensus size: 17
96427 TTGGAAATTG
96437 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
96453 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
96470 AATTTATTTGAAATTTA
1 AATTTATTTTAAATTTA
* *
96487 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
96504 AATTTA
1 AATTTA
96510 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
16 5 0.10
17 45 0.90
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:96485 original size:7 final size:6
Alignment explanation
Indices: 96442--96509 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
96432 AATTGAATTT
* *
96442 ATTTAA ATTTAA GTTT-A TTTTAA ATTTAA ATTT-- ATTTGAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA
*
96488 ATTT-- ATTATAA AATTAA ATTTA
1 ATTTAA ATT-TAA ATTTAA ATTTA
96510 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
4 7 0.14
5 5 0.10
6 32 0.64
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:96529 original size:13 final size:13
Alignment explanation
Indices: 96511--96535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96501 TTAAATTTAG
96511 AAAGTCCAATTAA
1 AAAGTCCAATTAA
96524 AAAGTCCAATTA
1 AAAGTCCAATTA
96536 CAAATGACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAGTCCAATTAA
Found at i:96549 original size:15 final size:15
Alignment explanation
Indices: 96529--96584 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
96519 ATTAAAAAGT
*
96529 CCAATTACAAATGAC
1 CCAATTACAAATGGC
*
96544 CCAATTACAGATGGC
1 CCAATTACAAATGGC
96559 CCGAA-TACAAATGGC
1 CC-AATTACAAATGGC
96574 CCAATTACAAA
1 CCAATTACAAA
96585 CTACCCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (15 bp):
CCAATTACAAATGGC
Found at i:97212 original size:7 final size:7
Alignment explanation
Indices: 97200--97224 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
97190 TATTAATAAT
97200 ATTATTA
1 ATTATTA
97207 ATTATTA
1 ATTATTA
97214 ATTATTA
1 ATTATTA
97221 ATTA
1 ATTA
97225 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTATTA
Found at i:98478 original size:59 final size:59
Alignment explanation
Indices: 98375--98841 Score: 663
Period size: 59 Copynumber: 7.9 Consensus size: 59
98365 GGAGGTCCTT
*
98375 AAACTTTCCAAAAATTACCA-TTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
1 AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCC
* *
98433 AAACTTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCT
1 AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCC
* * *
98492 AAACTTTCCAAAAATTACCATTTTACCCCCGAACTCCCAAAAATCCCATTTTTGACCCA
1 AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCC
* *
98551 AAACTTTCCAAAAATTACCATTTTACCCTTAAAC-TCCAAAAAATCCCATTTTTGACCCC
1 AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCC-AAAAATCCCATTTTTGACCCC
* * * * * * **
98610 GAACCTTCTAAAAATTACCATTTTA-CCCTCGAATTTCCAAAAATCTCATTTTTGAACAT
1 AAACTTTCCAAAAATTACCATTTTACCCCT-GAACTTCCAAAAATCCCATTTTTGACCCC
*
98669 AAACTTTCCAAAAATTACCATTTTACCCCTCGAACTTCCACAAATCCCATTTTTGACCCC
1 AAACTTTCCAAAAATTACCATTTTACCCCT-GAACTTCCAAAAATCCCATTTTTGACCCC
* * * * *
98729 GAACCTTCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGATCCG
1 AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCC
* *
98788 AACCTTT-CAAAAATTACCATTTTACCCTTGAACTTCCAAAAATCCCATTTTTGA
1 AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGA
98842 TTACGAAACT
Statistics
Matches: 362, Mismatches: 42, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
58 70 0.19
59 234 0.65
60 58 0.16
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (59 bp):
AAACTTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCC
Found at i:98854 original size:30 final size:29
Alignment explanation
Indices: 98405--98868 Score: 103
Period size: 30 Copynumber: 15.7 Consensus size: 29
98395 TTTACCCCCG
* ** *
98405 AACTTCCAAAAATCCCATTTTTGACCCCA
1 AACTTCCAAAAATACCATTTTTGATTCGA
** *
98434 AACTTTCCAAAAATTACCA-TTTT-ACCCCTA
1 AAC-TTCCAAAAA-TACCATTTTTGA-TTCGA
* ** *
98464 AACTTCCAAAAATCCCATTTTTGACCCTA
1 AACTTCCAAAAATACCATTTTTGATTCGA
*****
98493 AACTTTCCAAAAATTACCATTTTACCCCCG-
1 AAC-TTCCAAAAA-TACCATTTTTGATTCGA
* * ** *
98523 AACTCCCAAAAATCCCATTTTTGACCCAA
1 AACTTCCAAAAATACCATTTTTGATTCGA
** *
98552 AACTTTCCAAAAATTACCA-TTTT-ACCCTTA
1 AAC-TTCCAAAAA-TACCATTTTTGATTC-GA
* **
98582 AAC-TCCAAAAAATCCCATTTTTGACCCCGA
1 AACTTCC-AAAAATACCATTTTTGA-TTCGA
* * ****
98612 ACCTTCTAAAAATTACCATTTTACCCTCG-
1 AACTTCCAAAAA-TACCATTTTTGATTCGA
* * *
98641 AATTTCCAAAAAT-CTCATTTTTGA-ACATA
1 AACTTCCAAAAATAC-CATTTTTGATTC-GA
****
98670 AACTTTCCAAAAATTACCATTTTACCCCTCG-
1 AAC-TTCCAAAAA-TACCATTTT-TGATTCGA
* * **
98701 AACTTCCACAAATCCCATTTTTGACCCCGA
1 AACTTCCAAAAATACCATTTTTGA-TTCGA
* * **
98731 ACCTTCTAAAAATTACCA-TTTT-ACCCCTG-
1 AACTTCCAAAAA-TACCATTTTTGA-TTC-GA
* *
98760 AACTTCCAAAAATCCCATTTTTGATCCGA
1 AACTTCCAAAAATACCATTTTTGATTCGA
* * ***
98789 ACCTTTCAAAAATTACCATTTTACCCTT-G-
1 AACTTCCAAAAA-TACCATTTT-TGATTCGA
*
98818 AACTTCCAAAAATCCCATTTTTGATTACGA
1 AACTTCCAAAAATACCATTTTTGATT-CGA
*
98848 AACTTCCAAAACTACCATTTT
1 AACTTCCAAAAATACCATTTT
98869 GCCCCCCTGT
Statistics
Matches: 329, Mismatches: 69, Indels: 73
0.70 0.15 0.15
Matches are distributed among these distances:
27 4 0.01
28 42 0.13
29 113 0.34
30 121 0.37
31 47 0.14
32 1 0.00
33 1 0.00
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATACCATTTTTGATTCGA
Found at i:99792 original size:26 final size:28
Alignment explanation
Indices: 99739--99800 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
99729 CGACAAGTTT
*
99739 TAGAACGTGTCTTGAAAAACTATATATA
1 TAGAACGTGTCTTAAAAAACTATATATA
*
99767 TAGAACGTGTTTTAAAAAAC-ATTATATA
1 TAGAACGTGTCTTAAAAAACTA-TATATA
99795 TAGAAC
1 TAGAAC
99801 CCGTATATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (28 bp):
TAGAACGTGTCTTAAAAAACTATATATA
Found at i:102122 original size:30 final size:32
Alignment explanation
Indices: 102065--102123 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
102055 TCTTCTTAAA
*
102065 ATTTAATCCTTTTTATTTTTTTATTATTATCT
1 ATTTAATCCTTTTTATTTATTTATTATTATCT
102097 ATTTAA-CC-TTTTATTTAATTT-TTATTA
1 ATTTAATCCTTTTTATTT-ATTTATTATTA
102124 ATTTTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 14 0.56
31 5 0.20
32 6 0.24
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.66
Consensus pattern (32 bp):
ATTTAATCCTTTTTATTTATTTATTATTATCT
Found at i:102194 original size:17 final size:18
Alignment explanation
Indices: 102154--102203 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
102144 TCAACTCTTT
102154 TTTTTATTCTATATTGTA
1 TTTTTATTCTATATTGTA
*
102172 TATTTATT-TAT-TTAGTA
1 TTTTTATTCTATATT-GTA
102189 TTTTTACTTCT-TATT
1 TTTTTA-TTCTATATT
102204 CAATCACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 10 0.38
19 3 0.12
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTATTCTATATTGTA
Found at i:102655 original size:109 final size:108
Alignment explanation
Indices: 102447--102737 Score: 404
Period size: 109 Copynumber: 2.7 Consensus size: 108
102437 AAGGGAGGCA
* * * ** **
102447 ATATTATTTTATTTCAAGGAATTCAAAAAATTGTGCTCAAACACACTGGGTATGTTTTTTTTCTT
1 ATATTATTTTATTT-AGGGAATTCGAGAAATTGTGCTCAAACGTACT-GGTAT-AATTTTTTCTT
* *
102512 TG-ACCTAAATAATCAAGTATCCTATTTAAAATCAATAAATGTTCG
63 TGAACCTAAATAATCAAGTATACTAGTTAAAATCAATAAATGTTCG
* *
102557 ATGTTCTTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTAGGTATAATTTTTTCTTTG
1 ATATTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACT-GGTATAATTTTTTCTTTG
*
102622 AACCTAAATAATCTAGTATACTAGTTAAAATCAATAAATGTTCG
65 AACCTAAATAATCAAGTATACTAGTTAAAATCAATAAATGTTCG
* *
102666 ATATTATTTTATTTAGGGAATTCGAGAAATTGTTCTCAAACGTACTGAGTATGATTTTTTCTTTG
1 ATATTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTG-GTATAATTTTTTCTTTG
102731 AACCTAA
65 AACCTAA
102738 GTACTTGAAT
Statistics
Matches: 162, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
108 12 0.07
109 138 0.85
110 12 0.07
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (108 bp):
ATATTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTGGTATAATTTTTTCTTTGA
ACCTAAATAATCAAGTATACTAGTTAAAATCAATAAATGTTCG
Found at i:102759 original size:109 final size:107
Alignment explanation
Indices: 102447--102771 Score: 393
Period size: 109 Copynumber: 3.0 Consensus size: 107
102437 AAGGGAGGCA
* * * ** * *
102447 ATATTATTTTATTTCAAGGAATTCAAAAAATTGTGCTCAAACACACTGGGTATGTTTTTTTTCTT
1 ATATTATTTTATTT-AGGGAATTCGAGAAATTGTGCTCAAACGTACTGAGTATG-ATTTTTTCTT
*
102512 TG-ACCTAAATAATCAAGTATCCTATTTAAAATCAATAAATGTTCG
64 TGAACCTAAAT-ATTAA-TATCCTATTTAAAATCAATAAATGTTCG
* * *
102557 ATGTTCTTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACT-AGGTATAATTTTTTCTTT
1 ATATTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTGA-GTATGATTTTTTCTTT
* * *
102621 GAACCTAAATAATCTAGTATACTAGTTAAAATCAATAAATGTTCG
65 GAACCTAAAT-AT-TAATATCCTATTTAAAATCAATAAATGTTCG
*
102666 ATATTATTTTATTTAGGGAATTCGAGAAATTGTTCTCAAACGTACTGAGTATGATTTTTTCTTTG
1 ATATTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTGAGTATGATTTTTTCTTTG
* **
102731 AACCTAAGTACTTGAATATCCTATTTAAAATTGATAAATGT
66 AACCTAAATA-TT-AATATCCTATTTAAAATCAATAAATGT
102772 CCTTGATCTT
Statistics
Matches: 185, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
108 13 0.07
109 158 0.85
110 14 0.08
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (107 bp):
ATATTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTGAGTATGATTTTTTCTTTG
AACCTAAATATTAATATCCTATTTAAAATCAATAAATGTTCG
Found at i:109905 original size:49 final size:49
Alignment explanation
Indices: 109819--110231 Score: 438
Period size: 49 Copynumber: 8.4 Consensus size: 49
109809 AGGAAACATT
* * * * * *
109819 GAATCCTACACCTTAGA-ATTGTGAAGGGAAAGGTTGAAGCTGCAATGCC
1 GAATCTTACACCCTAGAGA-TGCGAAGGGAAAGATTGAAGCCGCAATGGC
* * * *
109868 GAGTCTTACACCCTAGAGATGCGAAAGAAAAGATTGAAGCCGCAATGGT
1 GAATCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAGCCGCAATGGC
* * *
109917 GAGTCTTACACCCTAGAGATGCGAAAGGAAATATTGAAGCCGCAATGGC
1 GAATCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAGCCGCAATGGC
*** * * *
109966 GAATCTTATGTCCTAGAGATGTGAAGGGAAAGACTGAAGCCGCAATAGC
1 GAATCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAGCCGCAATGGC
* * *
110015 GAGTCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAACTGCAATGGC
1 GAATCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAGCCGCAATGGC
* * *
110064 GAGAGTCTTACACCCAAGAGATGTGAAGGGAAATG-TTGAAACCGCAATGGC
1 GA-A-TCTTACACCCTAGAGATGCGAAGGGAAA-GATTGAAGCCGCAATGGC
** * * *
110115 GAATCTTGTACCCCAGAGATGTGAAGGGAAAGATTGAAGCCGTAATGGC
1 GAATCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAGCCGCAATGGC
* * *
110164 GAATCTTGCAGCTTAGA-ATTGCGAA-GGAAAGATTGAAGCCGCAATGGC
1 GAATCTTACACCCTAGAGA-TGCGAAGGGAAAGATTGAAGCCGCAATGGC
* *
110212 AAATCTTATACCCTAGAGAT
1 GAATCTTACACCCTAGAGAT
110232 ATGGAGAAGC
Statistics
Matches: 306, Mismatches: 51, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
48 37 0.12
49 223 0.73
50 2 0.01
51 43 0.14
52 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (49 bp):
GAATCTTACACCCTAGAGATGCGAAGGGAAAGATTGAAGCCGCAATGGC
Found at i:110144 original size:149 final size:147
Alignment explanation
Indices: 109838--110211 Score: 484
Period size: 149 Copynumber: 2.5 Consensus size: 147
109828 ACCTTAGAAT
* * *
109838 TGTGAAGGGAAAGGTTGAAGCTGCAATGCCGAGTCTTACACCCTAGAGATGCGAAAGAAAAGATT
1 TGTGAAGGGAAAGATTGAAGCCGCAATG-CGAGTCTTACACCCTAGAGATGCG-AAGGAAAGATT
* * *
109903 GAAGCCGCAAT-G-GTGAGTCTTACACCCTAGAGATGCGAAAGGAAATATTGAAGCCGCAATGGC
64 GAAGCCGCAATGGCGAGAGTCTTACACCCAAGAGATGCGAAAGGAAATATTGAAACCGCAATGGC
** *
109966 GAATCTTATGTCCTAGAGA
129 GAATCTTATACCCCAGAGA
*
109985 TGTGAAGGGAAAGACTGAAGCCGCAATAGCGAGTCTTACACCCTAGAGATGCGAAGGGAAAGATT
1 TGTGAAGGGAAAGATTGAAGCCGCAAT-GCGAGTCTTACACCCTAGAGATGCGAA-GGAAAGATT
* * * * *
110050 GAAACTGCAATGGCGAGAGTCTTACACCCAAGAGATGTGAAGGGAAATGTTGAAACCGCAATGGC
64 GAAGCCGCAATGGCGAGAGTCTTACACCCAAGAGATGCGAAAGGAAATATTGAAACCGCAATGGC
*
110115 GAATCTTGTACCCCAGAGA
129 GAATCTTATACCCCAGAGA
* * * * *
110134 TGTGAAGGGAAAGATTGAAGCCGTAATGGCGAATCTTGCAGCTTAGA-ATTGCGAAGGAAAGATT
1 TGTGAAGGGAAAGATTGAAGCCGCAAT-GCGAGTCTTACACCCTAGAGA-TGCGAAGGAAAGATT
110198 GAAGCCGCAATGGC
64 GAAGCCGCAATGGC
110212 AAATCTTATA
Statistics
Matches: 197, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
146 2 0.01
147 65 0.33
148 24 0.12
149 106 0.54
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (147 bp):
TGTGAAGGGAAAGATTGAAGCCGCAATGCGAGTCTTACACCCTAGAGATGCGAAGGAAAGATTGA
AGCCGCAATGGCGAGAGTCTTACACCCAAGAGATGCGAAAGGAAATATTGAAACCGCAATGGCGA
ATCTTATACCCCAGAGA
Found at i:112924 original size:109 final size:109
Alignment explanation
Indices: 112801--113121 Score: 421
Period size: 112 Copynumber: 2.9 Consensus size: 109
112791 GGTAATATTT
* * *
112801 TTTTATTTTAGGGAATTCAAAAAATTGTGCTCGAACGTATTGTG-TATGATTTTTTCTTTGAACT
1 TTTT-TTTTAGGGAATTCAAGAAATTGTGCTCAAACGTACTG-GATATGATTTTTTCTTTGAACT
*
112865 TAAATAATCGAGTATCCCATTTAAAATCAATAAATGGTTGATGTTC
64 TAAATAGTCGAGTATCCCATTTAAAATCAATAAATGGTTGATGTTC
*
112911 TTTTTTTTAGGGAAGTT-GAGAAATTGTGCTCAAACGTACTGGATATGATTTTTTTTTCTTTGAA
1 TTTTTTTTAGGGAA-TTCAAGAAATTGTGCTCAAACGTACTGGATATGA---TTTTTTCTTTGAA
* * * *
112975 CCTAAATAGTCTAGTATCCCATTTAAAATCAGTAAATGTTTGATGTTC
62 CTTAAATAGTCGAGTATCCCATTTAAAATCAATAAATGGTTGATGTTC
* * *
113023 TTTTATTTAGGGAATTCAAGAAATTGTGCTCAAACATACTGGATATTATTTTTTCTTTGAACTTA
1 TTTTTTTTAGGGAATTCAAGAAATTGTGCTCAAACGTACTGGATATGATTTTTTCTTTGAACTTA
* * * **
113088 AGTAGTCGAATATCCTATTTAAAATTGATAAATG
66 AATAGTCGAGTATCCCATTTAAAATCAATAAATG
113122 TCCTTGATCT
Statistics
Matches: 184, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
108 1 0.01
109 78 0.42
110 6 0.03
111 2 0.01
112 97 0.53
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (109 bp):
TTTTTTTTAGGGAATTCAAGAAATTGTGCTCAAACGTACTGGATATGATTTTTTCTTTGAACTTA
AATAGTCGAGTATCCCATTTAAAATCAATAAATGGTTGATGTTC
Found at i:113764 original size:12 final size:12
Alignment explanation
Indices: 113749--113792 Score: 70
Period size: 12 Copynumber: 3.5 Consensus size: 12
113739 AAAAAAATCA
113749 AAGAAAAACAAG
1 AAGAAAAACAAG
113761 AAGAAAAACAGTAG
1 AAGAAAAACA--AG
113775 AAGAAAAACAAG
1 AAGAAAAACAAG
113787 AAGAAA
1 AAGAAA
113793 GGGAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.60
14 12 0.40
ACGTcount: A:0.73, C:0.07, G:0.18, T:0.02
Consensus pattern (12 bp):
AAGAAAAACAAG
Found at i:114245 original size:28 final size:28
Alignment explanation
Indices: 114205--114261 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
114195 AGACGATGAA
114205 GACGTGGAGACAATGATCACTCTTTATT
1 GACGTGGAGACAATGATCACTCTTTATT
*
114233 GACGTGGAGACAATGATCGCTCTTTATT
1 GACGTGGAGACAATGATCACTCTTTATT
114261 G
1 G
114262 TACGAATCAA
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:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (28 bp):
GACGTGGAGACAATGATCACTCTTTATT
Found at i:119008 original size:43 final size:43
Alignment explanation
Indices: 118946--119045 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
118936 AACTGCACAA
*
118946 TTAATAGCATGTCACGATATTAACAAGAGTCAAGTAAGATAAT
1 TTAATAACATGTCACGATATTAACAAGAGTCAAGTAAGATAAT
* * * * *
118989 TTAATAACATGTCATGATATTAACACGGGTTAAGTAATATAAT
1 TTAATAACATGTCACGATATTAACAAGAGTCAAGTAAGATAAT
119032 TTAATAACATGTCA
1 TTAATAACATGTCA
119046 AAGAATAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (43 bp):
TTAATAACATGTCACGATATTAACAAGAGTCAAGTAAGATAAT
Found at i:120446 original size:22 final size:21
Alignment explanation
Indices: 120408--120475 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
120398 ACAAATTTAT
120408 ATTACTTACTAACAAAATAAA
1 ATTACTTACTAACAAAATAAA
*
120429 ATTACTTACTAAATAAAATAAA
1 ATTACTTACT-AACAAAATAAA
*
120451 ATTACTTACTAACAAAATTAA
1 ATTACTTACTAACAAAATAAA
120472 ATTA
1 ATTA
120476 AATTAAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 23 0.53
22 20 0.47
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTACTTACTAACAAAATAAA
Found at i:120460 original size:26 final size:26
Alignment explanation
Indices: 120421--120480 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 26
120411 ACTTACTAAC
120421 AAAATAAAATTACTTACT----AAAT
1 AAAATAAAATTACTTACTAACAAAAT
120443 AAAATAAAATTACTTACTAACAAAAT
1 AAAATAAAATTACTTACTAACAAAAT
* *
120469 TAAATTAAATTA
1 AAAATAAAATTA
120481 AATTACATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 18 0.56
26 14 0.44
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATAAAATTACTTACTAACAAAAT
Found at i:122194 original size:19 final size:19
Alignment explanation
Indices: 122172--122211 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
122162 ACATAATTAA
122172 ATATCTC-CTAAATAACAAT
1 ATATCTCAC-AAATAACAAT
*
122191 ATATCTCACAAATAATAAT
1 ATATCTCACAAATAACAAT
122210 AT
1 AT
122212 TTTCTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATCTCACAAATAACAAT
Found at i:124297 original size:85 final size:85
Alignment explanation
Indices: 124190--124346 Score: 242
Period size: 85 Copynumber: 1.8 Consensus size: 85
124180 GCTTCATTTC
* * * * *
124190 TTGGTCTACTTCTCTGTGTCTCATTAGGAAGATTACCACTTCATTGATTCAATCCACTTCTCTGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGATTCAACCCACTTCTCTGT
124255 ATCTCATCAGGAAGGCGGAT
66 ATCTCATCAGGAAGGCGGAT
* * *
124275 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGTTTCGACCCACTTCTCTGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGATTCAACCCACTTCTCTGT
124340 ATCTCAT
66 ATCTCAT
124347 TAGAAAGATT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (85 bp):
TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGATTCAACCCACTTCTCTGT
ATCTCATCAGGAAGGCGGAT
Found at i:124548 original size:208 final size:207
Alignment explanation
Indices: 124190--124727 Score: 744
Period size: 208 Copynumber: 2.6 Consensus size: 207
124180 GCTTCATTTC
* * * * *
124190 TTGGTCTACTTCTCTGTGTCTCATTAGGAAGATTACCACTTCATTGATTCAATCCACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGTTTCAATCCACTTCTCTAT
* *
124255 ATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATT
66 ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATT
* * *
124320 GTTTCGACCCACTTCTCTGTATCTCATTAGAAAGATTGGGTTTGGAAGTTTCACTAC-ATTGAGC
131 GTTTCGACCCACTTCTCTGTATCTCATTAGAAAGATAGGGTTT-AAAGTCTCA-TACGATTGAGC
124384 -TT-CGCTTCATTGAA
194 TTTAC-CTT-ATTGAA
* *
124398 TTGGTCTACTTCTTTGTATCTCATTAGGAAGATGACCGCTTCATTGTTTTAATCCACTTCTCTAT
1 TTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGTTTCAATCCACTTCTCTAT
* * * ** *
124463 ATCTCACCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTTGTCAAGAAGATGACCACTTTATT
66 ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATT
* * *
124528 GCTTT-GACCTACTTCTCTGTATCTCATTAGGAAGATAGGGTTTAAAGTCTCATTCGTATTGAGC
131 G-TTTCGACCCACTTCTCTGTATCTCATTAGAAAGATAGGGTTTAAAGTCTCATACG-ATTGAGC
* *
124592 TTTACCTTTTTGAT
194 TTTACCTTATTGAA
* *
124606 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTAT
1 TTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGTTTCAATCCACTTCTCTAT
*
124671 ATCTCATCAGAAAGACGGATTTGG-TCTACTTCTCTGTATCTCATCAGGAAGATGACC
66 ATCTCATCAGGAAGACGGATTTGGTTC-ACTTCTCTGTATCTCATCAGGAAGATGACC
124728 GCCTCATTGT
Statistics
Matches: 290, Mismatches: 34, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
206 2 0.01
207 9 0.03
208 270 0.93
209 8 0.03
210 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (207 bp):
TTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGTTTCAATCCACTTCTCTAT
ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATT
GTTTCGACCCACTTCTCTGTATCTCATTAGAAAGATAGGGTTTAAAGTCTCATACGATTGAGCTT
TACCTTATTGAA
Found at i:124795 original size:84 final size:84
Alignment explanation
Indices: 124604--124854 Score: 403
Period size: 85 Copynumber: 3.0 Consensus size: 84
124594 TACCTTTTTG
124604 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTT-AATCCACTTCTCT
* *
124669 ATATCTCATCAGAAAGACGG
65 ATATCTCATCAGGAAGACGA
*
124689 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTAATCCACTTCTTTA
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTAATCCACTTCTCTA
124754 TATCTCATCAGGAAGACGA
66 TATCTCATCAGGAAGACGA
* * * * * *
124773 ATTTGGTTTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTTATTACTTTAACCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATT-GTTTAATCCACTTCTCT
124838 ATATCTCATCAGGAAGA
65 ATATCTCATCAGGAAGA
124855 TTGGATTTGA
Statistics
Matches: 155, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
84 73 0.47
85 82 0.53
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (84 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTAATCCACTTCTCTA
TATCTCATCAGGAAGACGA
Found at i:124819 original size:292 final size:293
Alignment explanation
Indices: 124398--125015 Score: 893
Period size: 292 Copynumber: 2.1 Consensus size: 293
124388 CTTCATTGAA
* * *
124398 TTGGTCTACTTCTTTGTATCTCATTAGGAAGATGACCGCTTCATTGTTTTAATCCACTTCTCTAT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTAT
**
124463 ATCTCACCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTTGTCAAGAAGATGACCACTTTATT
66 ATCTCACCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATGACCACTTTATT
* * * * * * *
124528 GCTTTGACCTACTTCTCTGTATCTCATTAGGAAGATAGGGTTTAAAGTCTCATTCGTATTGAGCT
131 ACTTTAACCCACTTCTCTATATCTCATCAGGAAGATAGGATTTAAAGTCTCATTCGTATTGAAC-
*
124593 TTAC-CTT-TTTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTG-TTT
195 TT-CGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGATTT
*
124655 CAATCCACTTCTCTATATCTCATCAGAAAGACGGAT
259 -AATCCACTTCTCTATATCTCATCAGAAAGACGAAT
*
124691 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTG-TTTAATCCACTTCTTTAT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTAT
* * * * **
124755 ATCTCATCAGGAAGACGAATTTGGTTTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTTATT
66 ATCTCACCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATGACCACTTTATT
* * *
124820 ACTTTAACCCACTTCTCTATATCTCATCAGGAAGATTGGATTTGAAGTCTTATTCGTATTGAACT
131 ACTTTAACCCACTTCTCTATATCTCATCAGGAAGATAGGATTTAAAGTCTCATTCGTATTGAACT
* *
124885 TCGCTTCATTGATTTGGTCTATTTCTCTGTATCTCATCAGGAAGATGACCGTCTCATTGATTTAA
196 TCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGATTTAA
* * *
124950 TCCACTTCTCTGTATCTTATCAGGAAGACGAAT
261 TCCACTTCTCTATATCTCATCAGAAAGACGAAT
* * *
124983 TTGGTCCACTTCTCTGCATCTCATCAGAAAGAT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGAT
125016 TACCACTTAT
Statistics
Matches: 290, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
290 1 0.00
291 5 0.02
292 238 0.82
293 46 0.16
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (293 bp):
TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTAT
ATCTCACCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATGACCACTTTATT
ACTTTAACCCACTTCTCTATATCTCATCAGGAAGATAGGATTTAAAGTCTCATTCGTATTGAACT
TCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGATTTAA
TCCACTTCTCTATATCTCATCAGAAAGACGAAT
Found at i:124904 original size:207 final size:207
Alignment explanation
Indices: 124688--125234 Score: 702
Period size: 207 Copynumber: 2.6 Consensus size: 207
124678 CAGAAAGACG
*
124688 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTAATCCACTTCTTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTAATCCACTTCTCT
* * * **
124753 ATATCTCATCAGGAAGACGAATTTGGTTTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTTA
66 GTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAGGAAGATGACCACTTTA
* * **
124818 TTACTTTAACCCACTTCTCTATATCTCATCAGGAAGATTGGATTTGAAGTCTT-ATTCGTATTGA
131 TTACTTTAACCCACTTCTCTATATCTCATCAGGAAGATGGGATTTGAA-TCTTCACTCACATTGA
* *
124882 ACTTCGCTTCATT
195 ACTGCGCTTCAAT
* *
124895 GATTTGGTCTATTTCTCTGTATCTCATCAGGAAGATGACCGTCTCATTGATTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTG-TTTAATCCACTTCTC
* * * *
124960 TGTATCTTATCAGGAAGACGAATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATTACCAC-TT
65 TGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAGGAAGATGACCACTTT
*** * * * * * *
125024 ATCGGTTTGACCCACTTCTCTGTATCTTATTAGGAAGATGGGGTTTGAATTTTCACTCACATTGA
130 ATTACTTTAACCCACTTCTCTATATCTCATCAGGAAGATGGGATTTGAATCTTCACTCACATTGA
*
125089 GCTGCGCTTCAAT
195 ACTGCGCTTCAAT
* * * *
125102 GATTTGGTCTACTTCTCTATATCTCACCAGGAAGATGACCGCCTCATTAATTAAATCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATT-GTTTAATCCACTTCTC
* * * * * * *
125167 TGTATTTCATCAGAAAGATGAATTTAGTTCACTTCTTTGCATCTCGTCAAGAAGATGACCACTTT
65 TGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAGGAAGATGACCACTTT
125232 ATT
130 ATT
125235 GCTTCGGATG
Statistics
Matches: 290, Mismatches: 46, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
206 3 0.01
207 216 0.74
208 71 0.24
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (207 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTAATCCACTTCTCT
GTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGCATCTCATCAGGAAGATGACCACTTTA
TTACTTTAACCCACTTCTCTATATCTCATCAGGAAGATGGGATTTGAATCTTCACTCACATTGAA
CTGCGCTTCAAT
Found at i:125015 original size:85 final size:84
Alignment explanation
Indices: 124896--125061 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 84
124886 CGCTTCATTG
* * * * * * *
124896 ATTTGGTCTATTTCTCTGTATCTCATCAGGAAGATGACCGTCTCATTGATTTAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATGACC-ACTCATCGATTTAACCCACTTCTCT
124961 GTATCTTATCAGGAAGACGA
65 GTATCTTATCAGGAAGACGA
* * * *
124981 ATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATTACCACTTATCGGTTTGACCCACTTCTCTG
1 ATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATGACCACTCATCGATTTAACCCACTTCTCTG
*
125046 TATCTTATTAGGAAGA
66 TATCTTATCAGGAAGA
125062 TGGGGTTTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 35 0.51
85 34 0.49
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (84 bp):
ATTTGGTCCACTTCTCTGCATCTCATCAGAAAGATGACCACTCATCGATTTAACCCACTTCTCTG
TATCTTATCAGGAAGACGA
Found at i:125562 original size:49 final size:49
Alignment explanation
Indices: 125461--125670 Score: 183
Period size: 49 Copynumber: 4.3 Consensus size: 49
125451 CACCGTTATA
* * * * * *
125461 GCCTCAACCTTTCCCATCACATCTTCTAAGGT-ACCAGGTTCG-CATTGCG
1 GCCTCAACCTTTCCCTTCAAATCTTC-ATGGTAACGA-GTTCGTCGTTGTG
* * *
125510 GCCTCAACCTTTCCCTTTAAATTTTCATGCTAACGAGTTCGTCGTTGTG
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTAACGAGTTCGTCGTTGTG
* * * * *** *
125559 GCCTCAACCTTTTCCTTCATATCTTCATGGTACCGGGTTTACCGTTGCG
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTAACGAGTTCGTCGTTGTG
* * * *
125608 ACTTCGACCTTTCCCTTCAAATCTTCATGGT-ACCAGGTTCGTCGTTGTG
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTAACGA-GTTCGTCGTTGTG
125657 GCCTCAACCTTTCC
1 GCCTCAACCTTTCC
125671 TATTGCGTCC
Statistics
Matches: 123, Mismatches: 35, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
48 9 0.07
49 114 0.93
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (49 bp):
GCCTCAACCTTTCCCTTCAAATCTTCATGGTAACGAGTTCGTCGTTGTG
Found at i:125584 original size:98 final size:98
Alignment explanation
Indices: 125348--125735 Score: 292
Period size: 98 Copynumber: 3.9 Consensus size: 98
125338 AAAGGTATTG
* * * * * * *
125348 GGTTCGTCGTTGTGGCCTTAACCTTTCCCTTCATATCTT-TATGGTATC-GGATTCACTATCGCA
1 GGTTCGTCGTTGTGGCCTCAACCTTTTCCTTCATATCTTCTAAGGTACCAGG-TTCGC-ATTGCG
* * * * * * *
125411 GCCTCGATCC-TTCCCATCACATCTTCTAAGGTACCG
64 GCCTC-AACCTTTCCCTTTAAATCTTC-ATGCTACCA
** * * * * *
125447 GGTTCACCGTTATAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGGTTCGCATTGCGGC
1 GGTTCGTCGTTGTGGCCTCAACCTTTTCCTTCATATCTTCTAAGGTACCAGGTTCGCATTGCGGC
* *
125512 CTCAACCTTTCCCTTTAAATTTTCATGCTAAC-
66 CTCAACCTTTCCCTTTAAATCTTCATGCTACCA
* * *
125544 GAGTTCGTCGTTGTGGCCTCAACCTTTTCCTTCATATCTTC-ATGGTACCGGGTTTAC-CGTTGC
1 G-GTTCGTCGTTGTGGCCTCAACCTTTTCCTTCATATCTTCTAAGGTACCAGG-TT-CGCATTGC
* * * * *
125607 GACTTCGACCTTTCCCTTCAAATCTTCATGGTACCA
63 GGCCTCAACCTTTCCCTTTAAATCTTCATGCTACCA
* * *
125643 GGTTCGTCGTTGTGGCCTCAACC-TTTCCTATTGCGT-CCTT-TAAGGTA-CAGGGTCCGCCATT
1 GGTTCGTCGTTGTGGCCTCAACCTTTTCC--TT-CATATCTTCTAAGGTACCA-GGTTCG-CATT
125704 GCGGCCTCAACCTTTCCCTTTAAATCTTCATG
61 GCGGCCTCAACCTTTCCCTTTAAATCTTCATG
125736 GTATCGCGGC
Statistics
Matches: 228, Mismatches: 47, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
97 16 0.07
98 99 0.43
99 98 0.43
100 13 0.06
101 2 0.01
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (98 bp):
GGTTCGTCGTTGTGGCCTCAACCTTTTCCTTCATATCTTCTAAGGTACCAGGTTCGCATTGCGGC
CTCAACCTTTCCCTTTAAATCTTCATGCTACCA
Found at i:125706 original size:197 final size:197
Alignment explanation
Indices: 125349--125735 Score: 478
Period size: 197 Copynumber: 2.0 Consensus size: 197
125339 AAGGTATTGG
* * * *
125349 GTTCGTCGTTGTGGCCTTAACCTTTCCCTTCATATCTTTATGGTATCGGATTCACTATCGCAGCC
1 GTTCGTCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATCGCAGCC
* *
125414 TCGATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTATAGCCTCAACCTTTCCCATC
66 TCGATCCTTCCCATCAAATCTTCTAAGGTACCAGGTTCACCGTTATAGCCTCAACCTTTCCCATC
* *
125479 ACATCTTCTAAGGTACCAGGTTCGCATTGCGGCCTCAACCTTTCCCTTTAAATTTTCATGCTAAC
131 ACATCTTCTAAGGTACCAGGTCCGCATTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGCTAAC
125544 GA
196 GA
* * * * *
125546 GTTCGTCGTTGTGGCCTCAACCTTTTCCTTCATATCTTCATGGTACCGGGTTTACCGTTGC-GAC
1 GTTCGTCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATCGCAG-C
* * * ** * * *
125610 TTCGA-CCTTTCCCTTCAAATCTTC-ATGGTACCAGGTTCGTCGTTGTGGCCTCAACCTTTCCTA
65 CTCGATCC-TTCCCATCAAATCTTCTAAGGTACCAGGTTCACCGTTATAGCCTCAACCTTTCCCA
** *
125673 TTGCGTCCTT-TAAGGTA-CAGGGTCCGCCATTGCGGCCTCAACCTTTCCCTTTAAATCTTCATG
129 TCACAT-CTTCTAAGGTACCA-GGTCCG-CATTGCGGCCTCAACCTTTCCCTTTAAATCTTCATG
125736 GTATCGCGGC
Statistics
Matches: 161, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
195 2 0.01
196 50 0.31
197 109 0.68
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (197 bp):
GTTCGTCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATCGCAGCC
TCGATCCTTCCCATCAAATCTTCTAAGGTACCAGGTTCACCGTTATAGCCTCAACCTTTCCCATC
ACATCTTCTAAGGTACCAGGTCCGCATTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGCTAAC
GA
Found at i:126689 original size:7 final size:7
Alignment explanation
Indices: 126677--126713 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
126667 CGACATCTCC
126677 TTTTCTT
1 TTTTCTT
126684 TTTTCTT
1 TTTTCTT
126691 TTTTC--
1 TTTTCTT
126696 TTTTCTT
1 TTTTCTT
126703 TTTCTCTT
1 TTT-TCTT
126711 TTT
1 TTT
126714 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 15 0.56
8 7 0.26
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:126698 original size:19 final size:20
Alignment explanation
Indices: 126676--126713 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
126666 TCGACATCTC
126676 CTTTTCTTTTT-TCTTTTTT
1 CTTTTCTTTTTCTCTTTTTT
126695 CTTTTCTTTTTCTCTTTTT
1 CTTTTCTTTTTCTCTTTTT
126714 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
CTTTTCTTTTTCTCTTTTTT
Found at i:126699 original size:12 final size:13
Alignment explanation
Indices: 126677--126712 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
126667 CGACATCTCC
*
126677 TTTTCTTTTTTCT
1 TTTTCTCTTTTCT
126690 TTTT-TCTTTTCT
1 TTTTCTCTTTTCT
126702 TTTTCTCTTTT
1 TTTTCTCTTTT
126713 TATTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTCTTTTCT
Found at i:126726 original size:27 final size:25
Alignment explanation
Indices: 126677--126729 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
126667 CGACATCTCC
* *
126677 TTTTCTTTTTTCTTTTTTCTTTTCT
1 TTTTCTTTTTTATTTTTTATTTTCT
126702 TTTTCTCTTTTTATTTATTTATTTTCT
1 TTTTCT-TTTTTATTT-TTTATTTTCT
126729 T
1 T
126730 CATTGAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 8 0.33
27 10 0.42
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTTATTTTTTATTTTCT
Found at i:150107 original size:12 final size:12
Alignment explanation
Indices: 150081--150130 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
150071 GGAGGTGATT
* *
150081 AAGAGAAGGATG
1 AAGAAAAGGAAG
*
150093 AAGAAAAAGAAG
1 AAGAAAAGGAAG
*
150105 AAGGAAAGGAAG
1 AAGAAAAGGAAG
*
150117 AAGAGAAGGAAG
1 AAGAAAAGGAAG
150129 AA
1 AA
150131 ACAGAACCTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
AAGAAAAGGAAG
Found at i:157603 original size:59 final size:58
Alignment explanation
Indices: 157540--157757 Score: 153
Period size: 59 Copynumber: 3.7 Consensus size: 58
157530 CACGGGGGGC
* *
157540 AAAATGGTAATTTTGGATTCTCGGGGGTGAAATGGTAATTTTGGGAAATTTCAATGTTA
1 AAAATGGTAATTTTGGATTCT-GGGGGTAAAATGGTAATTTTGAGAAATTTCAATGTTA
** * * * * * *
157599 AAAAT-GTAAATTTTAAACATT-TAGGGGTAAAAGGGTAATTTTGAG-AGTTTCGAGGTCA
1 AAAATGGT-AATTTT--GGATTCTGGGGGTAAAATGGTAATTTTGAGAAATTTCAATGTTA
* * *
157657 AAAATGG-AATTTTTGGACATCTGGGGGTAAAATGGTAATTTTTGA-AAGTTTCAGTGTTA
1 AAAATGGTAA-TTTTGGA-TTCTGGGGGTAAAATGGTAA-TTTTGAGAAATTTCAATGTTA
* * *
157716 AGAATGGGATTTTTGGAAGTT-TGGGGGTAAAAATGG-AATTTT
1 AAAATGGTAATTTTGG-A-TTCTGGGGGT-AAAATGGTAATTTT
157758 TGGAAGTTTT
Statistics
Matches: 124, Mismatches: 23, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
56 1 0.01
57 3 0.02
58 39 0.31
59 67 0.54
60 11 0.09
61 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (58 bp):
AAAATGGTAATTTTGGATTCTGGGGGTAAAATGGTAATTTTGAGAAATTTCAATGTTA
Found at i:157688 original size:29 final size:29
Alignment explanation
Indices: 157656--157876 Score: 225
Period size: 29 Copynumber: 7.6 Consensus size: 29
157646 TTTCGAGGTC
*
157656 AAAAATGGAATTTTTGGACA-TCTGGGGGT
1 AAAAATGGAATTTTTGGA-AGTTTGGGGGT
* * * *
157685 -AAAATGGTAATTTTTGAAAGTTTCAGTGTT
1 AAAAATGG-AATTTTTGGAAGTTT-GGGGGT
* *
157715 AAGAATGGGATTTTTGGAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGAAGTTTGGGGGT
*
157744 AAAAATGGAATTTTTGGAAGTTTTGGGGT
1 AAAAATGGAATTTTTGGAAGTTTGGGGGT
* *
157773 CAAAAATGGGATTTTTGGAAGTTCGGGGGT
1 -AAAAATGGAATTTTTGGAAGTTTGGGGGT
**
157803 AAAAATGGAATTTTTGGAAGTTTTAGGGT
1 AAAAATGGAATTTTTGGAAGTTTGGGGGT
* **
157832 CAAAATAT-G-TTTTTTGGAAGTTCAGGGGT
1 -AAAA-ATGGAATTTTTGGAAGTTTGGGGGT
157861 AAAAATGGAATTTTTG
1 AAAAATGGAATTTTTG
157877 AATAGTTTAG
Statistics
Matches: 157, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.01
28 13 0.08
29 87 0.55
30 47 0.30
31 8 0.05
ACGTcount: A:0.31, C:0.03, G:0.30, T:0.36
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTTGGGGGT
Found at i:157758 original size:59 final size:59
Alignment explanation
Indices: 157637--157888 Score: 284
Period size: 59 Copynumber: 4.3 Consensus size: 59
157627 AAAAGGGTAA
* *
157637 TTTTGAGAGTTTC-GAGGTCAAAAATGGAATTTTTGGACA--TCTGGGGGT-AAAATGGTAAT
1 TTTTGAAAGTTTCAG-GGTCAAAAATGGGATTTTTGGA-AGTTC-GGGGGTAAAAATGG-AAT
* * * *
157696 TTTTGAAAGTTTCAGTGTTAAGAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCAGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAAT
* **
157755 TTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCAGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAAT
* * * *
157814 TTTTGGAAGTTTTAGGGTCAAAATAT--GTTTTTTGGAAGTTCAGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCAGGGTCAAAA-ATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAAT
157872 TTTTGAATAGTTT-AGGG
1 TTTTGAA-AGTTTCAGGG
157889 ACCCTCGAGG
Statistics
Matches: 170, Mismatches: 17, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
58 41 0.24
59 118 0.69
60 11 0.06
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (59 bp):
TTTTGAAAGTTTCAGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAAT
Found at i:157772 original size:88 final size:89
Alignment explanation
Indices: 157644--157888 Score: 254
Period size: 88 Copynumber: 2.8 Consensus size: 89
157634 TAATTTTGAG
* *
157644 AGTTTCGA-GGTCAAAAATGGAATTTTTGGACA-TCTGGGGGT-AAAATGGTAATTTTTGAAAGT
1 AGTTT-GAGGGTCAAAAATGGAATTTTTGGA-AGTTTAGGGGTAAAAATGG-AATTTTTGAAAGT
* * * *
157706 TTCAGTGTTAAGAATGGGATTTTTGGA
63 TTCAGGGGTAAAAATGGAATTTTTGGA
* * * *
157733 AGTTTGGGGGT-AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG-TT
1 AGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT-AAAAATGGAATTTTTGAAAGTTT
*
157796 CGGGGGTAAAAATGGAATTTTTGGA
65 CAGGGGTAAAAATGGAATTTTTGGA
* * *
157821 AGTTTTAGGGTCAAAATAT-G-TTTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGAATAGTT
1 AGTTTGAGGGTCAAAA-ATGGAATTTTTGGAAGTTTAGGGGTAAAAATGGAATTTTTGAA-AGTT
157884 T-AGGG
64 TCAGGG
157889 ACCCTCGAGG
Statistics
Matches: 130, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
87 17 0.13
88 79 0.61
89 25 0.19
90 9 0.07
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (89 bp):
AGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGGAATTTTTGAAAGTTTC
AGGGGTAAAAATGGAATTTTTGGA
Found at i:158946 original size:19 final size:21
Alignment explanation
Indices: 158906--158951 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
158896 TTTCCTTTTT
*
158906 TTATTATTAAAACGCTATTTA
1 TTATTATTAAAACACTATTTA
158927 TTATTATTAAAA-AC-ATTTA
1 TTATTATTAAAACACTATTTA
158946 TTATTA
1 TTATTA
158952 ATAGTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 1 0.04
21 12 0.50
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATTATTAAAACACTATTTA
Found at i:159587 original size:15 final size:15
Alignment explanation
Indices: 159564--159607 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
159554 TTGGCCATTG
*
159564 GGCCGTTTGTAATTA
1 GGCCATTTGTAATTA
* *
159579 GGCCATTTGTACTTG
1 GGCCATTTGTAATTA
159594 GGCCATTTGTAATT
1 GGCCATTTGTAATT
159608 GTACTTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (15 bp):
GGCCATTTGTAATTA
Found at i:159663 original size:17 final size:16
Alignment explanation
Indices: 159641--159725 Score: 89
Period size: 17 Copynumber: 5.1 Consensus size: 16
159631 TTGGACTTTT
159641 TAAATTTAATTTTATAA
1 TAAATTTAATTTTA-AA
*
159658 TAAATTTAAATTTCAAA
1 TAAATTT-AATTTTAAA
*
159675 TAAATTTAAATTTAAAA
1 TAAATTT-AATTTTAAA
* *
159692 TAAACTTAAATTTAAA
1 TAAATTTAATTTTAAA
* *
159708 TAAATTCAATTTTCAA
1 TAAATTTAATTTTAAA
159724 TA
1 TA
159726 GGTCCAGACA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
16 21 0.36
17 31 0.53
18 6 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTAATTTTAAA
Found at i:159679 original size:34 final size:33
Alignment explanation
Indices: 159641--159720 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 33
159631 TTGGACTTTT
* *
159641 TAAATTTAATTTTATAATAAATTTAAATTTCAAA
1 TAAATTTAATTTTAAAATAAACTTAAATTT-AAA
*
159675 TAAATTTAAATTTAAAATAAACTTAAATTTAAA
1 TAAATTTAATTTTAAAATAAACTTAAATTTAAA
*
159708 TAAATTCAATTTT
1 TAAATTTAATTTT
159721 CAATAGGTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 14 0.34
34 27 0.66
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (33 bp):
TAAATTTAATTTTAAAATAAACTTAAATTTAAA
Found at i:159692 original size:7 final size:6
Alignment explanation
Indices: 159639--159708 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
159629 AATTGGACTT
*
159639 TTTAAA TTTAAT TTTATAA --TAAA TTTAAA TTTCAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* *
159685 TTTAAA -ATAAA CTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
159709 AAATTCAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 5 0.10
5 7 0.13
6 36 0.69
7 4 0.08
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:160894 original size:206 final size:203
Alignment explanation
Indices: 160047--161112 Score: 1073
Period size: 206 Copynumber: 5.2 Consensus size: 203
160037 ACTTGGCTTT
* * * *
160047 CTTCTCAATATCTCATCTGGAAGCTAACCATTTTATTACTTCGACCTGCTTCCCAGTATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCA-TTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* *
160112 AAGATA-CTGGGGTTCGAAGATTTGCTCA-TATCGAGCGCGGGTTTGTTTTGGTCTTCTTCTCAG
65 AAGA-AGCTGGGGTTCGAAGATTTGCTCACT-TTGAGCG-GGGTTCG-TTTGGTCTTCTTCTCAG
* * * * * * * *
160175 TATCTCCTCAAGAAGATGACTGCA-AAGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGATG
126 TATCTCATCAGGAAGATGACCGTATCA-TTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
*
160239 ACGAATTTGGTCCA
190 ACGAATTTGGTTCA
* * * *
160253 CTTCTTAGTATCTCATCAAGAAGCTAATCATTTTATTGCTTC-AAC--CTTC-C----TCTCAAT
1 CTTCTCAGTATCTCATCAGGAAGCTAACCA-TTTATTGCTTCGACCTGCTTCTCAGTATCTC-AT
* * *
160310 CAAGAAGCTGGGGTTCGAAGATTTTGCTCATTTTGAGC----CTCGTTTGGGGCTTCTTCTCAGT
64 CAAGAAGCTGGGGTTCGAAGA-TTTGCTCACTTTGAGCGGGGTTCGTTT-GGTCTTCTTCTCAGT
** * * * * * *
160371 GCCTCATCAGGAAGATGATCATATTGCTGTTTGTTTCAATTCGCTCCTCTATATCTCATCAGGAA
127 ATCTCATCAGGAAGATGACCGTA-T-C-ATTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
* *
160436 AACAAATTTGGTTCA
189 GACGAATTTGGTTCA
* * *
160451 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATCGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
* * *
160516 GGAAGCTGGGGTTCGAAGATTTTGCTCACTTTGAGC----CTCGTTTGGGTCTTCTTCTCAGTGT
66 AGAAGCTGGGGTTCGAAGA-TTTGCTCACTTTGAGCGGGGTTCGTTT-GGTCTTCTTCTCAGTAT
* ** * *
160577 CTCATCAGGAAGATGACCGTGTTGTTTGTTTCAA-CTCGCTTCTCTGTATCTCATCAGCAAGGCG
129 CTCATCAGGAAGATGACCGTATCATTTGTTTCAATC-CGCTTCTCTGTATCTCATCAGGAAGACG
160641 AATTTGGTTCA
193 AATTTGGTTCA
* *
160652 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACCTTCTTCTCAGTATCTTC-TC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTGCTTCTCAGTATC-TCATC
* * * *
160716 AAGAAGCTGGGGTTCGAAGATTTGTTCGCTGTGAGCGTGGGTTCGATTTGGT-TCTCTTCCCAGT
65 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCG-GGGTTCG-TTTGGTCT-TCTTCTCAGT
* * * * *
160780 ATCTCGTCAGGAAGATGACCGTATCACTTGTTTCAATCCGCCTCTCTGTATCTTACCAGGAAGAC
127 ATCTCATCAGGAAGATGACCGTATCATTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGAC
*
160845 GAATTTTGGTTTA
192 GAA-TTTGGTTCA
* * * *
160858 CTTCTCCGTATCTCATCAGGAAGCTAACCATTTATTGCTCCGATCTGCTTCTC-GATGTCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTGCTTCTCAG-TATCTCATC
* * * * * * * *
160922 AGGAAGTTGGGATTTGAAGACTTGCTCACTTCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTA
65 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCG-GGGTTCG-TTTGGTCTTCTTCTCAGTA
* * *
160987 TCTCATCAGGAAGATGACCGTAT-AGCTTGTTTCAATCTGCTTCTCTGTATCTCACCAGGAAGAC
128 TCTCATCAGGAAGATGACCGTATCA-TTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGAC
161051 GAATTTGGTTCA
192 GAATTTGGTTCA
* * * *
161063 CTTCTCCGTATCTCATCAGGAAGCTAACCGTTTATTGCTCCGATCTGCTT
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTGCTT
161113 TAAGCTAGGA
Statistics
Matches: 734, Mismatches: 94, Indels: 65
0.82 0.11 0.07
Matches are distributed among these distances:
194 3 0.00
195 31 0.04
197 10 0.01
198 77 0.10
199 21 0.03
200 30 0.04
201 123 0.17
202 3 0.00
203 5 0.01
204 80 0.11
205 137 0.19
206 213 0.29
207 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (203 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
AGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCGGGGTTCGTTTGGTCTTCTTCTCAGTATCT
CATCAGGAAGATGACCGTATCATTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAAT
TTGGTTCA
Found at i:161710 original size:27 final size:27
Alignment explanation
Indices: 161678--161737 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
161668 TCAAAAATTT
*
161678 TATTAAGAAGAGGATCAAAAGAAACAA
1 TATTAAAAAGAGGATCAAAAGAAACAA
*
161705 TATTAAAAAGAGGATCAAAGGAAACAA
1 TATTAAAAAGAGGATCAAAAGAAACAA
161732 TCATTA
1 T-ATTA
161738 GTTGAAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.18
Consensus pattern (27 bp):
TATTAAAAAGAGGATCAAAAGAAACAA
Done.