Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold85
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: 1711616
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 47147 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:6825 original size:20 final size:20
Alignment explanation
Indices: 6800--6842 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6790 TTTTTCTTCC
6800 CATTGAAAGGACAACAGCAG
1 CATTGAAAGGACAACAGCAG
* *
6820 CATTGAAGGGACAACAGTAG
1 CATTGAAAGGACAACAGCAG
6840 CAT
1 CAT
6843 GGTGGTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.14
Consensus pattern (20 bp):
CATTGAAAGGACAACAGCAG
Found at i:7067 original size:26 final size:25
Alignment explanation
Indices: 7000--7069 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
6990 ATATATATTT
*
7000 AAATA-TTTTTAATA-AAAATAAAA
1 AAATATTTTTTAATATAAAAAAAAA
* * *
7023 AATTAATATTTT-ATTTAAACAAAAAA
1 AAAT-ATTTTTTAATATAAA-AAAAAA
7049 AAATATTTTTTAATATAAAAA
1 AAATATTTTTTAATATAAAAA
7070 TTTGATTCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
23 3 0.09
24 3 0.09
25 15 0.43
26 14 0.40
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATATTTTTTAATATAAAAAAAAA
Found at i:7115 original size:37 final size:37
Alignment explanation
Indices: 7074--7144 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
7064 TAAAAATTTG
*
7074 ATTCGTGCCTGTTAGATAGGCGCGATTAAAAAAACGT
1 ATTCGTGCCTGTTAAATAGGCGCGATTAAAAAAACGT
7111 ATTCGTGCCTGTTAAATAGGCGCGATTAAAAAAA
1 ATTCGTGCCTGTTAAATAGGCGCGATTAAAAAAA
7145 TATACTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (37 bp):
ATTCGTGCCTGTTAAATAGGCGCGATTAAAAAAACGT
Found at i:8280 original size:17 final size:17
Alignment explanation
Indices: 8258--8294 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
8248 TTGTCTTCAA
8258 ATCCCTTTCCATGTGAT
1 ATCCCTTTCCATGTGAT
8275 ATCCCTTTCCATGTGAT
1 ATCCCTTTCCATGTGAT
8292 ATC
1 ATC
8295 TCCAAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.41
Consensus pattern (17 bp):
ATCCCTTTCCATGTGAT
Found at i:12728 original size:23 final size:23
Alignment explanation
Indices: 12697--12740 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
12687 TCAACAACTT
12697 AGGTCCGAGTGTTAAATAACCAA
1 AGGTCCGAGTGTTAAATAACCAA
*
12720 AGGTTCGAGTGTTAAATAACC
1 AGGTCCGAGTGTTAAATAACC
12741 TAAGCTCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (23 bp):
AGGTCCGAGTGTTAAATAACCAA
Found at i:13746 original size:20 final size:20
Alignment explanation
Indices: 13721--13764 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
13711 TGCAACCATT
*
13721 AATGCTGTTGTTGTCCCTTC
1 AATGCTGCTGTTGTCCCTTC
13741 AATGCTGCTGTTGTCCCTTC
1 AATGCTGCTGTTGTCCCTTC
13761 AATG
1 AATG
13765 GGAAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (20 bp):
AATGCTGCTGTTGTCCCTTC
Found at i:13819 original size:9 final size:10
Alignment explanation
Indices: 13800--13856 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 10
13790 GGAAGACAGA
13800 AAGAAAAGAG
1 AAGAAAAGAG
*
13810 -AGAAAGGAG
1 AAGAAAAGAG
*
13819 AAGAAAAAAAG
1 AAG-AAAAGAG
13830 AAGAAGAAGAG
1 AAGAA-AAGAG
13841 AAGAAGAAGA-
1 AAGAA-AAGAG
13851 AAGAAA
1 AAGAAA
13857 GAAAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 22 0.55
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAGAAAAGAG
Found at i:13829 original size:14 final size:14
Alignment explanation
Indices: 13799--13867 Score: 68
Period size: 14 Copynumber: 5.0 Consensus size: 14
13789 CGGAAGACAG
* *
13799 AAAGAA-AAGAGAG
1 AAAGAAGAAGAAAA
*
13812 AAAGGAGAAGAAAA
1 AAAGAAGAAGAAAA
*
13826 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAAA
* *
13840 GAAGAAGAAGAAAG
1 AAAGAAGAAGAAAA
*
13854 AAAGAAAAAGAAAA
1 AAAGAAGAAGAAAA
13868 GGTAATGTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
13 5 0.11
14 39 0.89
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:13849 original size:28 final size:28
Alignment explanation
Indices: 13799--13861 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
13789 CGGAAGACAG
*
13799 AAAGAAAAG-AGAGAAAGGAGAAGAAAA
1 AAAGAAAAGAAGAGAAAGAAGAAGAAAA
*
13826 AAAGAAGAAGAAGAG-AAGAAGAAGAAAG
1 AAAGAA-AAGAAGAGAAAGAAGAAGAAAA
13854 AAAGAAAA
1 AAAGAAAA
13862 AGAAAAGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 8 0.25
28 20 0.62
29 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (28 bp):
AAAGAAAAGAAGAGAAAGAAGAAGAAAA
Found at i:13868 original size:11 final size:12
Alignment explanation
Indices: 13792--13868 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 12
13782 TCACCACCGG
13792 AAGACAGAAAGAA
1 AAGA-AGAAAGAA
*
13805 AAGAGAGAAAGGAG
1 AAGA-AGAAA-GAA
13819 AAGAA-AAA-AA
1 AAGAAGAAAGAA
13829 GAAGAAGAAGAGAA
1 -AAGAAGAA-AGAA
13843 GAAGAAGAAAG-A
1 -AAGAAGAAAGAA
13855 AAGAA-AAAGAA
1 AAGAAGAAAGAA
13866 AAG
1 AAG
13869 GTAATGTATT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
10 5 0.09
11 14 0.25
12 6 0.11
13 13 0.24
14 17 0.31
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAGAA
Found at i:14073 original size:34 final size:32
Alignment explanation
Indices: 14033--14124 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 32
14023 TTGCTTTTTA
14033 TAATTATTTTAAAATTAATTTGTTAGTAATTT
1 TAATTATTTTAAAATTAATTTGTTAGTAATTT
* *
14065 TAGGATTA-TGTATAAATT--TTTG-T-GT--TTG
1 TA--ATTATTTTA-AAATTAATTTGTTAGTAATTT
*
14093 TAATTATTTTAAAATTAATTTATTAGTAATTT
1 TAATTATTTTAAAATTAATTTGTTAGTAATTT
14125 ATGATTAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 20
0.64 0.07 0.29
Matches are distributed among these distances:
26 9 0.20
27 3 0.07
28 7 0.16
29 1 0.02
30 4 0.09
31 1 0.02
32 8 0.18
33 3 0.07
34 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (32 bp):
TAATTATTTTAAAATTAATTTGTTAGTAATTT
Found at i:14119 original size:60 final size:60
Alignment explanation
Indices: 14033--14151 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
14023 TTGCTTTTTA
* * *
14033 TAATTATTTTAAAATTAATTTGTTAGTAATTTTAGGATTATG-TATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAA-TTTAGGATTAAGTTATAAATTGTTGTGTTTG
*
14093 TAATTATTTTAAAATTAATTTATTAGTAATTTATGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
14152 AGTTTAGTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 10 0.19
60 44 0.81
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:18265 original size:33 final size:33
Alignment explanation
Indices: 18207--18278 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
18197 TCTTAGCTTA
*
18207 TATCCACCTCAATACTCCACTCCTTCCGG-CTCG
1 TATCCACCTCAATACTCCACCCCTTCCGGCCT-G
* * * *
18240 TATCCACCTTAGTACTCCGCCCCTTCTGGCCTG
1 TATCCACCTCAATACTCCACCCCTTCCGGCCTG
18273 TATCCA
1 TATCCA
18279 TCGCCGCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.17, C:0.43, G:0.11, T:0.29
Consensus pattern (33 bp):
TATCCACCTCAATACTCCACCCCTTCCGGCCTG
Found at i:21887 original size:27 final size:27
Alignment explanation
Indices: 21774--21897 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
21764 GCCCCACCAT
* * *
21774 TCGCGCCTCTGAGTTAGGCACAACTAC
1 TCGCGCCTCTGAGATAGGCTCAACTAG
* * * *
21801 TCACGCCTGTCAGATAGGCTGAACTAG
1 TCGCGCCTCTGAGATAGGCTCAACTAG
* *
21828 CCGCGCCTGTGAGATAGGCTCAACTAGG
1 TCGCGCCTCTGAGATAGGCTCAACTA-G
21856 T-GCGCCTCTGAGATAGGCTCAACTAG
1 TCGCGCCTCTGAGATAGGCTCAACTAG
21882 TCGCGCCTCTGAGATA
1 TCGCGCCTCTGAGATA
21898 TGTTTCATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 79 0.96
28 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.22
Consensus pattern (27 bp):
TCGCGCCTCTGAGATAGGCTCAACTAG
Found at i:23003 original size:27 final size:27
Alignment explanation
Indices: 22969--23023 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22959 CCCAGAGAAA
22969 AAACATTACTACTTCAACCGCTAAGAG
1 AAACATTACTACTTCAACCGCTAAGAG
22996 AAACATTACTACTTCAACCGCTAAGAG
1 AAACATTACTACTTCAACCGCTAAGAG
23023 A
1 A
23024 TTCATGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (27 bp):
AAACATTACTACTTCAACCGCTAAGAG
Found at i:27373 original size:18 final size:18
Alignment explanation
Indices: 27346--27382 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27336 GTTAATTGGT
27346 ATTTTGTCTTTTTATGCA
1 ATTTTGTCTTTTTATGCA
*
27364 ATTTTTTCTTTTTATGCA
1 ATTTTGTCTTTTTATGCA
27382 A
1 A
27383 AGTCTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (18 bp):
ATTTTGTCTTTTTATGCA
Found at i:27394 original size:19 final size:18
Alignment explanation
Indices: 27352--27395 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27342 TGGTATTTTG
** *
27352 TCTTTTTATGCAATTTTT
1 TCTTTTTATGCAAAGTCT
27370 TCTTTTTATGCAAAGTCT
1 TCTTTTTATGCAAAGTCT
*
27388 TCATTTTA
1 TCTTTTTA
27396 GTGTTAGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (18 bp):
TCTTTTTATGCAAAGTCT
Found at i:28931 original size:60 final size:60
Alignment explanation
Indices: 28852--28965 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
28842 CTTTTTTTTC
* * *
28852 CTAATTTGCTACCTAAACTTGACACTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGGGT
1 CTAATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGGT
* * ** * * *
28912 CTAATTTGATATCTGAACTTGATTCTTTTTCCTAATTTGTTACCTAATCTTTTT
1 CTAATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTT
28966 TTTTTGTTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (60 bp):
CTAATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGGT
Found at i:29486 original size:59 final size:59
Alignment explanation
Indices: 29343--29506 Score: 213
Period size: 59 Copynumber: 2.7 Consensus size: 59
29333 ATTTAATAAA
* * *
29343 TTTAGGTACCAAATTAATAAAAAATGTCTAGTTCAGTTACCAAATTGGGCTAAAAAAAAG
1 TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAG-TACCAAATTGGGCTAAAAAAAAG
* * * *
29403 TTTAGGTACCAAATTAGGATAAAGTGTCAAGTTCATGTACCAAATTGGGC-CAAAAAGAG
1 TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCA-GTACCAAATTGGGCTAAAAAAAAG
* *
29462 TTTAGGTACCAAATTAAGAAAAAGTGTAAAGTTTAGGTACCAAAT
1 TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCA-GTACCAAAT
29507 GTTATATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 47 0.52
60 43 0.47
61 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (59 bp):
TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGTACCAAATTGGGCTAAAAAAAAG
Found at i:29498 original size:31 final size:31
Alignment explanation
Indices: 29399--29506 Score: 109
Period size: 31 Copynumber: 3.6 Consensus size: 31
29389 GGGCTAAAAA
*
29399 AAAGTTTAGGTACCAAATTAGGATAAAGTGT
1 AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
* * * *
29430 CAAGTTCATGTACCAAATTGGGCCAAAAA--G-
1 AAAGTTTAGGTACCAAATTAGG--AAAAAGTGT
*
29460 --AGTTTAGGTACCAAATTAAGAAAAAGTGT
1 AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
29489 AAAGTTTAGGTACCAAAT
1 AAAGTTTAGGTACCAAAT
29507 GTTATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
26 5 0.08
28 17 0.28
31 35 0.57
33 4 0.07
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (31 bp):
AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
Found at i:37357 original size:22 final size:22
Alignment explanation
Indices: 37332--37374 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37322 ATTTCGTATC
*
37332 ATATTACATATC-AGAGCATATT
1 ATATAACATATCGA-AGCATATT
*
37354 ATATAATATATCGAAGCATAT
1 ATATAACATATCGAAGCATAT
37375 CATGTAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (22 bp):
ATATAACATATCGAAGCATATT
Found at i:39823 original size:76 final size:76
Alignment explanation
Indices: 39683--39823 Score: 183
Period size: 76 Copynumber: 1.9 Consensus size: 76
39673 GTGGCCGCCA
* * * *** * *
39683 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAATTTCATTGTCATTACTTCATTTAATTTGTCT
1 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTCACTACCGAATTAAATATGTCT
39748 TGCTACTACCG
66 TGCTACTACCG
** *
39759 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTGGCTGCCGAATTAAATATGTCT
1 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTCACTACCGAATTAAATATGTCT
39824 AGTTGACCCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (76 bp):
AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTCACTACCGAATTAAATATGTCT
TGCTACTACCG
Found at i:39912 original size:25 final size:25
Alignment explanation
Indices: 39884--39939 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
39874 TGTGTGCAGG
39884 TGCATGAACAGCATTAAAAGAAGCA
1 TGCATGAACAGCATTAAAAGAAGCA
* * *
39909 TGCATGAACGGCATTCAAGGAAGCA
1 TGCATGAACAGCATTAAAAGAAGCA
39934 TGCATG
1 TGCATG
39940 CTGATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (25 bp):
TGCATGAACAGCATTAAAAGAAGCA
Found at i:42292 original size:26 final size:26
Alignment explanation
Indices: 42263--42475 Score: 166
Period size: 26 Copynumber: 8.2 Consensus size: 26
42253 AAACGAAACA
* * * *
42263 AAATAATATGTAGAGCAATTTGAAGT
1 AAATAATATGTAAAACAATTTAAAAT
* *
42289 AAATAGTA--TAAAACAATTTAAAGT
1 AAATAATATGTAAAACAATTTAAAAT
*
42313 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATGTAAAACAATTTAAAAT
** *
42339 AAATAATATACAAAGCAATTTAAAAT
1 AAATAATATGTAAAACAATTTAAAAT
* * *
42365 AAATAACATATAAGACAATTTAAAAT
1 AAATAATATGTAAAACAATTTAAAAT
* *
42391 -AATATGTAAT-TAAAA-AGTTTAAAAT
1 AAATA-AT-ATGTAAAACAATTTAAAAT
* *
42416 AAATAATATGTAAAAAGAAGTTTCAAAT
1 AAATAATATGT-AAAACAA-TTTAAAAT
** * *
42444 AAATAATATACAAAACAGTTAAAAAT
1 AAATAATATGTAAAACAATTTAAAAT
42470 AAATAA
1 AAATAA
42476 ATGATGTGTA
Statistics
Matches: 150, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
24 22 0.15
25 15 0.10
26 89 0.59
27 8 0.05
28 16 0.11
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.28
Consensus pattern (26 bp):
AAATAATATGTAAAACAATTTAAAAT
Found at i:42445 original size:28 final size:28
Alignment explanation
Indices: 42387--42452 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
42377 AGACAATTTA
42387 AAATAATATGTAATTAAAAAGTTTAAAAT
1 AAATAATATGTAA-TAAAAAGTTTAAAAT
*
42416 AAATAATATGTAA-AAAGAAGTTTCAAAT
1 AAATAATATGTAATAAA-AAGTTTAAAAT
42444 AAATAATAT
1 AAATAATAT
42453 ACAAAACAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 3 0.09
28 19 0.54
29 13 0.37
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (28 bp):
AAATAATATGTAATAAAAAGTTTAAAAT
Found at i:43299 original size:15 final size:15
Alignment explanation
Indices: 43264--43313 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
43254 TATTTTTTTT
*
43264 AAAAAA-ATAAAAGG
1 AAAAAACATAAAAAG
* *
43278 AATAAACATAAAACG
1 AAAAAACATAAAAAG
43293 AAAAAACCA-AAAAAG
1 AAAAAA-CATAAAAAG
43308 AAAAAA
1 AAAAAA
43314 GAGCAAACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 5 0.17
15 23 0.77
16 2 0.07
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (15 bp):
AAAAAACATAAAAAG
Found at i:43917 original size:24 final size:24
Alignment explanation
Indices: 43889--44250 Score: 91
Period size: 26 Copynumber: 14.3 Consensus size: 24
43879 ATAATATGTA
*
43889 AAAAATAATTTAAAGTAAATAATAT
1 AAAAAT-ATTTAAAATAAATAATAT
*
43914 AAAAATGTTTAAAATAAATAATAT
1 AAAAATATTTAAAATAAATAATAT
** *
43938 ATGAATTTTTTTTAAAATAAATAATAT
1 A--AA-AATATTTAAAATAAATAATAT
** * **
43965 ACAAAATGGCTCAAAATAAACCATAT
1 A-AAAAT-ATTTAAAATAAATAATAT
* ** *
43991 GAAAAA-ACTTATCATAAATAAAAT
1 -AAAAATATTTAAAATAAATAATAT
*
44015 ATAAAATAGTTCGAAAAT--AT-ATAT
1 A-AAAATA-TT-TAAAATAAATAATAT
* * *
44039 AAAGCA-ATTTAAAGTAAATAATAC
1 AAA-AATATTTAAAATAAATAATAT
*
44063 ATATAATAGTTTAAAATAATATACA-AT
1 A-AAAATA-TTTAAAATAA-ATA-ATAT
* * *
44090 AAAACA-GTTTGAAATGAATACCATAT
1 AAAA-ATATTTAAAATAAATA--ATAT
*
44116 AAAACA-ATTTAAAATTAATAA-AGT
1 AAAA-ATATTTAAAATAAATAATA-T
44140 ATAAAATAGTTTAAAAT-AATAATATAT
1 A-AAAATA-TTTAAAATAAAT-A-ATAT
* * * *
44167 GAAAAAAATGTAAAATAAGTAGTA-
1 -AAAAATATTTAAAATAAATAATAT
* *
44191 ATAAAATAGTTAAAAATAAGTAATAT
1 A-AAAATA-TTTAAAATAAATAATAT
*
44217 ATGAAAAGATTTTAAAATAAATAA-AT
1 A--AAAATA-TTTAAAATAAATAATAT
44243 AAACAATA
1 AAA-AATA
44251 AAATTGCAAA
Statistics
Matches: 248, Mismatches: 54, Indels: 70
0.67 0.15 0.19
Matches are distributed among these distances:
21 4 0.02
22 2 0.01
23 8 0.03
24 56 0.23
25 47 0.19
26 73 0.29
27 55 0.22
28 3 0.01
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (24 bp):
AAAAATATTTAAAATAAATAATAT
Found at i:43936 original size:27 final size:28
Alignment explanation
Indices: 43906--43963 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
43896 ATTTAAAGTA
43906 AATAATAT-AAAAATGTTTAAAATAAAT
1 AATAATATGAAAAATGTTTAAAATAAAT
*** *
43933 AAT-ATATGAATTTTTTTTAAAATAAAT
1 AATAATATGAAAAATGTTTAAAATAAAT
43960 AATA
1 AATA
43964 TACAAAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (28 bp):
AATAATATGAAAAATGTTTAAAATAAAT
Found at i:44181 original size:52 final size:53
Alignment explanation
Indices: 44087--44241 Score: 158
Period size: 52 Copynumber: 3.0 Consensus size: 53
44077 AATAATATAC
* * ** *
44087 AATAAAACAGTTTGAAATGAATACCATAT-AAAACAATTTAAAATTAATAAAGT
1 AATAAAATAGTTTAAAAT-AATAATATATGAAAAAAATTTAAAATTAATAAAGT
*
44140 -ATAAAATAGTTTAAAATAATAATATATGAAAAAAATGTAAAA-TAAGT--AGT
1 AATAAAATAGTTTAAAATAATAATATATGAAAAAAATTTAAAATTAA-TAAAGT
* * * *
44190 AATAAAATAGTTAAAAATAAGTAATATATGAAAAGATTTTAAAATAAATAAA
1 AATAAAATAGTTTAAAATAA-TAATATATGAAAAAAATTTAAAATTAATAAA
44242 TAAACAATAA
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
50 3 0.04
51 29 0.35
52 49 0.58
53 2 0.02
54 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (53 bp):
AATAAAATAGTTTAAAATAATAATATATGAAAAAAATTTAAAATTAATAAAGT
Found at i:45542 original size:154 final size:155
Alignment explanation
Indices: 45370--45678 Score: 593
Period size: 154 Copynumber: 2.0 Consensus size: 155
45360 TTATCTGGCC
45370 GCCTAGGGTTTTTTTTATTTTGGGTTTGGGCTATTTGGGCTTGTTGTGAGTGGACTGAGATTATT
1 GCCTAGGGTTTTTTTTATTTTGGGTTTGGGCTATTTGGGCTTGTTGTGAGTGGACTGAGATTATT
45435 AATTTATTTATTTTTTTGGTTTTTTTATTGGGCCCGGGCAAAAATGGCCTATTACAATAATTTAA
66 AATTTATTTATTTTTTTGGTTTTTTTATTGGGCCCGGGCAAAAATGGCCTATTACAATAATTTAA
45500 TAAAATTTTGATATTTAATGTTATT
131 TAAAATTTTGATATTTAATGTTATT
45525 GCCTAGGG-TTTTTTTATTTTGGGTTTGGGCTATTTGGGCTTGTTGTGAGTGGACTGAGATTATT
1 GCCTAGGGTTTTTTTTATTTTGGGTTTGGGCTATTTGGGCTTGTTGTGAGTGGACTGAGATTATT
* *
45589 AATTTATTTATTTTTTTGGTTTTTTTTTTGGGGCCGGGCAAAAATGGCCTATTACAATAATTTAA
66 AATTTATTTATTTTTTTGGTTTTTTTATTGGGCCCGGGCAAAAATGGCCTATTACAATAATTTAA
45654 TAAAATTTTGATATTTAATGTTATT
131 TAAAATTTTGATATTTAATGTTATT
45679 TTAGTTTTCC
Statistics
Matches: 152, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
154 144 0.95
155 8 0.05
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (155 bp):
GCCTAGGGTTTTTTTTATTTTGGGTTTGGGCTATTTGGGCTTGTTGTGAGTGGACTGAGATTATT
AATTTATTTATTTTTTTGGTTTTTTTATTGGGCCCGGGCAAAAATGGCCTATTACAATAATTTAA
TAAAATTTTGATATTTAATGTTATT
Found at i:47379 original size:18 final size:19
Alignment explanation
Indices: 47340--47376 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47330 TAGATATATG
*
47340 TTATTTTTAAAATTAAAAA
1 TTATTTTCAAAATTAAAAA
47359 TTATTTTCAAAATTAAAA
1 TTATTTTCAAAATTAAAA
47377 TTAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTTTCAAAATTAAAAA
Found at i:48084 original size:13 final size:13
Alignment explanation
Indices: 48065--48100 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48055 CAAATAAATT
48065 GAAGAAAAA-AAA
1 GAAGAAAAAGAAA
48077 GAAAGAAAAAGAAA
1 G-AAGAAAAAGAAA
48091 GAAGAAAAAG
1 GAAGAAAAAG
48101 GCGAGAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 17 0.77
14 4 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGAAA
Found at i:65909 original size:15 final size:16
Alignment explanation
Indices: 65889--65918 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65879 AAATAACAAC
65889 ATTATA-TCATAAATA
1 ATTATACTCATAAATA
65904 ATTATACTCATAAAT
1 ATTATACTCATAAAT
65919 TATCATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATACTCATAAATA
Found at i:66601 original size:49 final size:49
Alignment explanation
Indices: 66538--66644 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 49
66528 TTAAGTGGCA
* * *
66538 GCCCGTGTGGCCCACACGGCCCACCTAACCTACCTATGTGATCACACAT
1 GCCCGTGTGGCCCACAAGGCCCACCAAACCTACCTATGTAATCACACAT
* * ** * * *
66587 GCCCGTGTGTCCCACAAGGCCTACCAAATTTTCTTGTGTAATCACACAT
1 GCCCGTGTGGCCCACAAGGCCCACCAAACCTACCTATGTAATCACACAT
66636 GCCCGTGTG
1 GCCCGTGTG
66645 CTCTGCATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (49 bp):
GCCCGTGTGGCCCACAAGGCCCACCAAACCTACCTATGTAATCACACAT
Found at i:68372 original size:25 final size:25
Alignment explanation
Indices: 68344--68397 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
68334 TGTTCAGGTA
68344 CATGAACAACAGTT-AAAGAAGCATG
1 CATGAACAACA-TTCAAAGAAGCATG
** *
68369 CATGAATGACATTCAAGGAAGCATG
1 CATGAACAACATTCAAAGAAGCATG
68394 CATG
1 CATG
68398 CTGGTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.19
Consensus pattern (25 bp):
CATGAACAACATTCAAAGAAGCATG
Found at i:69646 original size:11 final size:11
Alignment explanation
Indices: 69624--69659 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
69614 GTAAGTTTTG
69624 AAAAAAAT--A
1 AAAAAAATCAA
69633 AAAAAAATCAA
1 AAAAAAATCAA
69644 AAAAAAATCAA
1 AAAAAAATCAA
69655 AAAAA
1 AAAAA
69660 TTTCGTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:70354 original size:43 final size:42
Alignment explanation
Indices: 70297--70381 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 42
70287 CATCGTGGAG
70297 AAAAAATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
1 AAAAAATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
*
70339 AAAAACATCCAATGATTTGGTGAGAAGAGATTCATTTCATGAT
1 AAAAA-ATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
70382 TCCTATTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (42 bp):
AAAAAATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
Found at i:77413 original size:14 final size:15
Alignment explanation
Indices: 77396--77424 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77386 ATACATTTTC
77396 ATACATAC-ATCACA
1 ATACATACAATCACA
77410 ATACATACAATCACA
1 ATACATACAATCACA
77425 TTTAAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
ATACATACAATCACA
Found at i:85522 original size:39 final size:39
Alignment explanation
Indices: 85478--85556 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
85468 TTTGGGGATT
85478 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
1 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
85517 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
1 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
85556 A
1 A
85557 ACTCATTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (39 bp):
ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
Found at i:92399 original size:84 final size:85
Alignment explanation
Indices: 92270--92425 Score: 194
Period size: 84 Copynumber: 1.8 Consensus size: 85
92260 CCGATAATCC
* * * * *
92270 TATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATCTTGGATCTTAT-CTATCTGAAGTTACAGA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAGCTAGGATCTTATCCT-CCTGAAGTTACAGA
92334 GA-GCAGATCGCATCTAGTCT
65 GAGGCAGATCGCATCTAGTCT
*
92354 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AGG-TCTTATCCTCCTGAAGTTACAG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAA--AAGCTAGGATCTTATCCTCCTGAAGTTACAG
*
92417 TGAGGCAGA
64 AGAGGCAGA
92426 CTGAAGATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
84 49 0.80
85 9 0.15
86 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (85 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAGCTAGGATCTTATCCTCCTGAAGTTACAGAG
AGGCAGATCGCATCTAGTCT
Found at i:92426 original size:217 final size:217
Alignment explanation
Indices: 92042--93020 Score: 1443
Period size: 217 Copynumber: 4.5 Consensus size: 217
92032 TGGATCGGTG
* * * * *
92042 GCCGATAATCCTACCTCCTTAAAGTTGTAGTAGAGCTGATTAAAATCTTGGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
* *
92107 AAGTTGCAGAGTGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * *
92172 AGCAGGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAAACCTTATCTCCTTGA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
*
92237 AGTTGCAGTGGAGCGGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* * * *
92259 CCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATCTTGGATCTTATCTATCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
*
92324 AAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
92389 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
*
92454 AGTTGCAGTAGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* *
92476 GCCAATAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATT---A----GGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
*
92534 AAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * *
92599 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAACCTCATCTCACTGA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
92664 AGTTGCAGTGGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* * ** * * *
92686 ACTGATAATCCTATCTCCCTAAAGTTACAATAGAGCGGATTAAAACCTTGGATTTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
92751 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGGCAGTGGAGC-GACTAAGT
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT-GCAGTGGAGCAGACTAAGT
* * * * * *
92815 AAGCAGGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCGAATCTTATCTCCCTA
130 AAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTG
*
92880 AAGTTGCAGTGGAGCAGATTAAA
195 AAGTTGCAGTGGAGCAGGTTAAA
* * * * * * ***
92903 GCTGATGATCCTATCTCTCTGAAGTTGCAGTGGAGCTGATTAAAACCACAGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
* * * *
92968 AAGTTGCAGAGAGCAAATTGCATCTAGTCTTATCTCCCTGATGTTGTAGTGGA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
93021 ATGGATCGAA
Statistics
Matches: 695, Mismatches: 59, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
210 194 0.28
213 1 0.00
214 1 0.00
216 7 0.01
217 482 0.69
218 10 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
AGTTGCAGTGGAGCAGGTTAAA
Found at i:92456 original size:45 final size:44
Alignment explanation
Indices: 92135--92679 Score: 160
Period size: 44 Copynumber: 12.7 Consensus size: 44
92125 CGCATCTAGT
* ***
92135 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
* *
92179 CTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGACAAAC
1 CTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGTAAG-CAAAC
* * ** **
92224 CTTATCTCCTTGAAGTTGCAGTGGAGCGGGTTAA--ACCCGATAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A-AA-C
* * * * ** *
92269 C-TATCTCCCTAAAGTTGTAGTGGAGCAGATTAA--AATCTTGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAAC
** * * * * * * **
92312 CTTATCTATCTGAAGTTACAG-AGAGCAGA-T-CG-CATCTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
***
92352 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
* *
92396 CTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAG-ATGACAAAC
1 CTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTAAG-CAAAC
* ** * * *
92441 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGCCAA-TAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAAC
* * ** * *
92486 C-TATCTCCCTAAAGTTGTAGTGGAGTGGA-T---T-AG--GAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
* * * * * * * **
92522 CTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CG-CATCTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
***
92562 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
* *
92606 CTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAG-ATGGCAAAC
1 CTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAAC
* *
92651 CTCATCTCACTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
92680 GTTAAAACTG
Statistics
Matches: 372, Mismatches: 90, Indels: 77
0.69 0.17 0.14
Matches are distributed among these distances:
36 8 0.02
37 17 0.05
38 1 0.00
40 40 0.11
41 13 0.03
42 7 0.02
43 20 0.05
44 163 0.44
45 95 0.26
46 7 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAAC
Found at i:92886 original size:427 final size:429
Alignment explanation
Indices: 92046--93020 Score: 1420
Period size: 427 Copynumber: 2.3 Consensus size: 429
92036 TCGGTGGCCG
* * * *
92046 ATAATCCTACCTCCTTAAAGTTGTAGTAGAGCTGATTAAAATCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATT--AA-C--GGATCTTATCTCTCTGAAGT
*
92111 TGCAGAGTGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
61 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
* * *
92176 GGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAAACCTTATCTCCTTGAAGTT
126 GGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTCATCTCCTTGAAGTT
* * ** * * *
92241 GCAGTGGAGCGGGTTAAACCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATC
191 GCAGTGGAGCAGGTTAAAACCGATAATCCTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACC
92306 TTGGATCTTATCTATCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
256 TTGGATCTTATCTATCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
*
92371 AGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGA
321 AGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGA
* *
92436 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGCCA
386 CAAACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
*
92480 ATAATCCTATCTCCCTAAAGTTGTAGTGGAG-TGGATT-A-GGATCTTATCTCTCTGAAGTTGCA
1 ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCT-GATTAACGGATCTTATCTCTCTGAAGTTGCA
* *
92542 GAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGTC
65 GAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAGGTC
*
92607 TTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAACCTCATCTCAC-TGAAGTTGCA
130 TTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTCATCTC-CTTGAAGTTGCA
* *
92671 GTGGAGCAGGTTAAAACTGATAATCCTATCTCCCTAAAGTTACAATAGAGCGGATTAAAACCTTG
194 GTGGAGCAGGTTAAAACCGATAATCCTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACCTTG
* * *
92736 GATTTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGGCAG
259 GATCTTATCTATCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT-GCAG
* * *
92801 TGGAGC-GACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCG
323 TGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGACA
* * **
92865 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTG
388 AACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
* * * *
92907 ATGATCCTATCTCTCTGAAGTTGCAGTGGAGCTGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATT---A--ACGGATCTTATCTCTCTGAAGT
* * * *
92972 TGCAGAGAGCAAATTGCATCTAGTCTTATCTCCCTGATGTTGTAGTGGA
61 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
93021 ATGGATCGAA
Statistics
Matches: 488, Mismatches: 42, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
427 378 0.77
428 12 0.02
431 1 0.00
433 2 0.00
434 95 0.19
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (429 bp):
ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAACGGATCTTATCTCTCTGAAGTTGCAG
AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAGGTCT
TATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTCATCTCCTTGAAGTTGCAGT
GGAGCAGGTTAAAACCGATAATCCTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACCTTGGA
TCTTATCTATCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
AGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGACAAAC
CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
Found at i:92928 original size:44 final size:44
Alignment explanation
Indices: 92870--92976 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
92860 TGGCGAATCT
* * * * *
92870 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTGA-TGATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAC-CACAGATCC
* *
92914 TATCTCTCTGAAGTTGCAGTGGAGCTGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCC
92958 TATCTCTCTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAG
92977 AGAGCAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCC
Found at i:93421 original size:26 final size:26
Alignment explanation
Indices: 93374--93423 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
93364 AGGGGGAGCC
* *
93374 TCGCGCCGCAACCAGGATCTTCACGT
1 TCGCGCCGCAACCACGACCTTCACGT
* *
93400 TCGCGCCGCATCCCCGACCTTCAC
1 TCGCGCCGCAACCACGACCTTCAC
93424 CTGTAGCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.20, T:0.18
Consensus pattern (26 bp):
TCGCGCCGCAACCACGACCTTCACGT
Found at i:94888 original size:19 final size:20
Alignment explanation
Indices: 94847--94888 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
94837 ATTTCTATGC
* *
94847 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
94867 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
94886 CAT
1 CAT
94889 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:97008 original size:28 final size:28
Alignment explanation
Indices: 96976--97030 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
96966 CTTTTATTGT
96976 CCAACCCAACTGGGATTTTAAATTAGGC
1 CCAACCCAACTGGGATTTTAAATTAGGC
97004 CCAACCCAACTGGGATTTTAAATTAGG
1 CCAACCCAACTGGGATTTTAAATTAGG
97031 GCCGTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (28 bp):
CCAACCCAACTGGGATTTTAAATTAGGC
Found at i:98372 original size:6 final size:6
Alignment explanation
Indices: 98364--98421 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
98354 TATAGACATG
* * *
98364 CATATG CATATG CATATA CATATA CATATA CATATA CATATA CATACA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
98412 CATATA CATA
1 CATATA CATA
98422 AATATTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (6 bp):
CATATA
Found at i:103771 original size:40 final size:40
Alignment explanation
Indices: 103691--103897 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
103681 TTATAATGTT
* * *
103691 TTCAGAGGTACCAAAGTACAAACAAGGGCACATATGTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
* * * *
103731 TTTAGGGGTATCAAAGTACAAACAGGGGTACGTATTTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
* *
103771 TTCAGGGGTA-CTAAAGTACAAATAGTGGCACATATGTGCA
1 TTCAGGGGTATC-AAAGTACAAACAGGGGCACATATGTGCA
* * ***
103811 TTCAGGGGTATCGAAGTACAAACAGAGGCATGCATGTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
* * * * ** *
103851 TTAAAGGGTACCGAAGTACAAGTAGGGGCACGTATGTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
103891 TTCAGGG
1 TTCAGGG
103898 TACTGAAGTA
Statistics
Matches: 136, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
Found at i:103828 original size:80 final size:79
Alignment explanation
Indices: 103691--103897 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 79
103681 TTATAATGTT
* * *
103691 TTCAGAGGTACCAAAGTACAAACAAGGGCACATATGTGCATTTAGGGGTATCAAAGTACAAACAG
1 TTCAGGGGTACCAAAGTACAAA-TAGGGCACATATGTGCATTCAGGGGTATCAAAGTACAAACAG
* * * *
103756 GGGTACGTATTTGCA
65 AGGCACGCATGTGCA
* *
103771 TTCAGGGGTACTAAAGTACAAATAGTGGCACATATGTGCATTCAGGGGTATCGAAGTACAAACAG
1 TTCAGGGGTACCAAAGTACAAATAG-GGCACATATGTGCATTCAGGGGTATCAAAGTACAAACAG
*
103836 AGGCATGCATGTGCA
65 AGGCACGCATGTGCA
* * * * *
103851 TTAAAGGGTACCGAAGTACAAGTAGGGGCACGTATGTGCATTCAGGG
1 TTCAGGGGTACCAAAGTACAAATA-GGGCACATATGTGCATTCAGGG
103898 TACTGAAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (79 bp):
TTCAGGGGTACCAAAGTACAAATAGGGCACATATGTGCATTCAGGGGTATCAAAGTACAAACAGA
GGCACGCATGTGCA
Found at i:104685 original size:14 final size:15
Alignment explanation
Indices: 104666--104696 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
104656 GTTTTTATTA
104666 TTCATTATTT-TAAT
1 TTCATTATTTATAAT
104680 TTCATTATTTATAAT
1 TTCATTATTTATAAT
104695 TT
1 TT
104697 TATCCTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCATTATTTATAAT
Found at i:111254 original size:45 final size:44
Alignment explanation
Indices: 111165--111293 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 44
111155 ACGGTGGATT
* * *
111165 AGCACATAGC-ACCACCCTTATAGTCAATGATACTCGGTGGAATC
1 AGCACATAGCAACCA-CCTTATAATCAATGATACCCGGTAGAATC
*
111209 AGCACATAGCAATCACCTTCATAATCAATAGA-ACCCGGTAGAATC
1 AGCACATAGCAACCACCTT-ATAATCAAT-GATACCCGGTAGAATC
* * *
111254 AGCACACAACAACCACCTTTATAATCAATGATACCTGGTA
1 AGCACATAGCAACCACC-TTATAATCAATGATACCCGGTA
111294 CACATAGTAG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
44 16 0.22
45 52 0.72
46 4 0.06
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (44 bp):
AGCACATAGCAACCACCTTATAATCAATGATACCCGGTAGAATC
Found at i:120229 original size:25 final size:24
Alignment explanation
Indices: 120183--120229 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
120173 AAGTCATCCC
* *
120183 TAAATATCTCAACATACACAAACT
1 TAAATATCCCAACAAACACAAACT
*
120207 TAAATATCCCAAACAAACTCAAA
1 TAAATATCCC-AACAAACACAAA
120230 TTCAACCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (24 bp):
TAAATATCCCAACAAACACAAACT
Found at i:127674 original size:34 final size:34
Alignment explanation
Indices: 127626--127694 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
127616 CTAAACTAAA
*
127626 TTTACAAGAGAGAATCTAGGCAAAAGGATTGATG
1 TTTACAAGAAAGAATCTAGGCAAAAGGATTGATG
*
127660 TTTACAAGAAAGAATCTAGGCTAAAGGATTGATG
1 TTTACAAGAAAGAATCTAGGCAAAAGGATTGATG
127694 T
1 T
127695 CATAACATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.26
Consensus pattern (34 bp):
TTTACAAGAAAGAATCTAGGCAAAAGGATTGATG
Found at i:132562 original size:19 final size:19
Alignment explanation
Indices: 132517--132562 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
132507 GGATTATGTG
132517 CTTATGTGCCAGGATGCAC
1 CTTATGTGCCAGGATGCAC
** *
132536 CTCGTGTGCTAGGATGCAC
1 CTTATGTGCCAGGATGCAC
*
132555 TTTATGTG
1 CTTATGTG
132563 TCGGTATGCG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (19 bp):
CTTATGTGCCAGGATGCAC
Found at i:135100 original size:11 final size:10
Alignment explanation
Indices: 135059--135107 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
135049 TTGCTCTAAT
*
135059 AATTATTATA
1 AATTTTTATA
*
135069 AATTTTCATA
1 AATTTTTATA
*
135079 AATTTTAATA
1 AATTTTTATA
135089 AATTTTT-TA
1 AATTTTTATA
135098 TAATTTTTAT
1 -AATTTTTAT
135108 GATCTTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.91
11 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTTATA
Found at i:135167 original size:143 final size:145
Alignment explanation
Indices: 134896--135185 Score: 566
Period size: 143 Copynumber: 2.0 Consensus size: 145
134886 TAAGATTTGG
134896 TTGAGATTTTGACTCTAATAATTATTATAAATTTTCATAAATTTTAATAAATTTTTTTATAATTT
1 TTGAGATTTTGACTCTAATAATTATTATAAATTTTCATAAATTTTAATAAATTTTTTTATAATTT
134961 TTATGATCTTTTCTATGTTTTTATAATTCTAGAATGAATCAATTACAGCTCTGATCACTTTTGAT
66 TTATGATCTTTTCTATGTTTTTATAATTCTAGAATGAATCAATTACAGCTCTGATCACTTTTGAT
135026 CTTTCTAGAGGTGTA
131 CTTTCTAGAGGTGTA
135041 TTGAGATTTTG-CTCTAATAATTATTATAAATTTTCATAAATTTTAATAAA-TTTTTTATAATTT
1 TTGAGATTTTGACTCTAATAATTATTATAAATTTTCATAAATTTTAATAAATTTTTTTATAATTT
135104 TTATGATCTTTTCTATGTTTTTATAATTCTAGAATGAATCAATTACAGCTCTGATCACTTTTGAT
66 TTATGATCTTTTCTATGTTTTTATAATTCTAGAATGAATCAATTACAGCTCTGATCACTTTTGAT
135169 CTTTCTAGAGGTGTA
131 CTTTCTAGAGGTGTA
135184 TT
1 TT
135186 TGGTACTGTT
Statistics
Matches: 145, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
143 95 0.66
144 39 0.27
145 11 0.08
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (145 bp):
TTGAGATTTTGACTCTAATAATTATTATAAATTTTCATAAATTTTAATAAATTTTTTTATAATTT
TTATGATCTTTTCTATGTTTTTATAATTCTAGAATGAATCAATTACAGCTCTGATCACTTTTGAT
CTTTCTAGAGGTGTA
Found at i:140480 original size:20 final size:20
Alignment explanation
Indices: 140452--140490 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
140442 CACTCTCGTT
140452 AATGATAAATGGAAATCTAA
1 AATGATAAATGGAAATCTAA
*
140472 AATGGTAAATGGAAATCTA
1 AATGATAAATGGAAATCTA
140491 TAACCCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
AATGATAAATGGAAATCTAA
Found at i:141142 original size:24 final size:25
Alignment explanation
Indices: 141085--141145 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
141075 CGGATAATTT
141085 TCAATA-AAAAAAATGCAGTCCAAAA
1 TCAATAGAAAAAAAT-CAGTCCAAAA
*
141110 TCAACAGAAAAAAAT-AGTCCAAAA
1 TCAATAGAAAAAAATCAGTCCAAAA
141134 GT-AATAGAAAAA
1 -TCAATAGAAAAA
141146 TATGAATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 18 0.56
25 6 0.19
26 8 0.25
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (25 bp):
TCAATAGAAAAAAATCAGTCCAAAA
Found at i:147667 original size:29 final size:27
Alignment explanation
Indices: 147622--147679 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
147612 CTCCATGTTA
*
147622 ATTTTAGTAGTTACCTAGAATGTTTTCAT
1 ATTTTAGTAATTACCTA-AATGTTTT-AT
*
147651 ATTTTATGTAATT-CCTAAGTGTTTTAT
1 ATTTTA-GTAATTACCTAAATGTTTTAT
147678 AT
1 AT
147680 ACTACGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 7 0.27
29 10 0.38
30 5 0.19
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.52
Consensus pattern (27 bp):
ATTTTAGTAATTACCTAAATGTTTTAT
Found at i:148098 original size:29 final size:29
Alignment explanation
Indices: 148063--148122 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
148053 TTTCCTAAGA
148063 TTCTTTAATGTTTTAAAGTACTCTTCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCAAT
* *
148092 TTCTTTAATGTTTTCAAGTATTCTTCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCAAT
148121 TT
1 TT
148123 GTAAGTGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (29 bp):
TTCTTTAATGTTTTAAAGTACTCTTCAAT
Found at i:155846 original size:21 final size:21
Alignment explanation
Indices: 155822--155890 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
155812 GGAATATGGT
*
155822 CGTGTGGCTACTTCACACGCC
1 CGTGTAGCTACTTCACACGCC
155843 CGTGTAGCTACTTCACACGCC
1 CGTGTAGCTACTTCACACGCC
*
155864 CGTGTAGCTACTTCACATGCC
1 CGTGTAGCTACTTCACACGCC
155885 CGTGTA
1 CGTGTA
155891 CACTGACTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.17, C:0.35, G:0.22, T:0.26
Consensus pattern (21 bp):
CGTGTAGCTACTTCACACGCC
Found at i:166582 original size:33 final size:33
Alignment explanation
Indices: 166540--166661 Score: 244
Period size: 33 Copynumber: 3.7 Consensus size: 33
166530 CATAGAAAGG
166540 TACATATGAAAGGTACCCCAATCCAATCCAATA
1 TACATATGAAAGGTACCCCAATCCAATCCAATA
166573 TACATATGAAAGGTACCCCAATCCAATCCAATA
1 TACATATGAAAGGTACCCCAATCCAATCCAATA
166606 TACATATGAAAGGTACCCCAATCCAATCCAATA
1 TACATATGAAAGGTACCCCAATCCAATCCAATA
166639 TACATATGAAAGGTACCCCAATC
1 TACATATGAAAGGTACCCCAATC
166662 ACAACATTTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (33 bp):
TACATATGAAAGGTACCCCAATCCAATCCAATA
Found at i:167249 original size:40 final size:40
Alignment explanation
Indices: 167193--167280 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
167183 CCGAAGACGA
167193 CAGACAGAAGCACATAA-AAGCTAATCCAATCGAAACACAC
1 CAGACAGAAGCACATAAGAA-CTAATCCAATCGAAACACAC
* * *
167233 CAGACAGAAGCTCATAAGAACTAATCCAATTGAAACGCAC
1 CAGACAGAAGCACATAAGAACTAATCCAATCGAAACACAC
167273 CAGACAGA
1 CAGACAGA
167281 GAGTACCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.48, C:0.26, G:0.15, T:0.11
Consensus pattern (40 bp):
CAGACAGAAGCACATAAGAACTAATCCAATCGAAACACAC
Found at i:177861 original size:50 final size:50
Alignment explanation
Indices: 177798--177905 Score: 162
Period size: 50 Copynumber: 2.2 Consensus size: 50
177788 GCTGTAAACG
*
177798 GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCCTACGAGCTAAATAACA
1 GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCATACGAGCTAAATAACA
* * * * *
177848 GTAAGCTCTTTCAAGTTGAATAACGGTAAGCTCATACGAGCTGAGTAACG
1 GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCATACGAGCTAAATAACA
177898 GTAAGCTC
1 GTAAGCTC
177906 ATAAGAGCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCATACGAGCTAAATAACA
Found at i:177906 original size:25 final size:25
Alignment explanation
Indices: 177778--177914 Score: 123
Period size: 25 Copynumber: 5.5 Consensus size: 25
177768 ATACATGTAT
* *
177778 GCTCATATGAGCTGTA-AACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * * *
177802 GCTCCTTCAAGTTGAATAACGCTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * *
177827 GCTCCTACGAGCTAAATAACAGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * *
177852 GCTCTTTCAAGTTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
177877 GCTCATACGAGCTGAGTAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
177902 GCTCATAAGAGCT
1 GCTCATACGAGCT
177915 TAAATCGGTA
Statistics
Matches: 87, Mismatches: 25, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
24 10 0.11
25 77 0.89
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:182051 original size:24 final size:24
Alignment explanation
Indices: 182027--182073 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
182017 AAACTACTTC
182027 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
182052 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
182074 TTTCACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:182410 original size:19 final size:19
Alignment explanation
Indices: 182374--182412 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
182364 ACTAAGTCTA
*
182374 GTTTGAACTTCTTGATTGG
1 GTTTGAACATCTTGATTGG
182393 GTTTGGAACATCTT-ATTGG
1 GTTT-GAACATCTTGATTGG
182412 G
1 G
182413 CCGTGTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (19 bp):
GTTTGAACATCTTGATTGG
Found at i:185003 original size:30 final size:29
Alignment explanation
Indices: 184963--185036 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
184953 TTCGGCTATT
184963 GATTATGAAAAGGGATGGTGACAACCATG
1 GATTATGAAAAGGGATGGTGACAACCATG
** *
184992 GATTAATGAAAAGGGATGGTTTCAACCATC
1 GATT-ATGAAAAGGGATGGTGACAACCATG
* *
185022 GAATATGAAATGGGA
1 GATTATGAAAAGGGA
185037 CGGTTACGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 14 0.36
30 25 0.64
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.23
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTGACAACCATG
Found at i:190748 original size:30 final size:29
Alignment explanation
Indices: 190706--190775 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
190696 TTTGGCTATT
190706 GATTATG-AAAGGGATGGTGACAACCATC
1 GATTATGAAAAGGGATGGTGACAACCATC
* **
190734 GATTAATGAAAAGGGATTGTTTCAACCATC
1 GATT-ATGAAAAGGGATGGTGACAACCATC
*
190764 GAATATGAAAAG
1 GATTATGAAAAG
190776 TGACGGTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 21 0.58
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTGACAACCATC
Found at i:190788 original size:29 final size:30
Alignment explanation
Indices: 190713--190788 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
190703 ATTGATTATG
* * *
190713 AAAGGGATGGTGACAACCATCGATTAATGA
1 AAAGGGACGGTTACAACCATCGAATAATGA
** *
190743 AAAGGGATTGTTTCAACCATCGAAT-ATGA
1 AAAGGGACGGTTACAACCATCGAATAATGA
*
190772 AAAGTGACGGTTACAAC
1 AAAGGGACGGTTACAAC
190789 TGTCGTTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (30 bp):
AAAGGGACGGTTACAACCATCGAATAATGA
Found at i:192457 original size:30 final size:30
Alignment explanation
Indices: 192423--192502 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
192413 TCTAGGCCTG
*
192423 AGCCCTATACAGTAGCAGTGTGTGGGCCAT
1 AGCCCTATACAGTAACAGTGTGTGGGCCAT
* * *
192453 AGCCCAATACAGTAACAGAGTGTGGGCCTT
1 AGCCCTATACAGTAACAGTGTGTGGGCCAT
*
192483 AG-TCTAATACAGTAACAGTG
1 AGCCCT-ATACAGTAACAGTG
192503 CAAATGCAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (30 bp):
AGCCCTATACAGTAACAGTGTGTGGGCCAT
Found at i:199143 original size:32 final size:32
Alignment explanation
Indices: 199107--199174 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
199097 AGAAATATAC
199107 TTATGCGCATATGGGAACATAAGTATGTTTGG
1 TTATGCGCATATGGGAACATAAGTATGTTTGG
199139 TTATGCGCATATGGGAACATAAGTATGTTTGG
1 TTATGCGCATATGGGAACATAAGTATGTTTGG
199171 TTAT
1 TTAT
199175 TTATTTGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (32 bp):
TTATGCGCATATGGGAACATAAGTATGTTTGG
Found at i:200443 original size:50 final size:49
Alignment explanation
Indices: 200328--200570 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 49
200318 GATAATAACA
* ** *
200328 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-ATGGGA-CCTCTCATCTCGG
* * * *
200379 TGCCCATGCCATGTCCCAAACATGGTCTT-ATGGAGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAAT-G-GGACCTCTCATCTCGG
* *
200429 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-ATGGGACCTCTCATCTCGG
* * * *
200479 TGCCAATGCCATGTCCCAGACATGATCTTACATGTGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-ATGGGACCTCTCATCTCGG
*
200529 TGCCAACGCCATGTCCCAGACATGGTCTTCTATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTT-AATGGGACCTCT
200571 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
49 2 0.01
50 131 0.80
51 29 0.18
52 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTAATGGGACCTCTCATCTCGG
Found at i:200518 original size:100 final size:100
Alignment explanation
Indices: 200328--200571 Score: 323
Period size: 100 Copynumber: 2.4 Consensus size: 100
200318 GATAATAACA
* ** * *
200328 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTTATATCGGTGCCAATGCCATGT
*
200393 CCCAAACATGGTCTTATGGAGGACCTCTCATCTCAG
65 CCCAAACATGATCTTATGGAGGACCTCTCATCTCAG
* *
200429 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGGTGCCAATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCCATGTC
* * * *
200494 CCAGACATGATCTTACAT-G-TGACCTCTCGTCTCGG
66 CCAAACATGATCTT--ATGGAGGACCTCTCATCTCAG
200529 TGCCAACGCCATGTCCCAGACATGGTCTT-CTATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTT
200572 TACCCAAATG
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
99 1 0.01
100 88 0.69
101 36 0.28
102 2 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCCATGTC
CCAAACATGATCTTATGGAGGACCTCTCATCTCAG
Found at i:207968 original size:50 final size:50
Alignment explanation
Indices: 207853--208096 Score: 308
Period size: 50 Copynumber: 4.9 Consensus size: 50
207843 GATAATAACA
* * ** * *
207853 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTGG
* * * *** *
207904 TGCCCATGCCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* * *
207954 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* * *
208004 TGCCAACTCCATGTCCCAGACATGGTCGTACATGAGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
208054 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
208097 TACCCAAATG
Statistics
Matches: 162, Mismatches: 31, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
50 132 0.81
51 30 0.19
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:211665 original size:32 final size:32
Alignment explanation
Indices: 211619--211749 Score: 133
Period size: 32 Copynumber: 4.1 Consensus size: 32
211609 ATAAGCCAAA
* *
211619 AGTA-CAGTAATATGATTGGCATAAAGCCATC
1 AGTAGCAGTAATATGATCGGCACAAAGCCATC
* * *
211650 AGTAGCAGTGATATGATCGGCACACAGTCATC
1 AGTAGCAGTAATATGATCGGCACAAAGCCATC
*** *
211682 AGTAATGGTAATATGATTGGCACAAAGCCATC
1 AGTAGCAGTAATATGATCGGCACAAAGCCATC
*
211714 AGT-G-ACGACAATATGATCGGCACAAAGCCATC
1 AGTAGCA-G-TAATATGATCGGCACAAAGCCATC
211746 AGTA
1 AGTA
211750 ACATCGCAAC
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
31 5 0.06
32 75 0.94
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (32 bp):
AGTAGCAGTAATATGATCGGCACAAAGCCATC
Found at i:211728 original size:64 final size:62
Alignment explanation
Indices: 211625--211750 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 62
211615 CAAAAGTACA
* * *
211625 GTAATATGATTGGCATAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGTCATCAGTAATG
1 GTAATATGATTGGCACAAAGCCATCAGTAGCA--GATATGATCGGCACAAAGCCATCAGTAATG
211689 GTAATATGATTGGCACAAAGCCATCAGTGACGACA-ATATGATCGGCACAAAGCCATCAGTAA
1 GTAATATGATTGGCACAAAGCCATCAGT-A-G-CAGATATGATCGGCACAAAGCCATCAGTAA
211751 CATCGCAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
64 52 0.93
65 1 0.02
66 1 0.02
67 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (62 bp):
GTAATATGATTGGCACAAAGCCATCAGTAGCAGATATGATCGGCACAAAGCCATCAGTAATG
Found at i:211962 original size:24 final size:24
Alignment explanation
Indices: 211935--211983 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
211925 AGTTATACAA
*
211935 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
211959 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
211983 A
1 A
211984 CTCAAGGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:212033 original size:27 final size:27
Alignment explanation
Indices: 212002--212346 Score: 267
Period size: 27 Copynumber: 12.8 Consensus size: 27
211992 CAAAATAGTC
212002 TTTTACCCTCTAGGGGCATTACGATCA
1 TTTTACCCTCTAGGGGCATTACGATCA
* * *
212029 TTTTACCCTAC-AAGGGCATTATGGTCA
1 TTTTACCCT-CTAGGGGCATTACGATCA
* * *
212056 TTTTACCCTATAGGGGTATTATGATCA
1 TTTTACCCTCTAGGGGCATTACGATCA
*
212083 TTTTA--CTCTATGGGGTATTACGATCA
1 TTTTACCCTCTA-GGGGCATTACGATCA
* * *
212109 TTTTACCCTATGGGGGTATTAC-AGTCA
1 TTTTACCCTCTAGGGGCATTACGA-TCA
* * *
212136 TTTTATCCTAC-AGGGGCATTACGGTTA
1 TTTTACCCT-CTAGGGGCATTACGATCA
* *
212163 TTTTACCCTAC-AAGGGCATTACGATCT
1 TTTTACCCT-CTAGGGGCATTACGATCA
* *
212190 TTTTACCCTAC-AGGGGCATTATGGTC-
1 TTTTACCCT-CTAGGGGCATTACGATCA
* * *
212216 TTTATACCCTATAGGGGCATTACGGTCT
1 TTT-TACCCTCTAGGGGCATTACGATCA
* * * * *
212244 TTTTACCATATAGGGGTATTACAATCT
1 TTTTACCCTCTAGGGGCATTACGATCA
* *
212271 TTTTACCCTAC-AGGGGCATTATGGTCA
1 TTTTACCCT-CTAGGGGCATTACGATCA
* * *
212298 TTTTACGCTATAGGGGCATTACGGTCA
1 TTTTACCCTCTAGGGGCATTACGATCA
* *
212325 TTTTACGCTATAGGGGCATTAC
1 TTTTACCCTCTAGGGGCATTAC
212347 AGTTATTATA
Statistics
Matches: 264, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.02
26 23 0.09
27 230 0.87
28 7 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTTACCCTCTAGGGGCATTACGATCA
Found at i:212063 original size:54 final size:54
Alignment explanation
Indices: 212002--212346 Score: 372
Period size: 54 Copynumber: 6.4 Consensus size: 54
211992 CAAAATAGTC
* * *
212002 TTTTACCCTCTAGGGGCATTACGATCATTTTACCCTACAAGGGCATTATGGTCA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * * * *
212056 TTTTACCCTATAGGGGTATTATGATCATTTTACTCTA-TGGGGTATTACGATCA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * *
212109 TTTTACCCTATGGGGGTATTAC-AGTCATTTTATCCTACAGGGGCATTACGGTTA
1 TTTTACCCTATAGGGGCATTACGA-TCATTTTACCCTACAGGGGCATTACGGTCA
* * * *
212163 TTTTACCCTACAAGGGCATTACGATCTTTTTACCCTACAGGGGCATTATGGTC-
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * * * ** *
212216 TTTATACCCTATAGGGGCATTACGGTCTTTTTACCATATAGGGGTATTACAATCT
1 TTT-TACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * * *
212271 TTTTACCCTACAGGGGCATTATGGTCATTTTACGCTATAGGGGCATTACGGTCA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
*
212325 TTTTACGCTATAGGGGCATTAC
1 TTTTACCCTATAGGGGCATTAC
212347 AGTTATTATA
Statistics
Matches: 240, Mismatches: 46, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
52 1 0.00
53 45 0.19
54 190 0.79
55 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
Found at i:212347 original size:81 final size:81
Alignment explanation
Indices: 212002--212346 Score: 442
Period size: 81 Copynumber: 4.3 Consensus size: 81
211992 CAAAATAGTC
* *
212002 TTTTACCCTCTAGGGGCATTACGATCATTTTACCCTACAAGGGCATTATGGTCATTTTACCCTAT
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
* * *
212067 AGGGGTATTATGATCA
66 AGGGGCATTACGGTCA
* * ** * ** * *
212083 TTTTACTCTAT-GGGGTATTACGATCATTTTACCCTATGGGGGTATTACAGTCATTTTATCCTAC
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
*
212147 AGGGGCATTACGGTTA
66 AGGGGCATTACGGTCA
* * *
212163 TTTTACCCTACAAGGGCATTACGATCTTTTTACCCTACAGGGGCATTATGGTC-TTTATACCCTA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTT-TACCCTA
*
212227 TAGGGGCATTACGGTCT
65 TAGGGGCATTACGGTCA
* * * * *
212244 TTTTACCATATAGGGGTATTACAATCTTTTTACCCTACAGGGGCATTATGGTCATTTTACGCTAT
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
212309 AGGGGCATTACGGTCA
66 AGGGGCATTACGGTCA
*
212325 TTTTACGCTATAGGGGCATTAC
1 TTTTACCCTATAGGGGCATTAC
212347 AGTTATTATA
Statistics
Matches: 222, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 68 0.31
81 151 0.68
82 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
AGGGGCATTACGGTCA
Found at i:217231 original size:20 final size:20
Alignment explanation
Indices: 217206--217244 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
217196 TTGCTTCCTC
217206 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
217226 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
217245 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:217855 original size:28 final size:27
Alignment explanation
Indices: 217817--217878 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 27
217807 CTGTACTGAC
*
217817 TACTGTATTGGGCTAAGGCCCACACTG
1 TACTGTTTTGGGCTAAGGCCCACACTG
*
217844 TTACTGTTTTGGGTTAAGGCCCACACTG
1 -TACTGTTTTGGGCTAAGGCCCACACTG
217872 TACTGTT
1 TACTGTT
217879 ACTGTATAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
TACTGTTTTGGGCTAAGGCCCACACTG
Found at i:226460 original size:54 final size:54
Alignment explanation
Indices: 226390--226600 Score: 230
Period size: 54 Copynumber: 3.9 Consensus size: 54
226380 TGTGATTCGT
* * ** *
226390 GGGTAAAATAACCGAAATACCCTCAAAGGGTAGAATGACAAAAATACCCCTAAA
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCTAGA
* * * * * *
226444 GGGTAAAATGATCGAAATACCCCCAAAAGGTAAAAAGACTGAATTACCCCCAGA
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCTAGA
* *
226498 GGGTAAAATGACTGAAATACCCT-AAAGGGTAAAATGAGTGAAATA-CCCTCAGA
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCT-AGA
* * * **
226551 GGGTAAAATGACCAAAATACCC-CATAGGGTAAAATGGCTGCTATACCCCT
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCT
226601 GGGAGATTTA
Statistics
Matches: 128, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
52 3 0.02
53 58 0.45
54 67 0.52
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (54 bp):
GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCTAGA
Found at i:226505 original size:26 final size:27
Alignment explanation
Indices: 226390--226586 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
226380 TGTGATTCGT
* * *
226390 GGGTAAAATAACCGAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCCCCAAA
* ** *
226417 GGGTAGAATGACAAAAATACCCCTAAA
1 GGGTAAAATGACTGAAATACCCCCAAA
226444 GGGTAAAATGA-TCGAAATACCCCCAAA
1 GGGTAAAATGACT-GAAATACCCCCAAA
* * * *
226471 AGGTAAAAAGACTGAATTACCCCCAGA
1 GGGTAAAATGACTGAAATACCCCCAAA
*
226498 GGGTAAAATGACTGAAATA-CCCTAAA
1 GGGTAAAATGACTGAAATACCCCCAAA
* * *
226524 GGGTAAAATGAGTGAAATACCCTCAGA
1 GGGTAAAATGACTGAAATACCCCCAAA
** *
226551 GGGTAAAATGACCAAAATA-CCCCATA
1 GGGTAAAATGACTGAAATACCCCCAAA
226577 GGGTAAAATG
1 GGGTAAAATG
226587 GCTGCTATAC
Statistics
Matches: 139, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.27
27 100 0.72
28 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCCAAA
Found at i:226552 original size:53 final size:52
Alignment explanation
Indices: 226390--226586 Score: 223
Period size: 53 Copynumber: 3.7 Consensus size: 52
226380 TGTGATTCGT
* * ** *
226390 GGGTAAAATAACCGAAATACCCTCAAAGGGTAGAATGACAAAAATACCCCTAAA
1 GGGTAAAATGACCGAAATACCC-CAAAGGGTAAAATGACTGAAATACCCC-AGA
* * * *
226444 GGGTAAAATGATCGAAATACCCCCAAAAGGTAAAAAGACTGAATTACCCCCAGA
1 GGGTAAAATGACCGAAATA-CCCCAAAGGGTAAAATGACTGAAATA-CCCCAGA
* * *
226498 GGGTAAAATGACTGAAATACCCTAAAGGGTAAAATGAGTGAAATACCCTCAGA
1 GGGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACTGAAATACCC-CAGA
* *
226551 GGGTAAAATGACCAAAATACCCCATAGGGTAAAATG
1 GGGTAAAATGACCGAAATACCCCAAAGGGTAAAATG
226587 GCTGCTATAC
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 57 0.47
54 53 0.44
55 7 0.06
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (52 bp):
GGGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACTGAAATACCCCAGA
Found at i:233267 original size:56 final size:50
Alignment explanation
Indices: 233135--233268 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
233125 TCCTGTACTA
* * *
233135 CCAAAGCCATGTCCCAGACATGGTCTTATGGGGGAGCTCTCATCTCAATG
1 CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCACAATG
* *
233185 CCAATGCCATGTCTCAGACATGGTCTTATGTGGGACCTCTCATAACCACAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCAT---CAC---AATG
* *
233241 CTAATGCTATGTCCCAGACATGGTCTTA
1 CCAATGCCATGTCCCAGACATGGTCTTA
233269 CATGGGATCT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
50 39 0.56
53 2 0.03
56 29 0.41
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCACAATG
Found at i:241444 original size:50 final size:50
Alignment explanation
Indices: 241387--241511 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
241377 GCCATATCAT
**
241387 AGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAA-GCCATGTCCC
1 AGATATGGTCTTACATGGGACCTCTCATATCGGTG-CCAACGCCATGTCCC
* *
241437 AGATATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
1 AGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
* *
241487 AGACATGGTCTTACGTGGGACCTCT
1 AGATATGGTCTTACATGGGACCTCT
241512 TATAACCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 4 0.06
50 63 0.94
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (50 bp):
AGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
Found at i:252521 original size:28 final size:28
Alignment explanation
Indices: 252490--252560 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 28
252480 ATTGACTAGT
*
252490 GAACCCCAGTTCACAAAAACCAACTGGC
1 GAACCCCAGCTCACAAAAACCAACTGGC
** * *
252518 GAACCTTAGCTCAC-CAAACCAACTGGT
1 GAACCCCAGCTCACAAAAACCAACTGGC
252545 GAACCCCAGCTCACAA
1 GAACCCCAGCTCACAA
252561 TGAATTTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.37, C:0.37, G:0.14, T:0.13
Consensus pattern (28 bp):
GAACCCCAGCTCACAAAAACCAACTGGC
Found at i:254340 original size:6 final size:7
Alignment explanation
Indices: 254323--254347 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
254313 ACTTTGACAA
254323 AAAAATT
1 AAAAATT
254330 AAAAATT
1 AAAAATT
254337 AAAAATT
1 AAAAATT
254344 AAAA
1 AAAA
254348 CATTTTAGTT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:257012 original size:23 final size:25
Alignment explanation
Indices: 256980--257027 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
256970 ACTATAAATA
* *
256980 CTCATTTAAC-AATTAA-CATTTCT
1 CTCATATAACTAATCAATCATTTCT
257003 CTCATATAACTAATCAATCATTTCT
1 CTCATATAACTAATCAATCATTTCT
257028 TAGCAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (25 bp):
CTCATATAACTAATCAATCATTTCT
Found at i:257257 original size:23 final size:23
Alignment explanation
Indices: 257231--257329 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 23
257221 ATAAGTTCCA
* *
257231 CACTGATATGTAGCCAAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
257254 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
257277 CACTG-TAATGTAGCCGTACCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
* *
257300 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
257323 CACTGAT
1 CACTGAT
257330 CAATAACACT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
22 1 0.02
23 62 0.98
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:257567 original size:18 final size:17
Alignment explanation
Indices: 257541--257579 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
257531 ATTTTCCTTC
257541 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
257558 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
257576 CACA
1 CACA
257580 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:262648 original size:18 final size:18
Alignment explanation
Indices: 262625--262659 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
262615 ATGGCAAAAC
262625 CTTAGTATGCTTACAAGA
1 CTTAGTATGCTTACAAGA
262643 CTTAGTATGCTTACAAG
1 CTTAGTATGCTTACAAG
262660 TCTCAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
CTTAGTATGCTTACAAGA
Found at i:263019 original size:13 final size:13
Alignment explanation
Indices: 263001--263033 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
262991 AAAATATCAA
263001 CATCATTTAGCAT
1 CATCATTTAGCAT
263014 CATCATTTAGCAT
1 CATCATTTAGCAT
263027 CATCATT
1 CATCATT
263034 CATAGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (13 bp):
CATCATTTAGCAT
Found at i:275805 original size:29 final size:30
Alignment explanation
Indices: 275748--275818 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
275738 ACAAATCAAG
*
275748 AGAAAGAAAAGAAGAAAAATATGGAGAAAA
1 AGAAAGAAAAGAAGAAAAACATGGAGAAAA
*
275778 AGAAAGAACAA-AAGAAAAACGT-GAGAAAA
1 AGAAAGAA-AAGAAGAAAAACATGGAGAAAA
*
275807 AAAAAGCAAAAG
1 AGAAAG-AAAAG
275819 GGATGATGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 14 0.40
30 19 0.54
31 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (30 bp):
AGAAAGAAAAGAAGAAAAACATGGAGAAAA
Found at i:298500 original size:28 final size:29
Alignment explanation
Indices: 298451--298506 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
298441 ATGTTTTCGT
* *
298451 TGATGAATCTTTGAGATTTTAGGTGTTAAA
1 TGATGAA-CTTTGAGATATTAGATGTTAAA
*
298481 TGATGAA-TTTGAGGTATTAGATGTTA
1 TGATGAACTTTGAGATATTAGATGTTA
298507 TTTATAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
30 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (29 bp):
TGATGAACTTTGAGATATTAGATGTTAAA
Found at i:302126 original size:45 final size:45
Alignment explanation
Indices: 302075--302257 Score: 357
Period size: 45 Copynumber: 4.1 Consensus size: 45
302065 GTGTAATAAT
302075 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
302120 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
302165 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
*
302210 TACATTGTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
302255 TAC
1 TAC
302258 TCAATTAAGA
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (45 bp):
TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
Found at i:302201 original size:24 final size:24
Alignment explanation
Indices: 302174--302246 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
302164 CTACATTTTT
302174 ATTTCTCAAAATATCATTCGATTC
1 ATTTCTCAAAATATCATTCGATTC
* *** *
302198 ATTTATC-TTTTCTACATT-G-TT-
1 ATTTCTCAAAATAT-CATTCGATTC
302219 ATTTCTCAAAATATCATTCGATTC
1 ATTTCTCAAAATATCATTCGATTC
302243 ATTT
1 ATTT
302247 ATCTTTTCTA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 10 0.29
22 5 0.15
23 5 0.15
24 14 0.41
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTCTCAAAATATCATTCGATTC
Found at i:312411 original size:51 final size:51
Alignment explanation
Indices: 312339--312485 Score: 210
Period size: 51 Copynumber: 2.9 Consensus size: 51
312329 GTATGACTTT
312339 ATTTAATGATG-AAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATA
1 ATTT-ATGATGCAAAA-TTTAACTAACATGAGAGTTACATAAAGCATGTCATA
* * *
312391 ATTTATGATGCAAAATTTAACTAAAACGAGAGTAACATAAAGCATGTCATA
1 ATTTATGATGCAAAATTTAACTAACATGAGAGTTACATAAAGCATGTCATA
* *
312442 ATTTATGATGC--AACTTAACTAACATGAGAGTTACATAATGCATG
1 ATTTATGATGCAAAATTTAACTAACATGAGAGTTACATAAAGCATG
312486 ACTTTATTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
49 28 0.33
51 50 0.58
52 8 0.09
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (51 bp):
ATTTATGATGCAAAATTTAACTAACATGAGAGTTACATAAAGCATGTCATA
Found at i:314302 original size:28 final size:29
Alignment explanation
Indices: 314262--314316 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
314252 CTCTCTTTTA
314262 TTTCTTTCACTCT-ATTT-TTCTTTTTCAG
1 TTTCTTTCACTCTCATTTCTT-TTTTTCAG
**
314290 TTTCTTTTTCTCTCATTTCTTTTTTTC
1 TTTCTTTCACTCTCATTTCTTTTTTTC
314317 TTATCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 10 0.43
30 2 0.09
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTCTTTCACTCTCATTTCTTTTTTTCAG
Found at i:314351 original size:21 final size:19
Alignment explanation
Indices: 314290--314348 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
314280 TCTTTTTCAG
314290 TTTCTTTTTCTCTCATTTCT
1 TTTC-TTTTCTCTCATTTCT
* * *
314310 TTTTTTCTTATCTCAAATTCT
1 TTTCTT-TTCTCTC-ATTTCT
314331 TTTACTTTTCTCTCATTT
1 TTT-CTTTTCTCTCATTT
314349 TCTCTCATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 14 0.47
22 2 0.07
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTTTTCTCTCATTTCT
Found at i:326671 original size:50 final size:51
Alignment explanation
Indices: 326612--326718 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
326602 AACACATGCT
*
326612 TAAACTAAATGAACAAACAAGATGCTTAAATGCAAGACTTAA-TTAA-GATG
1 TAAACTAAATGAACAAACAAGATACTT-AATGCAAGACTTAATTTAATGATG
* * *
326662 TAAACTAAATGAACAAACGAGTTACTTAATGCATGACTTAATTTAATGATG
1 TAAACTAAATGAACAAACAAGATACTTAATGCAAGACTTAATTTAATGATG
*
326713 CAAACT
1 TAAACT
326719 TTAACTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 13 0.26
50 28 0.56
51 9 0.18
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (51 bp):
TAAACTAAATGAACAAACAAGATACTTAATGCAAGACTTAATTTAATGATG
Found at i:326748 original size:52 final size:51
Alignment explanation
Indices: 326681--326811 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 51
326671 TGAACAAACG
*
326681 AGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAAAATGAA
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAAAATGAA
* * * ** *
326733 AGTTACATAAAGCATGTCATAATTT-ATGATGCAAACTTAACTACCATGAG
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAAAATGAA
*
326783 AGTTACATAATGCATGACTTTATTTAATG
1 AGTTACATAATGCATGACTTAATTTAATG
326812 CAAAACACAT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
50 32 0.48
51 14 0.21
52 21 0.31
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (51 bp):
AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAAAATGAA
Found at i:326858 original size:33 final size:35
Alignment explanation
Indices: 326809--326876 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
326799 ACTTTATTTA
* *
326809 ATGCAAAACACATAATG-CATGTCATAATTAAAAG
1 ATGCAAAACACATAATGACAAGACATAATTAAAAG
*
326843 ATGC-AAACACTTAATGATCAAGACATAATTAAAA
1 ATGCAAAACACATAATGA-CAAGACATAATTAAAA
326877 ATTGTAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 11 0.38
34 4 0.14
35 14 0.48
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (35 bp):
ATGCAAAACACATAATGACAAGACATAATTAAAAG
Found at i:334122 original size:37 final size:37
Alignment explanation
Indices: 334072--334145 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
334062 ATTGCGATCA
*
334072 ATTTTTGAAGGACTGCTGAAATTATTACAGAGTTTCT
1 ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
334109 ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
1 ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
334146 TCTTCCTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (37 bp):
ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
Found at i:339869 original size:50 final size:50
Alignment explanation
Indices: 339794--340023 Score: 266
Period size: 51 Copynumber: 4.6 Consensus size: 50
339784 CCAGTATGCT
* *
339794 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCTATCATTCCGGTACACA
* ** * * **
339844 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCCAGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCTATCAT-TCCGGTACACA
* *
339895 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGCGACCTATCATTCCGGTACACA
* * * * *
339945 TAGTAGCCTACACATAGTACTACACACGTGACCATTTTCA-TCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGCGACC--TATCATTCCGGTACACA
339996 TAGTAGCCTGCACATAGTACTACACACG
1 TAGTAGCCTGCACATAGTACTACACACG
340024 TGATCTAGCA
Statistics
Matches: 151, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
50 70 0.46
51 77 0.51
52 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCTATCATTCCGGTACACA
Found at i:339918 original size:51 final size:50
Alignment explanation
Indices: 339781--340026 Score: 230
Period size: 50 Copynumber: 4.9 Consensus size: 50
339771 NNNNNNNNNN
* * * * *
339781 TATCCAGTATGCTTAGTAGCCTGCACATAGTACTACACATGCGACCTATC
1 TATCCAGTATACATAGTAGCCTGCACATAGTACTACACACGTGACCAATC
** * * *
339831 -ATTCTGGTACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC
1 TA-TCCAGTATACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAATC
* * * *
339882 TATCCAGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATC
1 TATCCAGTATACATAGTAGCCTGCACATAGTACTACACACGTGACCAATC
* * * * * *
339932 -ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTT
1 TA-TCCAGTATACATAGTAGCCTGCACATAGTACTACACACGTGACCAATC
339982 TCATCC-G-ATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
1 T-ATCCAGTATACA--TAGTAGCCTGCACATAGTACTACACACGTGA
340027 TCTAGCAACT
Statistics
Matches: 156, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
49 5 0.03
50 77 0.49
51 72 0.46
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TATCCAGTATACATAGTAGCCTGCACATAGTACTACACACGTGACCAATC
Found at i:339959 original size:101 final size:101
Alignment explanation
Indices: 339781--339975 Score: 354
Period size: 101 Copynumber: 1.9 Consensus size: 101
339771 NNNNNNNNNN
* *
339781 TATCCAGTATGCTTAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACATA
1 TATCCAGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATA
*
339846 GTAGCCTGCACATAGTACTACACACGTGATCGAAGC
66 GTAGCCTACACATAGTACTACACACGTGATCGAAGC
*
339882 TATCCAGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTA
1 TATCCAGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATA
339947 GTAGCCTACACATAGTACTACACACGTGA
66 GTAGCCTACACATAGTACTACACACGTGA
339976 CCATTTTCAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
TATCCAGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATA
GTAGCCTACACATAGTACTACACACGTGATCGAAGC
Found at i:340000 original size:101 final size:101
Alignment explanation
Indices: 339781--340021 Score: 344
Period size: 101 Copynumber: 2.4 Consensus size: 101
339771 NNNNNNNNNN
* * *
339781 TATCCAGTATGCTTAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACATA
1 TATCCAGTATACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATA
* *
339846 GTAGCCTGCACATAGTACTACACACGTGATCGAAGC
66 GTAGCCTACACATAGTACTACACACGTGATCCAAGC
* *
339882 TATCCAGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTA
1 TATCCAGTATACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATA
***
339947 GTAGCCTACACATAGTACTACACACGTGA-CCATTT
66 GTAGCCTACACATAGTACTACACACGTGATCCAAGC
339982 TCATCC-G-ATACACGTAGTAGCCTGCACATAGTACTACACA
1 T-ATCCAGTATACA--TAGTAGCCTGCACATAGTACTACACA
340022 CGTGATCTAG
Statistics
Matches: 128, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
99 4 0.03
100 4 0.03
101 120 0.94
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
TATCCAGTATACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATA
GTAGCCTACACATAGTACTACACACGTGATCCAAGC
Found at i:341595 original size:13 final size:13
Alignment explanation
Indices: 341577--341605 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
341567 AGTTAAAATA
341577 AATTATATGTACC
1 AATTATATGTACC
341590 AATTATATGTACC
1 AATTATATGTACC
341603 AAT
1 AAT
341606 GTTACAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (13 bp):
AATTATATGTACC
Found at i:348107 original size:16 final size:15
Alignment explanation
Indices: 348084--348128 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
348074 AATTTTTGAA
*
348084 AAATAATTATTTTAT
1 AAATAATTAATTTAT
348099 AAATAAATTAATTTAT
1 AAAT-AATTAATTTAT
*
348115 AAA-AATTAAATTAT
1 AAATAATTAATTTAT
348129 TATTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 10 0.37
15 4 0.15
16 13 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATAATTAATTTAT
Found at i:350842 original size:43 final size:43
Alignment explanation
Indices: 350789--351182 Score: 416
Period size: 43 Copynumber: 9.2 Consensus size: 43
350779 TTTTAGAAAT
* * * *
350789 AAACGCCGCTATAGAACAAGACCTTTAGCAGCACGTTTCACAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
*
350832 AAACTCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTTC-CAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGC-TTTTCACAC
* * * *
350875 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGTTTTTCACAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * *
350918 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
* * ** * *
350961 AAATGCTGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * *
351004 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * * *
351047 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGGTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * * *
351090 AAACGCCGCTATA-AATCATCACTTTTAGTGGCACTTTTCTCAC
1 AAACGCCGCTATAGAA-CAAGACTTTTAGCGGCGCTTTTCACAC
* * * *
351133 AAACGCCGCGAAAGATC-AGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
351175 AAACGCCG
1 AAACGCCG
351183 GTAAAAACAT
Statistics
Matches: 312, Mismatches: 35, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
42 32 0.10
43 275 0.88
44 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
Found at i:350902 original size:86 final size:86
Alignment explanation
Indices: 350789--351182 Score: 504
Period size: 86 Copynumber: 4.6 Consensus size: 86
350779 TTTTAGAAAT
* * * * * * * *
350789 AAACGCCGCTATAGAACAAGACCTTTAGCAGCACGTTTCACACAAACTCCGCTATAGAACAAGAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAACATGAC
*
350854 TTTTAGCGGCGCTTTTTCCAC
66 TTTTAGCGGCGCTTTTCCCAC
* * **
350875 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGTTTTTCACACAAACGCCGCTATAGGTCATGAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAACATGAC
350940 TTTTAGCGGCGCTTTTCCCAC
66 TTTTAGCGGCGCTTTTCCCAC
* * * * **
350961 AAATGCTGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAACATGAC
351026 TTTTAGCGGCGCTTTTCCCAC
66 TTTTAGCGGCGCTTTTCCCAC
* * * *
351047 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGGTTTTCCCACAAACGCCGCTATA-AATCATCA
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAA-CATGA
* * *
351111 CTTTTAGTGGCACTTTTCTCAC
65 CTTTTAGCGGCGCTTTTCCCAC
* * *
351133 AAACGCCGCGAAAGATCA-GACCTTTAGCGGCGCTTTTCACACAAACGCCG
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCACACAAACGCCG
351183 GTAAAAACAT
Statistics
Matches: 273, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
85 29 0.11
86 244 0.89
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAACATGAC
TTTTAGCGGCGCTTTTCCCAC
Found at i:350996 original size:129 final size:129
Alignment explanation
Indices: 350789--351182 Score: 524
Period size: 129 Copynumber: 3.1 Consensus size: 129
350779 TTTTAGAAAT
** * * * * * * * *
350789 AAACGCCGCTATAGAACAAGACCTTTAGCAGCACGTTTCACACAAACT-CCGCTATAGAACAAGA
1 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAA-TGCCGCTATAGATCATGA
*
350853 CTTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACTTTTAGCGGCGTTTTTCACAC
65 CTTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCACAC
* *
350918 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAATGCTGCTATAGGTCATGAC
1 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCATGAC
* * * *
350983 TTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
66 TTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCACAC
* * * *
351047 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGGTTTTCCCACAAACGCCGCTATAAATCATCAC
1 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCATGAC
* * * *
351112 TTTTAGTGGCAC-TTTTCTCACAAACGCCGCGAAAGATCA-GACCTTTAGCGGCGCTTTTCACAC
66 TTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCACAC
351175 AAACGCCG
1 AAACGCCG
351183 GTAAAAACAT
Statistics
Matches: 232, Mismatches: 31, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
128 35 0.15
129 197 0.85
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (129 bp):
AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCATGAC
TTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCACAC
Found at i:351513 original size:43 final size:43
Alignment explanation
Indices: 351447--351533 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
351437 ACATATGCAA
* *
351447 GGTAATAAAACATACAATGCATTTTCTTAATC-AAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAAG-AAATCTT
* *
351490 GGTAATAAAAGATATAATACATTTACTTAATCAAAGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAAGAAATCTT
351533 G
1 G
351534 TACATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 36 0.92
44 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAAGAAATCTT
Found at i:354929 original size:7 final size:7
Alignment explanation
Indices: 354916--354952 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
354906 AACCTTAAAT
354916 CCCTAAC
1 CCCTAAC
*
354923 TCCTAAC
1 CCCTAAC
354930 CCCTAAC
1 CCCTAAC
354937 CCCTAAC
1 CCCTAAC
*
354944 TCCTAAC
1 CCCTAAC
354951 CC
1 CC
354953 TTAAACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.54, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:355363 original size:14 final size:14
Alignment explanation
Indices: 355346--355399 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
355336 CCCTAGCCTT
355346 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
355360 TAAACCATAACCCC
1 TAAACCATAAACCA
*
355374 TAAACCCATAATCCA
1 TAAA-CCATAAACCA
*
355389 TAAACCTTAAA
1 TAAACCATAAA
355400 ATGGTAACAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:355471 original size:13 final size:13
Alignment explanation
Indices: 355453--355479 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
355443 CCAAAAACCC
355453 TATACTCTAACGA
1 TATACTCTAACGA
355466 TATACTCTAACGA
1 TATACTCTAACGA
355479 T
1 T
355480 TATATAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (13 bp):
TATACTCTAACGA
Done.