Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001540.1 Hibiscus syriacus cultivar Beakdansim tig00003025_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 139098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1373 original size:57 final size:57
Alignment explanation
Indices: 1134--1721 Score: 692
Period size: 57 Copynumber: 10.4 Consensus size: 57
1124 GTCCAATACA
* * * * ** ** *
1134 GAAATTCATAAAATTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCCATCT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
1192 AGAAATT-TTACACTTAGTATGATTTCCTTATCATTTAAGCGTACGAAATGCCCTATCT
1 -GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
1250 AAAATTCATACACTTAGTATGATTTATTAACA-TTTAGCGTACGGAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * * * * * *
1306 GAAATTCATACACATGGTATGATTTTTTAACATATTAGCATATGAAATGACATATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
1363 GAAATGCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAATGCTCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *** *
1420 GAAATT-AGACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGTATTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1476 GAAATTTATACACTTAGTATGATTTCTTAACA--TTAGCGTATGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1531 GAAATTCATACACTTAGTATG-TTTTTTAACATTTTAGCGTACGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1587 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCTTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1644 GAAATTCATACACTTAGTATG-TTTTTTAACA-TTTAGCGTACGATACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1699 GAAATTCAT--ACTTAGTATGATTT
1 GAAATTCATACACTTAGTATGATTT
1722 TTTATTTTGC
Statistics
Matches: 460, Mismatches: 61, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
53 10 0.02
54 12 0.03
55 68 0.15
56 150 0.33
57 160 0.35
58 54 0.12
59 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:1375 original size:113 final size:113
Alignment explanation
Indices: 1134--1721 Score: 672
Period size: 113 Copynumber: 5.2 Consensus size: 113
1124 GTCCAATACA
* * * * * ** ** *
1134 GAAATTCATAAAATTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCCATCTAGAAATT
1 GAAATTCATACACTTAGTATG-ATTTATTAACATTTTAGCGTACGAAACGCCCTATCT-GAAATT
* * * * * *
1199 -TTACACTTAGTATGATTTCCTTATCATTTAAGCGTACGAAATGCCCTATCT
64 CATACACTTAGTATG-TTT-TTTAACATTTTAGCGTACGAAACGACCTATCT
* * *
1250 AAAATTCATACACTTAGTATGATTTATTAACA-TTTAGCGTACGGAATGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
* * * * * * *
1314 TACACATGGTATGATTTTTTAACATATTAGCATATGAAATGACATATCT
66 TACACTTAGTATG-TTTTTTAACATTTTAGCGTACGAAACGACCTATCT
* * *
1363 GAAATGCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAATGCTCTATCTGAAATT-A
1 GAAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
* * * *
1427 GACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGTA-TTATTT
66 TACACTTAGTATG-TTTTTTAACATTTTAGCGTACGAAACG-ACCTATCT
* * *
1476 GAAATTTATACACTTAGTATGATTTCTTAACA--TTAGCGTATGAAACGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
*
1539 TACACTTAGTATGTTTTTTAACATTTTAGCGTACGAAACGTCCTATCT
66 TACACTTAGTATGTTTTTTAACATTTTAGCGTACGAAACGACCTATCT
* * *
1587 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCTTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
* *
1652 TACACTTAGTATGTTTTTTAACA-TTTAGCGTACGATACGCCCTATCT
66 TACACTTAGTATGTTTTTTAACATTTTAGCGTACGAAACGACCTATCT
1699 GAAATTCAT--ACTTAGTATGATTT
1 GAAATTCATACACTTAGTATGATTT
1722 TTTATTTTGC
Statistics
Matches: 412, Mismatches: 53, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
110 14 0.03
111 87 0.21
112 44 0.11
113 178 0.43
114 62 0.15
115 9 0.02
116 18 0.04
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (113 bp):
GAAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
TACACTTAGTATGTTTTTTAACATTTTAGCGTACGAAACGACCTATCT
Found at i:2082 original size:20 final size:20
Alignment explanation
Indices: 2057--2112 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
2047 TCTGGTCCTT
*
2057 TGGTATCGATACCCCTTTTA
1 TGGTATCGATACCCCTATTA
*
2077 TGGTATCGATACTATCCTATTA
1 TGGTATCGATAC--CCCTATTA
*
2099 GGGTATCGATACCC
1 TGGTATCGATACCC
2113 TTAAGTATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (20 bp):
TGGTATCGATACCCCTATTA
Found at i:10374 original size:19 final size:19
Alignment explanation
Indices: 10350--10402 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
10340 GAAAATGATA
*
10350 AAAAAAAAGGGAAAAAAAG
1 AAAAAAAAGAGAAAAAAAG
* *
10369 AAAAAAAAAAGAAAGAAAG
1 AAAAAAAAGAGAAAAAAAG
10388 AAAGAAAAAGA-AAAA
1 AAA-AAAAAGAGAAAA
10403 GTGAAAATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAGAAAAAAAG
Found at i:10375 original size:23 final size:22
Alignment explanation
Indices: 10349--10402 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
10339 AGAAAATGAT
**
10349 AAAAAAAAAGGGAAAAAAAGAA
1 AAAAAAAAAAAGAAAAAAAGAA
*
10371 AAAAAAAAGAAAGAAAGAAAGAA
1 AAAAAAAA-AAAGAAAAAAAGAA
*
10394 AAAGAAAAA
1 AAAAAAAAA
10403 GTGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAAAGAA
Found at i:10408 original size:18 final size:18
Alignment explanation
Indices: 10360--10400 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10350 AAAAAAAAGG
* *
10360 GAAAAAAAGAAAAAAAAAA
1 GAAAGAAAG-AAAGAAAAA
10379 GAAAGAAAGAAAGAAAAA
1 GAAAGAAAGAAAGAAAAA
10397 GAAA
1 GAAA
10401 AAGTGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAGAAAAA
Found at i:11632 original size:88 final size:86
Alignment explanation
Indices: 11529--11821 Score: 304
Period size: 88 Copynumber: 3.3 Consensus size: 86
11519 TTCAACCTCA
* * *
11529 ACTCGATTCAATCACATCAGGAGTAGGATTAACACAAACACTTTGCTTGATTCCTTCATATAAGA
1 ACTCGATTCAATCACATCAAGAGTTGGATTAACAC-AACACTTTGCTCGATTCCTTCATATAAGA
** *
11594 AGTTGGATCTGCATTGCCTTTTT
65 AGTTGGATCT-CATCACCTTTTC
* * * *
11617 ACTCGATTCAATCACATCAAGAGTTGAATCAACATCAACACTTTGCTCGATTCCATCATATAACA
1 ACTCGATTCAATCACATCAAGAGTTGGATTAACA-CAACACTTTGCTCGATTCCTTCATATAAGA
* *
11682 AGTTAGATCATCATCACATTTTC
65 AGTTGGATC-TCATCACCTTTTC
* ** * *
11705 GCTCGATTCAATCACATCAAGAGTTGGA-TAATCACCAGTATTTTACTCGATTCCATT-ATATAA
1 ACTCGATTCAATCACATCAAGAGTTGGATTAA-CA-CAACACTTTGCTCGATTCC-TTCATATAA
* *
11768 GAAGTTGTATCAACATCACCTTTTC
63 GAAGTTGGATC-TCATCACCTTTTC
*
11793 ACTCGATTCAATCACA-CCAGCAGTTGGAT
1 ACTCGATTCAATCACATCAAG-AGTTGGAT
11822 CAGCACCAGT
Statistics
Matches: 171, Mismatches: 28, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
87 5 0.03
88 163 0.95
89 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (86 bp):
ACTCGATTCAATCACATCAAGAGTTGGATTAACACAACACTTTGCTCGATTCCTTCATATAAGAA
GTTGGATCTCATCACCTTTTC
Found at i:11754 original size:44 final size:43
Alignment explanation
Indices: 11613--11821 Score: 149
Period size: 44 Copynumber: 4.8 Consensus size: 43
11603 TGCATTGCCT
*
11613 TTTTACTCGATTCAATCACATCAAGAGTTGAATCAA-CATCAACA
1 TTTTACTCGATTCAATCACATCAAGAGTTGGAT-AATCATC-ACA
* * * * * * *
11657 CTTTGCTCGATTCCATCATAT-AACAAGTTAGATCATCATCACA
1 TTTTACTCGATTCAATCACATCAA-GAGTTGGATAATCATCACA
* * *
11700 TTTTCGCTCGATTCAATCACATCAAGAGTTGGATAATCACCAGTA
1 TTTT-ACTCGATTCAATCACATCAAGAGTTGGATAATCATCA-CA
* * * * *
11745 TTTTACTCGATTCCATTATAT-AAGAAGTTGTATCAA-CATCACC
1 TTTTACTCGATTCAATCACATCAAG-AGTTGGAT-AATCATCACA
*
11788 TTTTCACTCGATTCAATCACA-CCAGCAGTTGGAT
1 TTTT-ACTCGATTCAATCACATCAAG-AGTTGGAT
11822 CAGCACCAGT
Statistics
Matches: 126, Mismatches: 30, Indels: 18
0.72 0.17 0.10
Matches are distributed among these distances:
43 16 0.13
44 101 0.80
45 9 0.07
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (43 bp):
TTTTACTCGATTCAATCACATCAAGAGTTGGATAATCATCACA
Found at i:11845 original size:176 final size:176
Alignment explanation
Indices: 11530--11849 Score: 385
Period size: 176 Copynumber: 1.8 Consensus size: 176
11520 TCAACCTCAA
* * *
11530 CTCGATTCAATCACATCAGGAGTAGGATTAACACAAACACTTTGCTTGATTCCTTCATATAAGAA
1 CTCGATTCAATCACATCAAGAGTAGGATTAACACAAACACTTTACTCGATTCCTTCATATAAGAA
** ** * * *
11595 GTTGGATCTGCATTGCCTTTTTACTCGATTCAATCACATCAAGAGTTGAATCAACATCAACACTT
66 GTTGGATCAACATCACCTTTTCACTCGATTCAATCACATCAAGAGTTGAATCAACACCAACACTA
*
11660 TGCTCGATTCCATCATATAACAAGTTAGATCATCATCACATTTTCG
131 CGCTCGATTCCATCATATAACAAGTTAGATCATCATCACATTTTCG
* * ** *
11706 CTCGATTCAATCACATCAAGAGTTGGA-TAATCACCAGTATTTTACTCGATTCCATT-ATATAAG
1 CTCGATTCAATCACATCAAGAGTAGGATTAA-CACAAACACTTTACTCGATTCC-TTCATATAAG
* * * * **
11769 AAGTTGTATCAACATCACCTTTTCACTCGATTCAATCACA-CCAGCAGTTGGATCAGCACCAGTA
64 AAGTTGGATCAACATCACCTTTTCACTCGATTCAATCACATCAAG-AGTTGAATCAACACCAACA
*
11833 CTACGTTCGATTCCATC
128 CTACGCTCGATTCCATC
11850 GGATGAGTTA
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
175 6 0.05
176 110 0.93
177 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (176 bp):
CTCGATTCAATCACATCAAGAGTAGGATTAACACAAACACTTTACTCGATTCCTTCATATAAGAA
GTTGGATCAACATCACCTTTTCACTCGATTCAATCACATCAAGAGTTGAATCAACACCAACACTA
CGCTCGATTCCATCATATAACAAGTTAGATCATCATCACATTTTCG
Found at i:17768 original size:21 final size:21
Alignment explanation
Indices: 17742--17795 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
17732 AAAAATTGAT
17742 TTTTGAAAATATATAATATGG
1 TTTTGAAAATATATAATATGG
17763 TTTTGAAAATATATAATATGG
1 TTTTGAAAATATATAATATGG
*
17784 TTTTTAAAATAT
1 TTTTGAAAATAT
17796 GTTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (21 bp):
TTTTGAAAATATATAATATGG
Found at i:17801 original size:13 final size:14
Alignment explanation
Indices: 17777--17808 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
17767 GAAAATATAT
17777 AATATGGTTTTTAA
1 AATATGGTTTTTAA
17791 AATAT-GTTTTTAA
1 AATATGGTTTTTAA
17804 AATAT
1 AATAT
17809 ATATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
AATATGGTTTTTAA
Found at i:17823 original size:36 final size:35
Alignment explanation
Indices: 17756--17828 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
17746 GAAAATATAT
* *
17756 AATATGGTTTTGAAAATATATAATATGGTTTTTAA
1 AATATGGTTTTGAAAATATATAATATAGTTTTAAA
*
17791 AATAT-GTTTTTAAAATATATATTATATAGTTTTAAA
1 AATATGGTTTTGAAAATATATA--ATATAGTTTTAAA
17827 AA
1 AA
17829 ATTGAAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 15 0.45
35 5 0.15
36 13 0.39
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.47
Consensus pattern (35 bp):
AATATGGTTTTGAAAATATATAATATAGTTTTAAA
Found at i:17861 original size:67 final size:65
Alignment explanation
Indices: 17765--17895 Score: 154
Period size: 67 Copynumber: 2.0 Consensus size: 65
17755 TAATATGGTT
* * * ** ** * * *
17765 TTGAAAATATATAATATGGTTTTTAAAATATGTTTTTAAAATATATATTATATAGTTTTAAAAAA
1 TTGAAAACATATAATATAGTTTTAAAAATAAATTTCGAAAACATATATTATATAATTTCAAAAAA
17830 TTGAAAACATATAATATATAGTTTTAAAAATAAATTTCGAAAACATATATTATATAATTTCAAAA
1 TTGAAAACATAT-A-ATATAGTTTTAAAAATAAATTTCGAAAACATATATTATATAATTTCAAAA
17895 A
64 A
17896 CAATTTTTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 11 0.20
66 1 0.02
67 42 0.78
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (65 bp):
TTGAAAACATATAATATAGTTTTAAAAATAAATTTCGAAAACATATATTATATAATTTCAAAAAA
Found at i:17872 original size:36 final size:34
Alignment explanation
Indices: 17802--17919 Score: 118
Period size: 36 Copynumber: 3.5 Consensus size: 34
17792 ATATGTTTTT
* *
17802 AAAATATATATTATATAGTTTT--AAAAAA-TTG
1 AAAACATATAATATATAGTTTTAAAAAAAATTTG
17833 AAAACATATAATATATAGTTTTAAAAATAAATTTCG
1 AAAACATATAATATATAGTTTTAAAAA-AAATTT-G
* * * *
17869 AAAACATATATTATATAATTTCAAAAACAATTTTTG
1 AAAACATATAATATATAGTTTTAAAAA-AA-ATTTG
17905 AAAACATAT-ATATAT
1 AAAACATATAATATAT
17920 TTTATAATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
31 20 0.27
33 3 0.04
34 3 0.04
35 7 0.10
36 37 0.51
37 3 0.04
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAACATATAATATATAGTTTTAAAAAAAATTTG
Found at i:17948 original size:41 final size:40
Alignment explanation
Indices: 17874--17961 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 40
17864 TTTCGAAAAC
* *
17874 ATATATTATATAATTTCAAAAACAATTTTTGAAAACATAT
1 ATATATTATATAATTTCAAAAACAACTATTGAAAACATAT
* *
17914 ATATATTTTATAATTTTGAAAAACAACTATTGAAAACATAT
1 ATATATTATATAA-TTTCAAAAACAACTATTGAAAACATAT
17955 ATCATAT
1 AT-ATAT
17962 AATTTCGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 12 0.29
41 26 0.62
42 4 0.10
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (40 bp):
ATATATTATATAATTTCAAAAACAACTATTGAAAACATAT
Found at i:17984 original size:37 final size:37
Alignment explanation
Indices: 17830--17993 Score: 163
Period size: 36 Copynumber: 4.4 Consensus size: 37
17820 TTTTAAAAAA
* * * *
17830 TTGAAAACATATAATATATAGTTTTAAAAATAAA-TT
1 TTGAAAACATATATTATATAATTTCAAAAACAAATTT
*
17866 TCGAAAACATATATTATATAATTTCAAAAAC-AATTT
1 TTGAAAACATATATTATATAATTTCAAAAACAAATTT
* * *
17902 TTGAAAACATATATATATTTTATAATTTTGAAAAAC-AACTA
1 TTGAAAACATATAT-TA---TATAA-TTTCAAAAACAAATTT
* *
17943 TTGAAAACATATATCATATAATTTCGAAAACAAATTT
1 TTGAAAACATATATTATATAATTTCAAAAACAAATTT
*
17980 TTGAAAGCATATAT
1 TTGAAAACATATAT
17994 AAACGTTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
35 2 0.02
36 49 0.46
37 23 0.22
40 6 0.06
41 26 0.25
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (37 bp):
TTGAAAACATATATTATATAATTTCAAAAACAAATTT
Found at i:18115 original size:14 final size:14
Alignment explanation
Indices: 18081--18134 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 14
18071 ATTCATATTA
*
18081 ATTATTAATTTTTT
1 ATTATTATTTTTTT
18095 ATT-TTATTTTTTT
1 ATTATTATTTTTTT
*
18108 ATTATTATTTTTTCG
1 ATTATTATTTTTT-T
*
18123 ATTTTTATTTTT
1 ATTATTATTTTT
18135 CAGGTCCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.34
14 12 0.34
15 11 0.31
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTATTATTTTTTT
Found at i:18119 original size:27 final size:29
Alignment explanation
Indices: 18081--18134 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
18071 ATTCATATTA
*
18081 ATTATTAATTTTT-TA-TTTTATTTTTTT
1 ATTATTAATTTTTCGATTTTTATTTTTTT
*
18108 ATTATTATTTTTTCGATTTTTATTTTT
1 ATTATTAATTTTTCGATTTTTATTTTT
18135 CAGGTCCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 1 0.04
29 10 0.43
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (29 bp):
ATTATTAATTTTTCGATTTTTATTTTTTT
Found at i:19254 original size:30 final size:32
Alignment explanation
Indices: 19199--19260 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
19189 TTAAATCCTT
19199 TTAATTTAAAATTTTCTTTTACTTT-ATATTTC
1 TTAATTT-AAATTTTCTTTTACTTTAATATTTC
* *
19231 TTAATTT-AATTTTGTTTTGCTTTAATATTT
1 TTAATTTAAATTTTCTTTTACTTTAATATTT
19261 TAAACTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 6 0.22
32 7 0.26
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (32 bp):
TTAATTTAAATTTTCTTTTACTTTAATATTTC
Found at i:28905 original size:60 final size:59
Alignment explanation
Indices: 28820--28974 Score: 159
Period size: 59 Copynumber: 2.6 Consensus size: 59
28810 TTTGTCATTT
* * * * * * *
28820 TTACTTTTGATAATCATATCGTTACCCAAACTATTACTATTTTATGTATTTTAGTCACTAT
1 TTACTTTTAATAATTATAT-TTTACCCTAACTATT-CTATTTTATGCATTTTAATCACTAA
* * *
28881 TTAGTTTTCATAATTATATTTTACCTCTACCT-TTCTATTTTATGCATTTTAATCACTAA
1 TTACTTTTAATAATTATATTTTACC-CTAACTATTCTATTTTATGCATTTTAATCACTAA
* *
28940 TTACTTTTAATATTTATGTTTTAACCCTAACTATT
1 TTACTTTTAATAATTATATTTT-ACCCTAACTATT
28975 TTATACTTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
59 45 0.58
60 12 0.16
61 20 0.26
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (59 bp):
TTACTTTTAATAATTATATTTTACCCTAACTATTCTATTTTATGCATTTTAATCACTAA
Found at i:29206 original size:2 final size:2
Alignment explanation
Indices: 29199--29480 Score: 86
Period size: 2 Copynumber: 150.0 Consensus size: 2
29189 GTCCGAGATA
* *
29199 AT AT AT AT -T AT AT AGT AC ACT -T AT AT AGT GT AT AT AT AT -T
1 AT AT AT AT AT AT AT A-T AT A-T AT AT AT A-T AT AT AT AT AT AT
*
29239 AT -T AT AT -T AT AT AT AGT AT AT -T AT AT -T AT AT AT -T TT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* *
29277 AG A- AGT AT -T AT -T AT AT -T AT AT AT AT AT AT -T AT GT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
29315 GAT AT AT -T TT AT GGT AGT AT -T AT -T AT AT AT -T AT AT AT AGT
1 -AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T
* *
29355 AT AT -T AT AT AT ACG AT AT -T AT AT AT -T AT -T AT -T GT AGT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
29394 A- AT TT AT AT AA AT AT -T AT TT AT -T AT AT CT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
29432 -T AT -T AT AGC AT AT AT TT AT -T AT AT AT -T AT AGT AT AT TT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
29472 AT -T AT AT AT
1 AT AT AT AT AT
29481 TATCATTATT
Statistics
Matches: 208, Mismatches: 28, Indels: 88
0.64 0.09 0.27
Matches are distributed among these distances:
1 31 0.15
2 158 0.76
3 19 0.09
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (2 bp):
AT
Found at i:29212 original size:7 final size:7
Alignment explanation
Indices: 29200--29498 Score: 138
Period size: 7 Copynumber: 41.7 Consensus size: 7
29190 TCCGAGATAA
29200 TATATAT
1 TATATAT
*
29207 TATATAG
1 TATATAT
* *
29214 TACA-CT
1 TATATAT
29220 TATATAGT
1 TATATA-T
29228 GTATATA-
1 -TATATAT
29235 TAT-TAT
1 TATATAT
29241 TATAT-T
1 TATATAT
29247 ATATATAGT
1 -TATATA-T
29256 ATATTATAT
1 -TA-TATAT
29265 TATATAT
1 TATATAT
*
29272 TTTATA-
1 TATATAT
*
29278 GA-AGTAT
1 TATA-TAT
29285 TATTATAT
1 TA-TATAT
29293 TATATA-
1 TATATAT
29299 TATATAT
1 TATATAT
29306 TATGTATAT
1 TA--TATAT
*
29315 GATATAT
1 TATATAT
* **
29322 TTTATGG
1 TATATAT
29329 TAGTATTAT
1 TA-TA-TAT
29338 TATATAT
1 TATATAT
29345 TATATA-
1 TATATAT
29351 TAGTATAT
1 TA-TATAT
29359 TATATA-
1 TATATAT
*
29365 TACGATAT
1 TA-TATAT
29373 TATATAT
1 TATATAT
29380 TAT-TAT
1 TATATAT
*
29386 TGTAGTAT
1 TATA-TAT
* *
29394 AATTTAT
1 TATATAT
*
29401 ATAAATAT
1 -TATATAT
*
29409 TATTTAT
1 TATATAT
*
29416 TATAT-C
1 TATATAT
29422 TATATAT
1 TATATAT
29429 TAT-TAT
1 TATATAT
*
29435 TATAGCAT
1 TATA-TAT
*
29443 ATATTTAT
1 -TATATAT
29451 TATATAT
1 TATATAT
29458 TATAGTAT
1 TATA-TAT
*
29466 ATTTATAT
1 -TATATAT
29474 TATATAT
1 TATATAT
*
29481 TAT-CAT
1 TATATAT
*
29487 TATTTAT
1 TATATAT
29494 TATAT
1 TATAT
29499 TCTATTATTA
Statistics
Matches: 219, Mismatches: 41, Indels: 64
0.68 0.13 0.20
Matches are distributed among these distances:
5 3 0.01
6 43 0.20
7 108 0.49
8 34 0.16
9 27 0.12
10 4 0.02
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (7 bp):
TATATAT
Found at i:29320 original size:50 final size:50
Alignment explanation
Indices: 29235--29372 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 50
29225 AGTGTATATA
29235 TATTATTATATTATATATAGTATATTA-TAT-T-ATATATTTTATAGAAG
1 TATTATTATATTATATATAGTATATTATTATATGATATATTTTATAGAAG
* *
29282 TATTATTATATTATATATA-TATATTATGTATATGATATATTTTATGGTAG
1 TATTATTATATTATATATAGTATATTAT-TATATGATATATTTTATAGAAG
*
29332 TATTATTATATATTATATATAGTATATTATATATACGATAT
1 TATTA-T-TATATTATATATAGTATATTAT-TATATGATAT
29373 TATATATTAT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
46 7 0.09
47 19 0.24
48 3 0.04
49 1 0.01
50 19 0.24
51 1 0.01
52 13 0.16
53 17 0.21
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (50 bp):
TATTATTATATTATATATAGTATATTATTATATGATATATTTTATAGAAG
Found at i:29432 original size:49 final size:51
Alignment explanation
Indices: 29355--29489 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 51
29345 TATATATAGT
** * *
29355 ATATTATATATA-CGATATTATATATTATTATTGTAGTATA-ATTTATATAA
1 ATATTATATATATTTATATTATATATTATTATTATAGCATATATTTAT-TAA
*
29405 ATATTAT-T-TA-TTATATCTATATATTATTATTATAGCATATATTTATTAT
1 ATATTATATATATTTATAT-TATATATTATTATTATAGCATATATTTATTAA
*
29454 ATATTATAGTATATTTATATTATATATTATCATTAT
1 ATATTATA-TATATTTATATTATATATTATTATTAT
29490 TTATTATATT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
48 6 0.08
49 30 0.41
50 13 0.18
51 1 0.01
52 17 0.23
53 6 0.08
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (51 bp):
ATATTATATATATTTATATTATATATTATTATTATAGCATATATTTATTAA
Found at i:29506 original size:13 final size:13
Alignment explanation
Indices: 29229--29519 Score: 145
Period size: 13 Copynumber: 23.1 Consensus size: 13
29219 TTATATAGTG
29229 TATA-TATATTAT
1 TATATTATATTAT
*
29241 TATATTATATATAG
1 TATATTATAT-TAT
29255 TATATTATATTAT
1 TATATTATATTAT
* ** *
29268 ATATTTTATAGAAG
1 -TATATTATATTAT
29282 TATTATTATATTA-
1 TA-TATTATATTAT
29295 TATATATATATTAT
1 TATAT-TATATTAT
*
29309 GTATATGATA-TAT
1 -TATATTATATTAT
* ** *
29322 TTTATGGTAGTAT
1 TATATTATATTAT
29335 TAT-TATATATTAT
1 TATAT-TATATTAT
*
29348 ATATAGTATATTAT
1 -TATATTATATTAT
**
29362 ATATACGATATTA-
1 -TATATTATATTAT
29375 TATA-T-TATTAT
1 TATATTATATTAT
* * *
29386 TGTAGTATAAT-T
1 TATATTATATTAT
*
29398 TATATAAATATTAT
1 TATAT-TATATTAT
29412 T-TATTATATCTA-
1 TATATTATAT-TAT
29424 TATA-T-TATTAT
1 TATATTATATTAT
**
29435 TATAGCATA-TAT
1 TATATTATATTAT
29447 T-TATTATA-TAT
1 TATATTATATTAT
*
29458 TATAGTATA-T-T
1 TATATTATATTAT
29469 TATATTATA-TAT
1 TATATTATATTAT
29481 TATCATTAT-TTAT
1 TAT-ATTATATTAT
*
29494 TATATTCTATTAT
1 TATATTATATTAT
*
29507 TAT-TAATATTAT
1 TATATTATATTAT
29519 T
1 T
29520 TTCGGTTTTT
Statistics
Matches: 218, Mismatches: 35, Indels: 52
0.71 0.11 0.17
Matches are distributed among these distances:
10 7 0.03
11 29 0.13
12 57 0.26
13 65 0.30
14 55 0.25
15 5 0.02
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:29618 original size:39 final size:39
Alignment explanation
Indices: 29575--29658 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
29565 CAACTATGAA
29575 GCCCAATA-AAAGCAAG-TCTGACCTAGCAAGCCCGGCAAG
1 GCCCAA-ACAAAGCAAGCT-TGACCTAGCAAGCCCGGCAAG
* * *
29614 GCCCAAACAAAGTAAGCTTGACCTAGCAAGCTCGGTAAG
1 GCCCAAACAAAGCAAGCTTGACCTAGCAAGCCCGGCAAG
29653 GCCCAA
1 GCCCAA
29659 GCCCGTCTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.03
39 38 0.95
40 1 0.03
ACGTcount: A:0.36, C:0.30, G:0.23, T:0.12
Consensus pattern (39 bp):
GCCCAAACAAAGCAAGCTTGACCTAGCAAGCCCGGCAAG
Found at i:39032 original size:2 final size:2
Alignment explanation
Indices: 39027--39062 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
39017 TTTCTCTCGC
39027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39063 TTCTATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41105 original size:7 final size:7
Alignment explanation
Indices: 41090--41171 Score: 53
Period size: 7 Copynumber: 11.6 Consensus size: 7
41080 CAGAAGATAC
*
41090 TATAAAA
1 TATATAA
41097 TATATAA
1 TATATAA
*
41104 TAT-TTA
1 TATATAA
41110 TAATATAA
1 T-ATATAA
41118 TATATAA
1 TATATAA
41125 TAAATATAA
1 T--ATATAA
41134 TATA-ATA
1 TATATA-A
* *
41141 TGTATAC
1 TATATAA
*
41148 TATATAC
1 TATATAA
*
41155 T-TATAC
1 TATATAA
41161 TATATAA
1 TATATAA
41168 TATA
1 TATA
41172 CACTATCTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
6 10 0.16
7 40 0.66
8 4 0.07
9 7 0.11
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:41116 original size:16 final size:16
Alignment explanation
Indices: 41098--41137 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
41088 ACTATAAAAT
*
41098 ATATAATAT-TTAT-A
1 ATATAATATATAATAA
41112 ATATAATATATAATAA
1 ATATAATATATAATAA
41128 ATATAATATA
1 ATATAATATA
41138 ATATGTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 3 0.13
16 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATATATAATAA
Found at i:41153 original size:21 final size:21
Alignment explanation
Indices: 41095--41141 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
41085 GATACTATAA
**
41095 AATATATAATATTTATAATAT
1 AATATATAATAAATATAATAT
41116 AATATATAATAAATATAATAT
1 AATATATAATAAATATAATAT
41137 AATAT
1 AATAT
41142 GTATACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATATAATAAATATAATAT
Found at i:45117 original size:24 final size:24
Alignment explanation
Indices: 45090--45138 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
45080 TGCATAACAT
*
45090 TGTACATATATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
45114 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
45138 T
1 T
45139 CACGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:50818 original size:29 final size:29
Alignment explanation
Indices: 50771--50826 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
50761 AAATTATAGA
*
50771 TAATGACCAAAATGCAAACTTCGAAAATT
1 TAATGACCAAAATACAAACTTCGAAAATT
* * *
50800 TAATGACCAAAGTATAAACTTTGAAAA
1 TAATGACCAAAATACAAACTTCGAAAA
50827 AAATTAGGGA
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:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (29 bp):
TAATGACCAAAATACAAACTTCGAAAATT
Found at i:52549 original size:24 final size:25
Alignment explanation
Indices: 52517--52568 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
52507 ACATGCATAA
52517 CATTGTACATAGATGTTTTATACAT
1 CATTGTACATAGATGTTTTATACAT
*
52542 CATT-TACATAGATGTTTTATTCAT
1 CATTGTACATAGATGTTTTATACAT
52566 CAT
1 CAT
52569 CAGGAAGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (25 bp):
CATTGTACATAGATGTTTTATACAT
Found at i:59840 original size:19 final size:19
Alignment explanation
Indices: 59816--59852 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59806 ATTTGAATTT
*
59816 AAAAAAAATGAAAATGCAA
1 AAAAAAAACGAAAATGCAA
59835 AAAAAAAACGAAAATGCA
1 AAAAAAAACGAAAATGCA
59853 TGATGCATGA
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:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAAAAAACGAAAATGCAA
Found at i:63109 original size:25 final size:24
Alignment explanation
Indices: 63063--63132 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 24
63053 CTAAAAATTC
*
63063 AAATTAATATCAAATAACAAAATA
1 AAATTAATATCAAATAAAAAAATA
*
63087 AAATATAATAT-AAAT-TAAAAA-A
1 AAAT-TAATATCAAATAAAAAAATA
* *
63109 AAATTAA-ATTAAA-AAAAAATTA
1 AAATTAATATCAAATAAAAAAATA
63131 AA
1 AA
63133 GATGGATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.05
21 10 0.26
22 8 0.21
23 4 0.11
24 8 0.21
25 6 0.16
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATTAATATCAAATAAAAAAATA
Found at i:63116 original size:16 final size:16
Alignment explanation
Indices: 63097--63132 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
63087 AAATATAATA
63097 TAAATTAAAAAAAAAT
1 TAAATTAAAAAAAAAT
63113 TAAATTAAAAAAAAAT
1 TAAATTAAAAAAAAAT
63129 TAAA
1 TAAA
63133 GATGGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAATTAAAAAAAAAT
Found at i:64806 original size:6 final size:6
Alignment explanation
Indices: 64797--64829 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
64787 CTTTTCAAGT
*
64797 TTTTTA TTTTTG TTTTTA TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
64830 CAAGCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:70818 original size:20 final size:18
Alignment explanation
Indices: 70771--70844 Score: 66
Period size: 17 Copynumber: 4.2 Consensus size: 18
70761 GTATGAATCC
70771 TATAATATTAAT-AATAA
1 TATAATATTAATAAATAA
*
70788 TACAATA-TAATAAATAA
1 TATAATATTAATAAATAA
*
70805 TGATAATATTTAATATA-AA
1 T-ATAATA-TTAATAAATAA
* *
70824 TATACTA-TAATATATAA
1 TATAATATTAATAAATAA
70841 TATA
1 TATA
70845 TGCTATATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
16 11 0.23
17 18 0.38
18 10 0.21
19 3 0.06
20 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
TATAATATTAATAAATAA
Found at i:70839 original size:7 final size:7
Alignment explanation
Indices: 70771--70960 Score: 100
Period size: 7 Copynumber: 27.7 Consensus size: 7
70761 GTATGAATCC
70771 TATAATA
1 TATAATA
70778 T-TAATA
1 TATAATA
70784 -ATAATACAA
1 TATAAT---A
70793 TATAATA
1 TATAATA
*
70800 AATAAT-
1 TATAATA
*
70806 GATAATA
1 TATAATA
*
70813 TTTAATA
1 TATAATA
*
70820 TAAATATA
1 TATA-ATA
70828 CTATAATA
1 -TATAATA
70836 TATAATA
1 TATAATA
**
70843 TATGCTA
1 TATAATA
70850 TATAA-A
1 TATAATA
70856 T-T-ATA
1 TATAATA
*
70861 CTACAATA
1 -TATAATA
70869 -ATAATA
1 TATAATA
*
70875 TATACTA
1 TATAATA
70882 TATAATA
1 TATAATA
70889 TATAAT-
1 TATAATA
*
70895 TACT-A-C
1 TA-TAATA
*
70901 TATAACA
1 TATAATA
*
70908 TATAACA
1 TATAATA
70915 TATAATA
1 TATAATA
70922 TTTATAATA
1 --TATAATA
70931 TAT-AT-
1 TATAATA
70936 TAT-ATA
1 TATAATA
70942 TATAATA
1 TATAATA
*
70949 TATACTA
1 TATAATA
70956 TATAA
1 TATAA
70961 AATAATACTA
Statistics
Matches: 143, Mismatches: 19, Indels: 42
0.70 0.09 0.21
Matches are distributed among these distances:
4 1 0.01
5 8 0.06
6 33 0.23
7 76 0.53
8 9 0.06
9 11 0.08
10 5 0.03
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.41
Consensus pattern (7 bp):
TATAATA
Found at i:70853 original size:14 final size:14
Alignment explanation
Indices: 70781--71038 Score: 110
Period size: 14 Copynumber: 18.0 Consensus size: 14
70771 TATAATATTA
*
70781 ATAATA-ATACAAT
1 ATAATATATACTAT
*
70794 ATAATAAATA--AT
1 ATAATATATACTAT
* *
70806 GATAATATTTAATAT
1 -ATAATATATACTAT
* *
70821 AAATATACTATAATAT
1 ATA-ATA-TATACTAT
*
70837 ATAATATATGCTAT
1 ATAATATATACTAT
*
70851 ATAAATTATACTACAAT
1 AT-AA-TATA-TACTAT
70868 AATAATATATACTAT
1 -ATAATATATACTAT
70883 ATAATATATAATTACTACT
1 AT-A-ATAT-A-TACTA-T
*
70902 ATAACATATAAC-AT
1 ATAATATAT-ACTAT
*
70916 ATAATATTTA-TA-
1 ATAATATATACTAT
70928 ATATATATTATA-TAT
1 ATA-ATA-TATACTAT
70943 ATAATATATACTAT
1 ATAATATATACTAT
* *
70957 ATAAAATAATACTACC
1 ATAATAT-ATACTA-T
70973 ATAA-A-ATA-TAT
1 ATAATATATACTAT
* *
70984 CAT-ATACATAGTAT
1 -ATAATATATACTAT
70998 -TATATATATACTAT
1 ATA-ATATATACTAT
*
71012 ATACT-TATACTAT
1 ATAATATATACTAT
*
71025 GTAATATATACTAT
1 ATAATATATACTAT
71039 CCCGGACGAA
Statistics
Matches: 192, Mismatches: 22, Indels: 61
0.70 0.08 0.22
Matches are distributed among these distances:
11 1 0.01
12 11 0.06
13 40 0.21
14 61 0.32
15 30 0.16
16 28 0.15
17 10 0.05
18 8 0.04
19 3 0.02
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAATATATACTAT
Found at i:70873 original size:32 final size:32
Alignment explanation
Indices: 70817--70892 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 32
70807 ATAATATTTA
* *
70817 ATATAAATATACTATAATATATAATATATGCT
1 ATATAAATATACTACAATATATAATATATACT
70849 ATATAAATTATACTACAATA-ATAATATATACT
1 ATATAAA-TATACTACAATATATAATATATACT
70881 ATATAATATATA
1 ATATAA-ATATA
70893 ATTACTACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 28 0.70
33 12 0.30
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (32 bp):
ATATAAATATACTACAATATATAATATATACT
Found at i:70877 original size:39 final size:40
Alignment explanation
Indices: 70829--70934 Score: 117
Period size: 39 Copynumber: 2.6 Consensus size: 40
70819 ATAAATATAC
** *
70829 TATAATATATAATATATGCTATATAAATTA-TACTACAATA
1 TATAATATATAATATATAATATAT-AATTACTACTACAACA
* *
70869 -ATAATATATACTATATAATATATAATTACTACTATAACA
1 TATAATATATAATATATAATATATAATTACTACTACAACA
*
70908 TATAACATATAATATTTATAATATATA
1 TATAATATATAATA--TATAATATATA
70935 TTATATATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 5 0.09
39 28 0.51
40 11 0.20
42 11 0.20
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.41
Consensus pattern (40 bp):
TATAATATATAATATATAATATATAATTACTACTACAACA
Found at i:70889 original size:53 final size:54
Alignment explanation
Indices: 70829--71023 Score: 162
Period size: 53 Copynumber: 3.7 Consensus size: 54
70819 ATAAATATAC
*
70829 TATA-ATATATAATATATGCTATATAAATTATACTACAATAATAATATATACTA
1 TATACATATATAATATATACTATATAAATTATACTACAATAATAATATATACTA
* *
70882 TATA-ATATATAAT-TACTACTATA-ACA-TATA--ACATATAATATTTATAATA-TA
1 TATACATATATAATATA-TACTATATAAATTATACTACA-ATAATA-ATAT-ATACTA
* * *
70933 TATTATATATATAATATATACTATATAAAATAATACTACCATAA-AATATAT-C-A
1 TA-TACATATATAATATATACTATAT-AAATTATACTACAATAATAATATATACTA
*
70986 TATACATAGTATTATATATATACTATAT-ACTTATACTA
1 TATACATA-TA-TA-ATATATACTATATAAATTATACTA
71024 TGTAATATAT
Statistics
Matches: 116, Mismatches: 10, Indels: 32
0.73 0.06 0.20
Matches are distributed among these distances:
49 3 0.03
50 6 0.05
51 11 0.09
52 14 0.12
53 48 0.41
54 6 0.05
55 18 0.16
56 4 0.03
57 4 0.03
58 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.41
Consensus pattern (54 bp):
TATACATATATAATATATACTATATAAATTATACTACAATAATAATATATACTA
Found at i:71020 original size:6 final size:7
Alignment explanation
Indices: 70998--71038 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
70988 TACATAGTAT
70998 TATA-TA
1 TATACTA
71004 TATACTA
1 TATACTA
71011 TATACT-
1 TATACTA
71017 TATACTA
1 TATACTA
* *
71024 TGTAATA
1 TATACTA
71031 TATACTA
1 TATACTA
71038 T
1 T
71039 CCCGGACGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (7 bp):
TATACTA
Found at i:77772 original size:29 final size:31
Alignment explanation
Indices: 77723--77791 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
77713 AATTTAGATA
*
77723 GTGACCAAAATGAAAA-TTTTG-AAAGTTT-G
1 GTGACC-AAATGAAAACTTTGGAAAAGTTTAG
*
77752 GTGACCAAATTATAAACTTTGGAAAAGTTTAG
1 GTGACCAAATGA-AAACTTTGGAAAAGTTTAG
77784 G-GACCAAA
1 GTGACCAAA
77792 ATGGTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.15
29 9 0.26
30 4 0.12
31 14 0.41
32 2 0.06
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (31 bp):
GTGACCAAATGAAAACTTTGGAAAAGTTTAG
Found at i:78201 original size:30 final size:30
Alignment explanation
Indices: 78161--78218 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
78151 TGACTTAAGG
*
78161 AAGATGATAAGGGTTAGGT-TCTTGGTTTGA
1 AAGAAGATAA-GGTTAGGTGTCTTGGTTTGA
78191 AAGAAGATAAGGTTAGGTGTCTTGGTTT
1 AAGAAGATAAGGTTAGGTGTCTTGGTTT
78219 AATGGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.36
Consensus pattern (30 bp):
AAGAAGATAAGGTTAGGTGTCTTGGTTTGA
Found at i:80343 original size:6 final size:7
Alignment explanation
Indices: 80329--80361 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
80319 AACCAAACAA
80329 ATCACAT
1 ATCACAT
80336 AT-ACAT
1 ATCACAT
80342 ATCACAT
1 ATCACAT
80349 AT-ACAT
1 ATCACAT
80355 ATCACAT
1 ATCACAT
80362 TCAGTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (7 bp):
ATCACAT
Found at i:80347 original size:13 final size:13
Alignment explanation
Indices: 80329--80361 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
80319 AACCAAACAA
80329 ATCACATATACAT
1 ATCACATATACAT
80342 ATCACATATACAT
1 ATCACATATACAT
80355 ATCACAT
1 ATCACAT
80362 TCAGTATATT
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:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (13 bp):
ATCACATATACAT
Found at i:80703 original size:23 final size:23
Alignment explanation
Indices: 80660--80703 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
80650 ATTACATATA
*
80660 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACCTAGAAT
*
80683 TGTCCCGAAGGACCGCCTAGA
1 TGTCCCGAAGGACCACCTAGA
80704 CCCTCGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (23 bp):
TGTCCCGAAGGACCACCTAGAAT
Found at i:80790 original size:17 final size:17
Alignment explanation
Indices: 80768--80805 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
80758 GTCATTATCT
*
80768 TTCATATTTATCACATA-
1 TTCATATCTAT-ACATAG
80785 TTCATATCTATACATAG
1 TTCATATCTATACATAG
80802 TTCA
1 TTCA
80806 CTTACATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (17 bp):
TTCATATCTATACATAG
Found at i:80972 original size:14 final size:14
Alignment explanation
Indices: 80953--80986 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
80943 CCATGTAATG
80953 ATATAAATCAAATC
1 ATATAAATCAAATC
**
80967 ATATAAATCGTATC
1 ATATAAATCAAATC
80981 ATATAA
1 ATATAA
80987 CTTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (14 bp):
ATATAAATCAAATC
Found at i:87900 original size:29 final size:32
Alignment explanation
Indices: 87853--87934 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 32
87843 AAAATTTAGA
87853 TAGTGACCAAAATGA-AAATTTT-GA-AAGTT
1 TAGTGACCAAAATGATAAATTTTGGAGAAGTT
87882 TAGTGACCAAAAT-ATAAATTTTGGAGAAGTT
1 TAGTGACCAAAATGATAAATTTTGGAGAAGTT
*
87913 TAGGGACCAAAATGATAAATTT
1 TAGTGACCAAAATGATAAATTT
87935 AAAAAGTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 20 0.42
30 2 0.04
31 17 0.35
32 8 0.17
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.30
Consensus pattern (32 bp):
TAGTGACCAAAATGATAAATTTTGGAGAAGTT
Found at i:88330 original size:30 final size:30
Alignment explanation
Indices: 88294--88351 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
88284 TGACTTAAGG
*
88294 AAGATGATAAGGGTTAGGT-TTTTGGTTTGA
1 AAGATGATAA-GGTTAGGTGTCTTGGTTTGA
88324 AAGATGATAAGGTTAGGTGTCTTGGTTT
1 AAGATGATAAGGTTAGGTGTCTTGGTTT
88352 AATGGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.40
Consensus pattern (30 bp):
AAGATGATAAGGTTAGGTGTCTTGGTTTGA
Found at i:89077 original size:30 final size:31
Alignment explanation
Indices: 89043--89108 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
89033 ATAAGCCTTA
* *
89043 GAAAAATTTGGAGACC-ATTATG-TAATTTTT
1 GAAAAATTGGGAGACCAATT-CGATAATTTTT
* *
89073 GAAAAGTTGGGTGACCAATTCGATAATTTTT
1 GAAAAATTGGGAGACCAATTCGATAATTTTT
89104 GAAAA
1 GAAAA
89109 GTTTTGAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (31 bp):
GAAAAATTGGGAGACCAATTCGATAATTTTT
Found at i:91490 original size:2 final size:2
Alignment explanation
Indices: 91483--91530 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
91473 TGATTCACTC
91483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91525 AT AT AT
1 AT AT AT
91531 CATTTCCAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93764 original size:24 final size:26
Alignment explanation
Indices: 93727--93791 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 26
93717 TTCAAAAACA
* *
93727 ATATGTTTTGAAAAATTATATG-TTAT
1 ATATGCTTTCAAAAATTA-ATGTTTAT
93753 ATATG-TTT-AAAAA--AATGTTTAT
1 ATATGCTTTCAAAAATTAATGTTTAT
93775 ATATGCTTTCAAAAATT
1 ATATGCTTTCAAAAATT
93792 GTTTTCGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.09
22 10 0.29
23 3 0.09
24 10 0.29
25 3 0.09
26 5 0.15
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (26 bp):
ATATGCTTTCAAAAATTAATGTTTAT
Found at i:93777 original size:22 final size:23
Alignment explanation
Indices: 93749--93795 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
93739 AAATTATATG
93749 TTATATATG-TTTAAAAAAATGT
1 TTATATATGCTTTAAAAAAATGT
* *
93771 TTATATATGCTTTCAAAAATTGT
1 TTATATATGCTTTAAAAAAATGT
93794 TT
1 TT
93796 TCGAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TTATATATGCTTTAAAAAAATGT
Found at i:93887 original size:42 final size:40
Alignment explanation
Indices: 93772--93931 Score: 220
Period size: 42 Copynumber: 4.0 Consensus size: 40
93762 AAAAAATGTT
* *
93772 TATATATGCTTTCAAAAATTGTTTTCGAAA-T-TAT-ATA
1 TATATATGTTTTCAAAAATTGTTTTCAAAACTATATAATA
*
93809 -ATATATGTTTTCAAAAGTTGTTTTCAAAACTATATAATA
1 TATATATGTTTTCAAAAATTGTTTTCAAAACTATATAATA
93848 TATATATGTTTTCAAAAAGTTGTTTTTCAAAACTATATAATA
1 TATATATGTTTTCAAAAA-TTG-TTTTCAAAACTATATAATA
* * *
93890 CATATATGTTTTCAAAAATTGTTTTTAAAACTATATATTA
1 TATATATGTTTTCAAAAATTGTTTTCAAAACTATATAATA
93930 TA
1 TA
93932 CGTTTTTAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
36 26 0.24
37 1 0.01
38 3 0.03
39 3 0.03
40 34 0.31
41 6 0.06
42 36 0.33
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (40 bp):
TATATATGTTTTCAAAAATTGTTTTCAAAACTATATAATA
Found at i:100508 original size:23 final size:23
Alignment explanation
Indices: 100482--100528 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
100472 TTTCATTTAT
* *
100482 AAAACATTCAATTCACTT-AATAG
1 AAAACATAC-ATTAACTTAAATAG
100505 AAAACATACATTAACTTAAATAG
1 AAAACATACATTAACTTAAATAG
100528 A
1 A
100529 TGAACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAACATACATTAACTTAAATAG
Found at i:101316 original size:54 final size:54
Alignment explanation
Indices: 101234--101672 Score: 569
Period size: 54 Copynumber: 8.1 Consensus size: 54
101224 CAAACAGCCC
* *
101234 CTTAGTGTCAAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
1 CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
*
101288 CTTAGTGTCGAAACGGTTATTCATCCACATAGGAGGAATTCCGTTG-AATGCACA
1 CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCG-TGAAATGCACA
* * * * *
101342 CTTAGTGTCAAAACAGTTATTCATCCATATAGGATGAATTTCGTTAAATGCACA
1 CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
* * * *
101396 CTTAGT-TCTAAAACGATTATTCAACCACATAGGATGAATTCCATGAAATGCACA
1 CTTAGTGTC-GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
*
101450 CTTAGTG-CAGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATTCACA
1 CTTAGTGTC-GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
** * * *
101504 CTTAGTACCGAAACGATTATTCATCCATATATGATGAATTCCGTGAAATGCACA
1 CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
* * * * * *
101558 ATTAGTGTTGAAATGGTTAGTCATCCATATAGGATGAATTCTGTGAAATGCACA
1 CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
* * * *
101612 CTTAGTGCCTAAACGGTTATTCATACACATAGGATGAATTCCGTGAAATGTACA
1 CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
*
101666 CATAGTG
1 CTTAGTG
101673 CCTATTTGGT
Statistics
Matches: 333, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.01
54 327 0.98
55 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (54 bp):
CTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACA
Found at i:102211 original size:95 final size:95
Alignment explanation
Indices: 102030--102214 Score: 226
Period size: 95 Copynumber: 1.9 Consensus size: 95
102020 ACTTGTATAC
* * * * * *
102030 TATGGTACCGATACCCCCTTCGGGTATCGATACCAAAAATAGGTTCGATGTTTCCTGGTATCGAT
1 TATGGTACCGATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGCTTACTGGTATCAAT
**
102095 ACCCTTACCATGGTATCGATACTATGTGAT
66 ACCCTTACCACAGTATCGATACTATGTGAT
* * * *
102125 TATGGTACTGATACCCCCTACCGGTATCGATACCAAAATTAGATTCGATGCTTATTGGTATTAAT
1 TATGGTACCGATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGCTTACTGGTATCAAT
** * *
102190 ACTTTTGCCACAGTATTGATACTAT
66 ACCCTTACCACAGTATCGATACTAT
102215 TCAGTAAATG
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (95 bp):
TATGGTACCGATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGCTTACTGGTATCAAT
ACCCTTACCACAGTATCGATACTATGTGAT
Found at i:108377 original size:54 final size:54
Alignment explanation
Indices: 108317--108709 Score: 432
Period size: 54 Copynumber: 7.3 Consensus size: 54
108307 TTTCGTACTT
* * * * * *
108317 TGCACACATAGTGTCGAAACAGTTATTCATTCACATATGATGAATTCCGCGTAA
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * ** * *
108371 TTCACACTTAGTACCGAAATTGTTATTCATCCGCATAGGATGAATTTCGTGAAA
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * * * *
108425 AGCACAATTAGTGCCAAAACAGTTATTCATCCTCATATGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
* ** * *
108479 TGCACACTTAGTGTCGAAATGGTTATTCATCCACATAGGATTAATTCCATGAAA
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * * * *
108533 TGCACACTTAGTGCC-AAAAATGTTATTAATCCAC-TAAGGTTGAATTTCGTTAAA
1 TGCACACTTAGTGCCGAAACA-GTTATTCATCCACAT-AGGATGAATTCCGTGAAA
* * *
108587 TGTACACTTAGT-CTCGAAACGGTTATTCATCCACATAGGATGAATTACGTGAAA
1 TGCACACTTAGTGC-CGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * * *
108641 TGCACATTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCATGAAA
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
108695 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
108710 TATTTGGTAA
Statistics
Matches: 279, Mismatches: 54, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
53 5 0.02
54 269 0.96
55 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA
Found at i:108614 original size:162 final size:162
Alignment explanation
Indices: 108317--108709 Score: 511
Period size: 162 Copynumber: 2.4 Consensus size: 162
108307 TTTCGTACTT
* * * ** * *
108317 TGCACACATAGTGTCGAAACAGTTATTCATTCACATATGATGAATTCCGCGTAATTCACACTTAG
1 TGCACACTTAGTGTCGAAACGGTTATTCATCCACATATGATGAATTCCATGAAATGCACACTTAG
* * * * *
108382 TACCGAAATTGTTATTCATCCGCATAGGATGAATTTCGTGAAAAGCACAATTAGTGCCAAAACAG
66 TGCCAAAAATGTTATTAATCCACATAGGATGAATTTCGTGAAAAGCACAATTAGTGCCAAAACAG
* * *
108447 TTATTCATCCTCATATGATGAATTCCGTGAAA
131 TTATTCATCCACATAGGATGAATTACGTGAAA
* * *
108479 TGCACACTTAGTGTCGAAATGGTTATTCATCCACATAGGATTAATTCCATGAAATGCACACTTAG
1 TGCACACTTAGTGTCGAAACGGTTATTCATCCACATATGATGAATTCCATGAAATGCACACTTAG
* * * * * *
108544 TGCCAAAAATGTTATTAATCCAC-TAAGGTTGAATTTCGTTAAATGTACACTTAGT-CTCGAAAC
66 TGCCAAAAATGTTATTAATCCACAT-AGGATGAATTTCGTGAAAAGCACAATTAGTGC-CAAAAC
*
108607 GGTTATTCATCCACATAGGATGAATTACGTGAAA
129 AGTTATTCATCCACATAGGATGAATTACGTGAAA
* *
108641 TGCACATTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCATGAAATGCACACTTAG
1 TGCACACTTAGTGTCGAAACGGTTATTCATCCACATATGATGAATTCCATGAAATGCACACTTAG
108706 TGCC
66 TGCC
108710 TATTTGGTAA
Statistics
Matches: 199, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
161 2 0.01
162 197 0.99
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (162 bp):
TGCACACTTAGTGTCGAAACGGTTATTCATCCACATATGATGAATTCCATGAAATGCACACTTAG
TGCCAAAAATGTTATTAATCCACATAGGATGAATTTCGTGAAAAGCACAATTAGTGCCAAAACAG
TTATTCATCCACATAGGATGAATTACGTGAAA
Found at i:116584 original size:14 final size:14
Alignment explanation
Indices: 116567--116608 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
116557 AAACAAAAAA
116567 AAAAAATTAATAAT
1 AAAAAATTAATAAT
116581 AAAAAA-T-ATAAAT
1 AAAAAATTAAT-AAT
*
116594 AAAAAATGAATAAT
1 AAAAAATTAATAAT
116608 A
1 A
116609 TGAATAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 2 0.08
13 10 0.42
14 10 0.42
15 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAAAATTAATAAT
Found at i:116694 original size:24 final size:26
Alignment explanation
Indices: 116645--116710 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
116635 TTCAAAAACA
*
116645 ATATGTTTTCAAAAATTATATATTAT
1 ATATGTTTTCAAAAATAATATATTAT
116671 ATAT-TTTTCAAAAA-AATCAT-TTAT
1 ATATGTTTTCAAAAATAAT-ATATTAT
* *
116695 ATATGCTTTCAGAAAT
1 ATATGTTTTCAAAAAT
116711 TATTTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
25 20 0.59
26 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (26 bp):
ATATGTTTTCAAAAATAATATATTAT
Found at i:116822 original size:52 final size:53
Alignment explanation
Indices: 116724--116823 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 53
116714 TTTTTGACAT
* *
116724 AATATAATATATGTTTTCAAAAGTTGCTTTTGAAAACTATATATATATATATA
1 AATATAATATATGTTTTCAAAAATTGCTTTTGAAAACTATAAATATATATATA
* * *
116777 AATAT-ATATATGTTTTTAAAAATTGTTTTTG-AAATTATACAATATAT
1 AATATAATATATGTTTTCAAAAATTGCTTTTGAAAACTATA-AATATAT
116824 GTTTTCAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 7 0.17
52 29 0.71
53 5 0.12
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (53 bp):
AATATAATATATGTTTTCAAAAATTGCTTTTGAAAACTATAAATATATATATA
Found at i:116828 original size:36 final size:36
Alignment explanation
Indices: 116782--116868 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
116772 ATATAAATAT
* *
116782 ATATATGTTTTTAAAAATTGTTTTTGAAATTATACA
1 ATATATGTTTTTAAAAATTGTTTTTAAAACTATACA
* *
116818 ATATATGTTTTCAAAAATTGTTTTTAAAACTATATA
1 ATATATGTTTTTAAAAATTGTTTTTAAAACTATACA
116854 ATATATGTTTTTAAA
1 ATATATGTTTTTAAA
116869 CATATTTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (36 bp):
ATATATGTTTTTAAAAATTGTTTTTAAAACTATACA
Found at i:116893 original size:35 final size:36
Alignment explanation
Indices: 116778--116903 Score: 107
Period size: 36 Copynumber: 3.6 Consensus size: 36
116768 ATATATATAA
* * ** **
116778 ATAT-ATATATGTTTTTAAAAATTGTTTTTGAAATT
1 ATATAATATATGTTTTCAAAAATTATTTTCAAAACC
* * * *
116813 ATACAATATATGTTTTCAAAAATTGTTTTTAAAACT
1 ATATAATATATGTTTTCAAAAATTATTTTCAAAACC
* *
116849 ATATAATATATGTTTTTAAACA-TATTTTCAAAACC
1 ATATAATATATGTTTTCAAAAATTATTTTCAAAACC
*
116884 ATAT--TATATATTTTCAAAAA
1 ATATAATATATGTTTTCAAAAA
116904 CCAAATTTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
33 13 0.17
35 17 0.22
36 47 0.61
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
ATATAATATATGTTTTCAAAAATTATTTTCAAAACC
Found at i:117652 original size:28 final size:26
Alignment explanation
Indices: 117603--117654 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
117593 ATACCAATTT
*
117603 TAATGAAAGTAAAAAAATAATGGGAC
1 TAATGAAAGTAAAAAAAAAATGGGAC
*
117629 TAATTAAATGTAAACAAAAAAATGGG
1 TAATGAAA-GTAAA-AAAAAAATGGG
117655 CCAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 5 0.23
28 10 0.45
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (26 bp):
TAATGAAAGTAAAAAAAAAATGGGAC
Found at i:117732 original size:14 final size:15
Alignment explanation
Indices: 117697--117725 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
117687 TATTAAACAT
117697 ACAAATTCAAATAAA
1 ACAAATTCAAATAAA
117712 ACAAATT-AAATAAA
1 ACAAATTCAAATAAA
117726 TTAAATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (15 bp):
ACAAATTCAAATAAA
Found at i:119918 original size:88 final size:88
Alignment explanation
Indices: 119786--120088 Score: 365
Period size: 88 Copynumber: 3.4 Consensus size: 88
119776 TTAAACGTAG
* * *
119786 TACTGGTGCTGATCCAACTACTGATATGGTTGAATCGAGCGAAAAGGAGATATTGATCTAACTTC
1 TACTGGTGCTGATCCAACTCCTGATATGATTGAATCGAGCGAAAAGGAGATATTGATCCAACTTC
* *
119851 TTATATGATGGAACCAAGCAAAA
66 TTATATGATGGAATCGAGCAAAA
* * * * * * *
119874 TACTGGTGATTATCCAACTCCTGATATGATTTAATCGAGTGAAAAGGTGATACTGACCCAACTTC
1 TACTGGTGCTGATCCAACTCCTGATATGATTGAATCGAGCGAAAAGGAGATATTGATCCAACTTC
*
119939 TTATATGATGGAATCGAGCAAAT
66 TTATATGATGGAATCGAGCAAAA
** * * * * * *
119962 TGTTGATGCTGATTCAACTCTTCATATGATTGAATCGAGCGAAAAGGCGATGTTGATCCAACTTC
1 TACTGGTGCTGATCCAACTCCTGATATGATTGAATCGAGCGAAAAGGAGATATTGATCCAACTTC
120027 TTATATGATGGAATCGAG-AAAA
66 TTATATGATGGAATCGAGCAAAA
* * * *
120049 TTATTGGGGCTAATCCAACTCCTGATGTGATTGAATCGAG
1 -TACTGGTGCTGATCCAACTCCTGATATGATTGAATCGAG
120089 TTGAGGTTGA
Statistics
Matches: 178, Mismatches: 36, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
87 3 0.02
88 175 0.98
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (88 bp):
TACTGGTGCTGATCCAACTCCTGATATGATTGAATCGAGCGAAAAGGAGATATTGATCCAACTTC
TTATATGATGGAATCGAGCAAAA
Found at i:119980 original size:44 final size:44
Alignment explanation
Indices: 119792--120050 Score: 154
Period size: 44 Copynumber: 5.9 Consensus size: 44
119782 GTAGTACTGG
* * * * * *
119792 TGCTGATCCAACTACTGATATGGTTGAATCGAGCGAAA-AGGAGA
1 TGCTGATCCAACTTCTTATATGATGGAATCGAGC-AAATTGGCGA
** * * * *
119836 TATTGATCTAACTTCTTATATGATGGAACCAAGCAAAATACTGGTGA
1 TGCTGATCCAACTTCTTATATGATGGAATCGAGC-AAAT--TGGCGA
* * ** * * *
119883 T--T-ATCCAACTCCTGATATGATTTAATCGAGTGAAA-AGGTGA
1 TGCTGATCCAACTTCTTATATGATGGAATCGAG-CAAATTGGCGA
* * **
119924 TACTGACCCAACTTCTTATATGATGGAATCGAGCAAATTGTTGA
1 TGCTGATCCAACTTCTTATATGATGGAATCGAGCAAATTGGCGA
* * *
119968 TGCTGATTCAAC-TCTTCATATGATTGAATCGAGCGAAA-AGGCGA
1 TGCTGATCCAACTTCTT-ATATGATGGAATCGAGC-AAATTGGCGA
* *
120012 TGTTGATCCAACTTCTTATATGATGGAATCGAGAAAATT
1 TGCTGATCCAACTTCTTATATGATGGAATCGAGCAAATT
120051 ATTGGGGCTA
Statistics
Matches: 162, Mismatches: 41, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
41 6 0.04
43 11 0.07
44 132 0.81
45 8 0.05
47 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCTGATCCAACTTCTTATATGATGGAATCGAGCAAATTGGCGA
Found at i:120065 original size:44 final size:44
Alignment explanation
Indices: 119926--120088 Score: 120
Period size: 44 Copynumber: 3.7 Consensus size: 44
119916 AAAGGTGATA
* * * **
119926 CTGACCCAACTTCTTATATGATGGAATCGAGCAAATTGTTGATG
1 CTGATCCAACTTCTTATATGATGGAATCGAGAAAATTATTGGGG
* * *
119970 CTGATTCAAC-TCTTCATATGATTGAATCGAGCGAAA--A--GGCGATG
1 CTGATCCAACTTCTT-ATATGATGGAATCGAG-AAAATTATTGG-G--G
*
120014 TTGATCCAACTTCTTATATGATGGAATCGAGAAAATTATTGGGG
1 CTGATCCAACTTCTTATATGATGGAATCGAGAAAATTATTGGGG
* * * * *
120058 CTAATCCAACTCCTGATGTGATTGAATCGAG
1 CTGATCCAACTTCTTATATGATGGAATCGAG
120089 TTGAGGTTGA
Statistics
Matches: 92, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
41 1 0.01
43 7 0.08
44 73 0.79
45 8 0.09
46 1 0.01
47 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGATCCAACTTCTTATATGATGGAATCGAGAAAATTATTGGGG
Found at i:124778 original size:14 final size:14
Alignment explanation
Indices: 124759--124787 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
124749 TAAATGTAAA
124759 GAATAAAGAATATG
1 GAATAAAGAATATG
124773 GAATAAAGAATATG
1 GAATAAAGAATATG
124787 G
1 G
124788 TGCAAAGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (14 bp):
GAATAAAGAATATG
Found at i:130959 original size:15 final size:15
Alignment explanation
Indices: 130939--130982 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
130929 TTGAAGAAGA
* *
130939 AAAGGAAAGGAAATG
1 AAAGGAAAAGAAAAG
130954 AAAGGAAAAGAAAAG
1 AAAGGAAAAGAAAAG
130969 AAA-GAAGAAGAAAA
1 AAAGGAA-AAGAAAA
130983 ATGAAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 23 0.88
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.02
Consensus pattern (15 bp):
AAAGGAAAAGAAAAG
Found at i:132683 original size:72 final size:69
Alignment explanation
Indices: 132566--132843 Score: 205
Period size: 72 Copynumber: 3.9 Consensus size: 69
132556 GTCTCTTGTA
* * ** * *
132566 AGAAACCAACATAGTCTTTCTTTATACCATTTACCTAGAAACCAACCTAGTCTTCCTTAAGACCA
1 AGAAACCAACCTAGT-TTTCTTAAGGCTATTTCCCTAGAAACCAACCTAGTCTTCCTTAAGA-C-
132631 TTTTCCT
63 TTTTCCT
* * * * * *
132638 AGAAACCAACCTAGTTTTCTTTAAGGTTATTTCCCTAGAAACCAACATTGTCTTCCCTAAAGTCG
1 AGAAACCAACCTAGTTTTC-TTAAGGCTATTTCCCTAGAAACCAACCTAGTCTT-CCTTAAGACT
132703 TTTCCAT
64 TTTCC-T
* * * * * * * * *
132710 ATAAACCAACGTAGTCTTCCTTAATGCAATTTCCTTATAAACCAACCTAGTTTTCTTTAAGACTG
1 AGAAACCAACCTAGT-TTTCTTAAGGCTATTTCCCTAGAAACCAACCTAGTCTTCCTTAAGACT-
132775 TTTCACT
64 TTTC-CT
* * * * ** * *
132782 AGAAACCAATCTAGACTTTCTTAAGACTGTTTCATTAGAAACCAACTTAGTATTCCTTAAGA
1 AGAAACCAACCTAG-TTTTCTTAAGGCTATTTCCCTAGAAACCAACCTAGTCTTCCTTAAGA
132844 TAGTCTCCCT
Statistics
Matches: 158, Mismatches: 41, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
71 15 0.09
72 133 0.84
73 10 0.06
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (69 bp):
AGAAACCAACCTAGTTTTCTTAAGGCTATTTCCCTAGAAACCAACCTAGTCTTCCTTAAGACTTT
TCCT
Found at i:132743 original size:36 final size:35
Alignment explanation
Indices: 132566--132841 Score: 146
Period size: 36 Copynumber: 7.7 Consensus size: 35
132556 GTCTCTTGTA
* * * * *
132566 AGAAACCAACATAGTCTTTCTTTATACCATTTACCT
1 AGAAACCAACCTAGTCTTCCTTAATGCAATTT-CCT
*
132602 AGAAACCAACCTAGTCTTCCTTAA-GACCATTTTCCT
1 AGAAACCAACCTAGTCTTCCTTAATG--CAATTTCCT
* * * **
132638 AGAAACCAACCTAGTTTTCTTTAAGGTTATTTCCCT
1 AGAAACCAACCTAGTCTTCCTTAATGCAATTT-CCT
* * * * *
132674 AGAAACCAACATTGTCTTCCCTAAAGTC-GTTTCCAT
1 AGAAACCAACCTAGTCTTCCTTAATG-CAATTTCC-T
* *
132710 ATAAACCAACGTAGTCTTCCTTAATGCAATTTCCTT
1 AGAAACCAACCTAGTCTTCCTTAATGCAATTTCC-T
* * * **
132746 ATAAACCAACCTAGTTTTCTTTAA-GACTGTTTCACT
1 AGAAACCAACCTAGTCTTCCTTAATG-CAATTTC-CT
* * * ** *
132782 AGAAACCAATCTAGACTTTCTTAA-GACTGTTTCATT
1 AGAAACCAACCTAGTCTTCCTTAATG-CAATTTC-CT
* *
132818 AGAAACCAACTTAGTATTCCTTAA
1 AGAAACCAACCTAGTCTTCCTTAA
132842 GATAGTCTCC
Statistics
Matches: 188, Mismatches: 43, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
35 7 0.04
36 175 0.93
37 6 0.03
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (35 bp):
AGAAACCAACCTAGTCTTCCTTAATGCAATTTCCT
Found at i:132814 original size:108 final size:107
Alignment explanation
Indices: 132601--132843 Score: 269
Period size: 108 Copynumber: 2.3 Consensus size: 107
132591 ACCATTTACC
* **
132601 TAGAAACCAACCTAGTCTTCCTTAAGACCATTTTCCTAGAAACCAACCTAGTTTTCTTTAAGGTT
1 TAGAAACCAACCTAGTCTTCCTTAAGA-CAATTTCCTAGAAACCAACCTAGTTTTCTTTAAGACT
* * * *
132666 ATTTCCCTAGAAACCAACATTGTCTTCCCTAAAGTCGTTTCCA-
65 ATTTCACTAGAAACCAACATAGACTTCCCTAAACTCGTTT-CAT
* * *
132709 TATAAACCAACGTAGTCTTCCTTAATG-CAATTTCCTTATAAACCAACCTAGTTTTCTTTAAGAC
1 TAGAAACCAACCTAGTCTTCCTTAA-GACAATTTCC-TAGAAACCAACCTAGTTTTCTTTAAGAC
* * *
132773 TGTTTCACTAGAAACCAATC-TAGACTTTCTTAAGACT-GTTTCAT
64 TATTTCACTAGAAACCAA-CATAGACTTCCCTAA-ACTCGTTTCAT
* *
132817 TAGAAACCAACTTAGTATTCCTTAAGA
1 TAGAAACCAACCTAGTCTTCCTTAAGA
132844 TAGTCTCCCT
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
107 10 0.09
108 99 0.88
109 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.35
Consensus pattern (107 bp):
TAGAAACCAACCTAGTCTTCCTTAAGACAATTTCCTAGAAACCAACCTAGTTTTCTTTAAGACTA
TTTCACTAGAAACCAACATAGACTTCCCTAAACTCGTTTCAT
Found at i:132842 original size:36 final size:36
Alignment explanation
Indices: 132600--132843 Score: 185
Period size: 36 Copynumber: 6.8 Consensus size: 36
132590 TACCATTTAC
132600 CTAGAAACCAACCTAGTCTTCCTTAAGACCAT-TTTC-
1 CTAGAAACCAACCTAGTCTTCCTTAAGA-C-TGTTTCA
* * ** * *
132636 CTAGAAACCAACCTAGTTTTCTTTAAGGTTATTTCC
1 CTAGAAACCAACCTAGTCTTCCTTAAGACTGTTTCA
* * * *
132672 CTAGAAACCAACATTGTCTTCCCTAA-AGTCGTTTC-
1 CTAGAAACCAACCTAGTCTTCCTTAAGACT-GTTTCA
* * **
132707 CATATAAACCAACGTAGTCTTCCTTAATG-CAATTTC-
1 C-TAGAAACCAACCTAGTCTTCCTTAA-GACTGTTTCA
* * *
132743 CTTATAAACCAACCTAGTTTTCTTTAAGACTGTTTCA
1 C-TAGAAACCAACCTAGTCTTCCTTAAGACTGTTTCA
* * *
132780 CTAGAAACCAATCTAGACTTTCTTAAGACTGTTTCA
1 CTAGAAACCAACCTAGTCTTCCTTAAGACTGTTTCA
* * *
132816 TTAGAAACCAACTTAGTATTCCTTAAGA
1 CTAGAAACCAACCTAGTCTTCCTTAAGA
132844 TAGTCTCCCT
Statistics
Matches: 163, Mismatches: 37, Indels: 16
0.75 0.17 0.07
Matches are distributed among these distances:
34 1 0.01
35 7 0.04
36 154 0.94
37 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (36 bp):
CTAGAAACCAACCTAGTCTTCCTTAAGACTGTTTCA
Found at i:132923 original size:33 final size:33
Alignment explanation
Indices: 132871--132953 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
132861 CTCAATCTCG
*
132871 TCTTC-TTTAAGGTTGTTCCTCAAGAAACAAATT
1 TCTTCATTT-AGGTTATTCCTCAAGAAACAAATT
*
132904 TTTTCATTTAGGTTATTCCTCAAGAAACAAATT
1 TCTTCATTTAGGTTATTCCTCAAGAAACAAATT
132937 TCTTCATTTAGGTTATT
1 TCTTCATTTAGGTTATT
132954 TTCCTTAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 43 0.93
34 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (33 bp):
TCTTCATTTAGGTTATTCCTCAAGAAACAAATT
Found at i:133271 original size:71 final size:71
Alignment explanation
Indices: 133143--133308 Score: 188
Period size: 71 Copynumber: 2.3 Consensus size: 71
133133 ACATCCCCAT
* * * * * * * *
133143 CCATGGAGGAAGTCGAACGCAACACCGAGCCTCAATCATAGAGGACACCCCACTAGTAGGTGAAC
1 CCATAGAGAAAGTCGAACACAACCCCAAGCCTCAATCATAGAGAAAACCCCACTAGTAGATGAAC
*
133208 CCTTAA
66 CCTCAA
* * * *
133214 CCATATAGAAAGTCGAACACAACCCCAAGCCTCAGTCATTGAGAAAACCCCATTAGTAGATGAAC
1 CCATAGAGAAAGTCGAACACAACCCCAAGCCTCAATCATAGAGAAAACCCCACTAGTAGATGAAC
*
133279 CCTCAT
66 CCTCAA
* *
133285 CCATAGAGAAAGACGAACATAACC
1 CCATAGAGAAAGTCGAACACAACC
133309 TCGTTCCTCA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (71 bp):
CCATAGAGAAAGTCGAACACAACCCCAAGCCTCAATCATAGAGAAAACCCCACTAGTAGATGAAC
CCTCAA
Found at i:133335 original size:71 final size:71
Alignment explanation
Indices: 133156--133335 Score: 175
Period size: 71 Copynumber: 2.5 Consensus size: 71
133146 TGGAGGAAGT
* * * * * * * *
133156 CGAACGCAACACCGAGCCTCAATCATAGAGGACACCCCACTAGTAGGTGAACCCTTAACCATATA
1 CGAACACAACCCCAAGCCTCAATCATGGAAGACACCCCACTAGTAGATGAACCCTCAACCATAGA
*
133221 GAAAGT
66 GAAAGA
* * *
133227 CGAACACAACCCCAAGCCTCAGTCATTGAGAA-A-ACCCCATTAGTAGATGAACCCTCATCCATA
1 CGAACACAACCCCAAGCCTCAATCA-TG-GAAGACACCCCACTAGTAGATGAACCCTCAACCATA
133290 GAGAAAGA
64 GAGAAAGA
* * ***
133298 CGAACATAACCTCGTTCCTCAATCATGGAAGACACCCC
1 CGAACACAACCCCAAGCCTCAATCATGGAAGACACCCC
133336 GTTACTAAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
69 3 0.03
70 3 0.03
71 77 0.89
72 2 0.02
73 2 0.02
ACGTcount: A:0.37, C:0.31, G:0.16, T:0.16
Consensus pattern (71 bp):
CGAACACAACCCCAAGCCTCAATCATGGAAGACACCCCACTAGTAGATGAACCCTCAACCATAGA
GAAAGA
Found at i:134164 original size:236 final size:236
Alignment explanation
Indices: 133751--134219 Score: 875
Period size: 236 Copynumber: 2.0 Consensus size: 236
133741 TCATTTAGAG
* **
133751 CCTCAACTATGGAAGACACCTAGATTAACTTCGGACATTCAGATTGGACACCGAATTAAAACTTG
1 CCTCAACTATGGAAGACACCTAGATCAACTTCGGACATTCAGATTGGACACCGAACGAAAACTTG
133816 TTTCTTTTTATCTTTGCGCTATTACCATTGCATGACAATAGGAAAAAAGGGCAATTGTAGACATG
66 TTTCTTTTTATCTTTGCGCTATTACCATTGCATGACAATAGGAAAAAAGGGCAATTGTAGACATG
133881 TTTTTGTCTAAGTTGTTCAAATTAATTAATAACGATTATTAGTATTATAATTAATTACTATTGTA
131 TTTTTGTCTAAGTTGTTCAAATTAATTAATAACGATTATTAGTATTATAATTAATTACTATTGTA
* *
133946 ACTAACTATTAAATATAAAAAAATTAATTCTAGTTTTAATA
196 ACTAAATATTAAATATAAAAAAATTAATTATAGTTTTAATA
*
133987 CCTCAACTATGGAAGACACCTAGATCAACTTTGGACATTCAGATTGGACACCGAACGAAAACTTG
1 CCTCAACTATGGAAGACACCTAGATCAACTTCGGACATTCAGATTGGACACCGAACGAAAACTTG
134052 TTTCTTTTTATCTTTGCGCTATTACCATTGCATGACAATAGGAAAAAAGGGCAATTGTAGACATG
66 TTTCTTTTTATCTTTGCGCTATTACCATTGCATGACAATAGGAAAAAAGGGCAATTGTAGACATG
*
134117 TTTTTGTCTAAGTTGTTCAAATTAATTAATAACTATTATTAGTATTATAATTAATTACTATTGTA
131 TTTTTGTCTAAGTTGTTCAAATTAATTAATAACGATTATTAGTATTATAATTAATTACTATTGTA
134182 ACTAAATATTAAATATAAAAAAATTAATTATAGTTTTA
196 ACTAAATATTAAATATAAAAAAATTAATTATAGTTTTA
134220 TTACTTTTGC
Statistics
Matches: 226, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
236 226 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (236 bp):
CCTCAACTATGGAAGACACCTAGATCAACTTCGGACATTCAGATTGGACACCGAACGAAAACTTG
TTTCTTTTTATCTTTGCGCTATTACCATTGCATGACAATAGGAAAAAAGGGCAATTGTAGACATG
TTTTTGTCTAAGTTGTTCAAATTAATTAATAACGATTATTAGTATTATAATTAATTACTATTGTA
ACTAAATATTAAATATAAAAAAATTAATTATAGTTTTAATA
Found at i:136694 original size:47 final size:47
Alignment explanation
Indices: 136627--136834 Score: 303
Period size: 47 Copynumber: 4.4 Consensus size: 47
136617 AATACACCCT
* * * *
136627 TTTCAAGCATTTTCAATTATGGCATCAGTTCATCCCTTAATGTATCC
1 TTTCATGCATTTTCAATTATGGCATCAGTTCATGCCTTTATGCATCC
*
136674 TTTCATGCATTTTAAATTATGGCAT-ATGTTCATGCCTTTATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCA-GTTCATGCCTTTATGCATCC
* *
136721 TTTCATGCATTTTCAATTATGGCATCCGTTCTTGCCTTTATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCAGTTCATGCCTTTATGCATCC
* *
136768 TTTTATGCATTTTCAATTATGGCCTTC-GTTCATGCCTTTATGCATCC
1 TTTCATGCATTTTCAATTATGG-CATCAGTTCATGCCTTTATGCATCC
136815 TTTCATGCATTTTCAATTAT
1 TTTCATGCATTTTCAATTAT
136835 AAAATTGATT
Statistics
Matches: 146, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 142 0.97
48 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (47 bp):
TTTCATGCATTTTCAATTATGGCATCAGTTCATGCCTTTATGCATCC
Done.