Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002611.1 Hibiscus syriacus cultivar Beakdansim tig00005277_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: 119130
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:7264 original size:20 final size:20
Alignment explanation
Indices: 7241--7282 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
7231 TGATGAAATA
7241 TATTAAATTTTAAATTTTGT
1 TATTAAATTTTAAATTTTGT
7261 TATTAAATTTTAAATTTTGT
1 TATTAAATTTTAAATTTTGT
7281 TA
1 TA
7283 ATGATATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTAAATTTTAAATTTTGT
Found at i:7594 original size:49 final size:49
Alignment explanation
Indices: 7537--7630 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
7527 ACACTTGTGA
** *
7537 AGGGGTTGCTTGGGATACCCTGGGCACCATGGAGGTCCACCCCTGGATG
1 AGGGGTTGCCCGGGATACCCCGGGCACCATGGAGGTCCACCCCTGGATG
* *
7586 AGGGGTTGCCCGGGATACCCCGGGCTCCATGGAGGTCCGCCCCTG
1 AGGGGTTGCCCGGGATACCCCGGGCACCATGGAGGTCCACCCCTG
7631 ACTGACGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (49 bp):
AGGGGTTGCCCGGGATACCCCGGGCACCATGGAGGTCCACCCCTGGATG
Found at i:8428 original size:28 final size:28
Alignment explanation
Indices: 8372--8425 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
8362 TATAAATAAT
*
8372 ATATATTATATAGATTATATTTTATTTA
1 ATATATTATATAGATAATATTTTATTTA
8400 ATATATTA-ATA-ATAATATTATTATTT
1 ATATATTATATAGATAATATT-TTATTT
8426 TAAATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 9 0.38
28 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATATATTATATAGATAATATTTTATTTA
Found at i:8434 original size:32 final size:30
Alignment explanation
Indices: 8364--8435 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 30
8354 TATAAACATA
*
8364 TAAATAATATATATTATATAGATTATATTT
1 TAAATAATATATATAATATAGATTATATTT
** *
8394 TATTTAATATAT-TAATAATAATATTATTATTT
1 TAAATAATATATATAAT-AT-AGATTA-TATTT
8426 TAAATAATAT
1 TAAATAATAT
8436 GAAGTCGAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 3 0.09
30 12 0.36
31 5 0.15
32 13 0.39
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TAAATAATATATATAATATAGATTATATTT
Found at i:18745 original size:2 final size:2
Alignment explanation
Indices: 18735--18772 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
18725 TATAAAAAAT
* *
18735 TA TA T- TA TA TA TA TA TA TA TA TA TA TT TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18773 GTGTGTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:19180 original size:27 final size:27
Alignment explanation
Indices: 19157--19212 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
19147 TAATCTCCAG
19157 TTTCTTCAAGGCCTCAGCCTTCTCAAA
1 TTTCTTCAAGGCCTCAGCCTTCTCAAA
* *
19184 TTTCTTTAAGGCCTCAGCCTTCTCGAA
1 TTTCTTCAAGGCCTCAGCCTTCTCAAA
19211 TT
1 TT
19213 CGTCATCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (27 bp):
TTTCTTCAAGGCCTCAGCCTTCTCAAA
Found at i:28136 original size:40 final size:40
Alignment explanation
Indices: 28081--28162 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
28071 CTCTGCATGA
28081 TCAAACAACAAAAGCTATAGTTACTAAACTACACGTCATT
1 TCAAACAACAAAAGCTATAGTTACTAAACTACACGTCATT
28121 TCAAACAACAAAAGCTATAGTTACTAAACTACACGTCATT
1 TCAAACAACAAAAGCTATAGTTACTAAACTACACGTCATT
28161 TC
1 TC
28163 CTTACGACCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (40 bp):
TCAAACAACAAAAGCTATAGTTACTAAACTACACGTCATT
Found at i:30139 original size:12 final size:12
Alignment explanation
Indices: 30122--30163 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
30112 TTTTATAAAC
30122 TTTAATAATATT
1 TTTAATAATATT
30134 TTTAATAATATT
1 TTTAATAATATT
*
30146 ATTCATATAA-ATT
1 -TTTA-ATAATATT
30159 TTTAA
1 TTTAA
30164 ATCAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.04
12 15 0.58
13 6 0.23
14 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTAATAATATT
Found at i:30887 original size:24 final size:23
Alignment explanation
Indices: 30858--30966 Score: 60
Period size: 24 Copynumber: 4.5 Consensus size: 23
30848 GTAGTTGGTG
30858 TTATAAATATATTA-ATATAATATT
1 TTATAAATATATTATA-AT-ATATT
* *
30882 TTATAATTTCTATTATAATATATT
1 TTATAA-ATATATTATAATATATT
* * * *
30906 TTATAAAGTTTTTTAGTAATTTATG
1 TTATAAA-TATATTA-TAATATATT
* * *
30931 TTATAGATGTATTCTAATTATATT
1 TTATAAATATATTATAA-TATATT
30955 CTTAT-AATATAT
1 -TTATAAATATAT
30967 CTTAATTGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
23 3 0.05
24 35 0.55
25 25 0.39
26 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.54
Consensus pattern (23 bp):
TTATAAATATATTATAATATATT
Found at i:40669 original size:2 final size:2
Alignment explanation
Indices: 40662--40688 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
40652 TCAAGAATTT
40662 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
40689 GTTTTGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:43515 original size:21 final size:21
Alignment explanation
Indices: 43489--43530 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43479 CCAGAATGGG
* *
43489 GGGAATCGGTACTCCTTCATA
1 GGGAATCGATACCCCTTCATA
43510 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
43531 ATTTCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:43659 original size:19 final size:19
Alignment explanation
Indices: 43635--43701 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
43625 GAGCCTCGGG
*
43635 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAT
*
43654 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* *
43673 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
*
43692 TTACTATTCA
1 TTACTGTTCA
43702 TAAAAACATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:43813 original size:30 final size:31
Alignment explanation
Indices: 43766--43856 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
43756 AAATTTTGAA
43766 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
43795 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
43826 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
43857 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:45857 original size:13 final size:14
Alignment explanation
Indices: 45841--45873 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45831 TAATCATGGG
45841 TTTTCTTCTT-CTC
1 TTTTCTTCTTCCTC
*
45854 TTTTTTTCTTCCTC
1 TTTTCTTCTTCCTC
45868 TTTTCT
1 TTTTCT
45874 GAGTGGTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTTCTTCCTC
Found at i:56252 original size:22 final size:21
Alignment explanation
Indices: 56215--56266 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
56205 ACGAATAATT
*
56215 ATAAATTTATTAAAAATCTAAAA
1 ATAAA-TTATTAAAAAT-AAAAA
*
56238 ATAAATTATTTAAAATAAAAA
1 ATAAATTATTAAAAATAAAAA
*
56259 ATTAATTA
1 ATAAATTA
56267 CATTATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 11 0.42
22 10 0.38
23 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAATTATTAAAAATAAAAA
Found at i:56637 original size:20 final size:20
Alignment explanation
Indices: 56569--56680 Score: 104
Period size: 20 Copynumber: 5.6 Consensus size: 20
56559 ACGGGTTCCA
*
56569 AAATCGCAACGCGAA-AGTCA
1 AAATCGCAACGCGAATAGT-T
**
56589 AAATCGCAATACGAA-AGTT
1 AAATCGCAACGCGAATAGTT
56608 AAATTCGCAACGCGAATAGTT
1 AAA-TCGCAACGCGAATAGTT
* **
56629 AAATTGCAACGATAATA-TGT
1 AAATCGCAACGCGAATAGT-T
* *
56649 AATTCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATAGTT
56669 AAATCGCAACGC
1 AAATCGCAACGC
56681 AACGCAAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.05
20 63 0.85
21 7 0.09
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATAGTT
Found at i:56769 original size:20 final size:20
Alignment explanation
Indices: 56746--56813 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
56736 GATAATTAGA
56746 GTTGCGAAAACGAAATTCGC
1 GTTGCGAAAACGAAATTCGC
****
56766 GTTGCGATTTTGGAGAA-TCGC
1 GTTGCGA-AAACGA-AATTCGC
56787 GTTGCGAAAACGAAATTCGC
1 GTTGCGAAAACGAAATTCGC
56807 GTTGCGA
1 GTTGCGA
56814 TTTTCCAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
19 2 0.05
20 20 0.54
21 13 0.35
22 2 0.05
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (20 bp):
GTTGCGAAAACGAAATTCGC
Found at i:56825 original size:21 final size:21
Alignment explanation
Indices: 56756--56827 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
56746 GTTGCGAAAA
56756 CGAAATTCGCGTTGCGATTTT
1 CGAAATTCGCGTTGCGATTTT
* ***
56777 GGAGAA-TCGCGTTGCGA-AAA
1 CGA-AATTCGCGTTGCGATTTT
56797 CGAAATTCGCGTTGCGATTTT
1 CGAAATTCGCGTTGCGATTTT
*
56818 CCAAATTCGC
1 CGAAATTCGC
56828 AACGCGAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.33
21 22 0.56
22 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (21 bp):
CGAAATTCGCGTTGCGATTTT
Found at i:56835 original size:41 final size:41
Alignment explanation
Indices: 56749--56835 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
56739 AATTAGAGTT
** ***
56749 GCGAAAACGAAATTCGCGTTGCGATTTTGGAGAATCGCGTT
1 GCGAAAACGAAATTCGCGTTGCGATTTTCCAGAATCGCAAC
56790 GCGAAAACGAAATTCGCGTTGCGATTTTCCA-AATTCGCAAC
1 GCGAAAACGAAATTCGCGTTGCGATTTTCCAGAA-TCGCAAC
56831 GCGAA
1 GCGAA
56836 TAGGTAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.05
41 38 0.95
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (41 bp):
GCGAAAACGAAATTCGCGTTGCGATTTTCCAGAATCGCAAC
Found at i:56849 original size:20 final size:20
Alignment explanation
Indices: 56824--56876 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
56814 TTTTCCAAAT
56824 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATAGGTAAA
** *
56844 TCGCAACGATAATATGTAAA
1 TCGCAACGCGAATAGGTAAA
* *
56864 TGGCAACACGAAT
1 TCGCAACGCGAAT
56877 TCTCCAAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAGGTAAA
Found at i:57015 original size:63 final size:63
Alignment explanation
Indices: 56881--57024 Score: 182
Period size: 63 Copynumber: 2.3 Consensus size: 63
56871 ACGAATTCTC
* * **
56881 CAAATTCACAACTCGAATTTCGCAATGCTAATTACTGATATAGGTAATTAGCGTTGCGAATTT
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAAT
** * *
56944 CATTTTCGCAACTTGAATTTCGCAACGCTAATTACCT-ATATCGGTAATTAGCGTTGCGAAAAT
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTA-CTGATATAGGTAATTAGCGTTGCGAAAAT
* *
57007 GAAATTCGCAACACGAAT
1 CAAATTCGCAACTCGAAT
57025 AGGTAAATCG
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
63 65 0.97
64 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (63 bp):
CAAATTCGCAACTCGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAAT
Found at i:57050 original size:20 final size:20
Alignment explanation
Indices: 57022--57059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57012 TCGCAACACG
*
57022 AATAGGTAAATCGTAATGAT
1 AATAGGTAAATCGCAATGAT
*
57042 AATATGTAAATCGCAATG
1 AATAGGTAAATCGCAATG
57060 CGAATTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (20 bp):
AATAGGTAAATCGCAATGAT
Found at i:57204 original size:199 final size:202
Alignment explanation
Indices: 56953--57371 Score: 776
Period size: 199 Copynumber: 2.1 Consensus size: 202
56943 TCATTTTCGC
*
56953 AACTTGAATTTCGCAACGCTAATTACCTATATCGGTAATTAGCGTTGCGAAAATGAAATTCGCAA
1 AACTTGAA-TTCGCAACGCCAATTACCTATATCGGTAATTAGCGTTGCGAAAATGAAATTCGCAA
57018 CACGAATAGGTAAATCGTAATGATAATATGTAAATCGCAATGCGAATTCTCCAAATTCGCAACGC
65 CACGAATAGGTAAATCGTAATGATAATATGTAAATCGCAATGCGAATTCTCCAAATTCGCAACGC
57083 AAATTACCGATATAGGTAATTAGCGTTGCG-AAATGAAATCCGCGTTGCGATTTC-GGAAATCGA
130 AAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGATTTCGGGAAATCGA
57146 GTTGCAAA
195 GTTGCAAA
57154 AACTTGAATTCGCAACGCCAATTACCTATA-CGGTAATTAGCGTTGCGAAAATGAAATTCGCAAC
1 AACTTGAATTCGCAACGCCAATTACCTATATCGGTAATTAGCGTTGCGAAAATGAAATTCGCAAC
57218 ACGAATAGGTAAATCGTAATGATAATATGTAAATCGCAATGCGAATTCTCCAAATTCGCAACGCA
66 ACGAATAGGTAAATCGTAATGATAATATGTAAATCGCAATGCGAATTCTCCAAATTCGCAACGCA
57283 AATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGATTTCGGGAAATCGAG
131 AATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGATTTCGGGAAATCGAG
57348 TTGCAAA
196 TTGCAAA
57355 AAC--GAAATTCGCAACGC
1 AACTTG-AATTCGCAACGC
57372 GAAAGTCAAA
Statistics
Matches: 214, Mismatches: 1, Indels: 7
0.96 0.00 0.03
Matches are distributed among these distances:
199 129 0.60
200 57 0.27
201 28 0.13
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (202 bp):
AACTTGAATTCGCAACGCCAATTACCTATATCGGTAATTAGCGTTGCGAAAATGAAATTCGCAAC
ACGAATAGGTAAATCGTAATGATAATATGTAAATCGCAATGCGAATTCTCCAAATTCGCAACGCA
AATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGATTTCGGGAAATCGAG
TTGCAAA
Found at i:57232 original size:89 final size:88
Alignment explanation
Indices: 57071--57233 Score: 204
Period size: 89 Copynumber: 1.8 Consensus size: 88
57061 GAATTCTCCA
**** *
57071 AATTCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAATGAAATCCGCGTTGCGATTT
1 AATTCGCAACGCAAATTACC-ATATAGGTAATTAGCGTTGCGAAATGAAATCCGCAACACGATAT
*
57136 CGGAAATCGAGTTGCAAAAACTTG
65 AGGAAATCGAGTTGCAAAAACTTG
* *
57160 AATTCGCAACGCCAATTACC-TATACGGTAATTAGCGTTGCGAAAATGAAATTCGCAACACGA-A
1 AATTCGCAACGCAAATTACCATATA-GGTAATTAGCGTTGCG-AAATGAAATCCGCAACACGATA
57223 TAGGTAAATCG
64 TAGG-AAATCG
57234 TAATGATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
87 4 0.06
88 19 0.30
89 40 0.63
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (88 bp):
AATTCGCAACGCAAATTACCATATAGGTAATTAGCGTTGCGAAATGAAATCCGCAACACGATATA
GGAAATCGAGTTGCAAAAACTTG
Found at i:57249 original size:20 final size:20
Alignment explanation
Indices: 57221--57258 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57211 TCGCAACACG
*
57221 AATAGGTAAATCGTAATGAT
1 AATAGGTAAATCGCAATGAT
*
57241 AATATGTAAATCGCAATG
1 AATAGGTAAATCGCAATG
57259 CGAATTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (20 bp):
AATAGGTAAATCGCAATGAT
Found at i:57319 original size:111 final size:110
Alignment explanation
Indices: 57160--57435 Score: 303
Period size: 110 Copynumber: 2.5 Consensus size: 110
57150 CAAAAACTTG
57160 AATTCGCAACGCCAATTACC--TATACGGTAATTAGCGTTGCGAAAATGAAATTCGCAACACGA-
1 AATTCGCAACGCCAATTACCGATATA-GGTAATTAGCGTTGCGAAAATGAAATTCGCAACACGAT
* * * * *
57222 ATAGGTAAATCGTA-ATG-ATAATATGTAAA-TCGCAATGCGAATTCTCCA
65 ATAGGGAAATCG-AGATGCA-AAAACG-AAATTCGCAACGCGAA-ACT-CA
* * **** *
57270 AATTCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGATT
1 AATTCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATTCGCAACACGATA
* * *
57335 TCGGGAAATCGAGTTGCAAAAACGAAATTCGCAACGCGAAAGTCA
66 TAGGGAAATCGAGATGCAAAAACGAAATTCGCAACGCGAAACTCA
* *
57380 AAATCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAATTTCGC
1 AATTCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATTCGC
57436 GTTGCGATTT
Statistics
Matches: 141, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
110 73 0.52
111 37 0.26
112 30 0.21
113 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (110 bp):
AATTCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATTCGCAACACGATA
TAGGGAAATCGAGATGCAAAAACGAAATTCGCAACGCGAAACTCA
Found at i:57389 original size:110 final size:110
Alignment explanation
Indices: 57268--57473 Score: 324
Period size: 110 Copynumber: 1.9 Consensus size: 110
57258 GCGAATTCTC
*
57268 CAAATTCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGA
1 CAAAATCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGA
*
57333 TTTCGGGA-AATCGAGTTGCAAAAACGAAATTCGCAACGCGAAAGT
66 TTT-GGGAGAATCGAGTTGCAAAAACAAAATTCGCAACGCGAAAGT
* * *
57378 CAAAATCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAATTTCGCGTTGCGA
1 CAAAATCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGA
* * *
57443 TTTTGGAGAATCGCGTTGCGAAAACAAAATT
66 TTTGGGAGAATCGAGTTGCAAAAACAAAATT
57474 AGCGTTGCGA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
109 3 0.03
110 84 0.97
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (110 bp):
CAAAATCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATCCGCGTTGCGA
TTTGGGAGAATCGAGTTGCAAAAACAAAATTCGCAACGCGAAAGT
Found at i:57519 original size:20 final size:20
Alignment explanation
Indices: 57494--57546 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
57484 TTTTCCAAAT
57494 TCGCAACACGAATAGGTAAA
1 TCGCAACACGAATAGGTAAA
* *
57514 TCGCAACGA-TAATATGTAAA
1 TCGCAAC-ACGAATAGGTAAA
*
57534 TCGCAACGCGAAT
1 TCGCAACACGAAT
57547 TCTCCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACACGAATAGGTAAA
Found at i:57874 original size:20 final size:20
Alignment explanation
Indices: 57851--57902 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
57841 TTTGACTTCT
57851 GTGTTGCGATTTACATATTC
1 GTGTTGCGATTTACATATTC
*
57871 GTGTTGCGATTTACCTATTC
1 GTGTTGCGATTTACATATTC
* *
57891 GCGTTGTGATTT
1 GTGTTGCGATTT
57903 TGGAACTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (20 bp):
GTGTTGCGATTTACATATTC
Found at i:58659 original size:20 final size:20
Alignment explanation
Indices: 58636--58702 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
58626 TTAAATTTCA
58636 AATTTATTTTAAAAATATTG
1 AATTTATTTTAAAAATATTG
* *
58656 AA-TTATTTTTATACATATTG
1 AATTTA-TTTTAAAAATATTG
* *
58676 AATATATTTT-AAAATATTA
1 AATTTATTTTAAAAATATTG
58695 AATTTATT
1 AATTTATT
58703 ATTATTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 16 0.42
20 20 0.53
21 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (20 bp):
AATTTATTTTAAAAATATTG
Found at i:58702 original size:19 final size:19
Alignment explanation
Indices: 58616--58702 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
58606 GAATTTGGTG
* *
58616 AAATTGATTTTTAAAT-TT
1 AAATTTATTTTAAAATATT
58634 CAAATTTATTTTAAAAATATT
1 -AAATTTATTTT-AAAATATT
* *
58655 GAA-TTATTTTTATACATATT
1 AAATTTA-TTTTA-AAATATT
* *
58675 GAATATATTTTAAAATATT
1 AAATTTATTTTAAAATATT
58694 AAATTTATT
1 AAATTTATT
58703 ATTATTTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 27 0.49
20 24 0.44
21 4 0.07
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
AAATTTATTTTAAAATATT
Found at i:60547 original size:2 final size:2
Alignment explanation
Indices: 60534--60568 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
60524 ATTTATATTA
60534 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60569 TATTCAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60559 original size:29 final size:29
Alignment explanation
Indices: 60505--60560 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
60495 TATAAAAAGT
* *
60505 ATATAGTTTATAAACTATAATTTATATTA
1 ATATAGTATATAAACTATAATATATATTA
*
60534 ATATAGTATATATA-TATATATATATAT
1 ATATAGTATATAAACTATA-ATATATAT
60561 ATATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (29 bp):
ATATAGTATATAAACTATAATATATATTA
Found at i:60694 original size:20 final size:20
Alignment explanation
Indices: 60640--60697 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
60630 TTGATTTTAT
*
60640 TTGGG-AATTTAGAGAGAAA
1 TTGGGAAATTTAGAGGGAAA
60659 TTGGGAAATTTAGAGGGAAA
1 TTGGGAAATTTAGAGGGAAA
60679 TTGGGAAATTTAGAGGGAA
1 TTGGGAAATTTAGAGGGAA
60698 TAGAAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 5 0.14
20 32 0.86
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (20 bp):
TTGGGAAATTTAGAGGGAAA
Found at i:60708 original size:19 final size:20
Alignment explanation
Indices: 60645--60708 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
60635 TTTATTTGGG
* * **
60645 AATTTAGAGAGAAATTGGGA
1 AATTTAGAGGGAAATAGAAA
* **
60665 AATTTAGAGGGAAATTGGGA
1 AATTTAGAGGGAAATAGAAA
60685 AATTTAGAGGG-AATAGAAA
1 AATTTAGAGGGAAATAGAAA
60704 AATTT
1 AATTT
60709 GGGAAGTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.27
Consensus pattern (20 bp):
AATTTAGAGGGAAATAGAAA
Found at i:61126 original size:2 final size:2
Alignment explanation
Indices: 61081--61118 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
61071 ATAAACCATG
61081 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61119 GCTATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61212 original size:7 final size:7
Alignment explanation
Indices: 61202--61265 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
61192 AATTTATAGG
61202 AACCCTA
1 AACCCTA
61209 AACCCTA
1 AACCCTA
61216 AACCCTA
1 AACCCTA
* **
61223 CACTTTA
1 AACCCTA
*
61230 AATCCTA
1 AACCCTA
*
61237 AACACTA
1 AACCCTA
*
61244 AACCATA
1 AACCCTA
*
61251 AACCATA
1 AACCCTA
61258 AACCCTA
1 AACCCTA
61265 A
1 A
61266 TATAAATAGA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:61602 original size:13 final size:13
Alignment explanation
Indices: 61570--61596 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61560 TAATTTACAT
61570 TTAAATAATTTTA
1 TTAAATAATTTTA
61583 TTAAATAATTTTA
1 TTAAATAATTTTA
61596 T
1 T
61597 ATAATATGTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:61632 original size:18 final size:17
Alignment explanation
Indices: 61609--61676 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
61599 AATATGTATG
*
61609 TATAAACCATGTATAGTA
1 TATAAACCATATATA-TA
61627 TATAAA-C-TATATATA
1 TATAAACCATATATATA
*
61642 TAT--A-TATATATATA
1 TATAAACCATATATATA
61656 TAT-AACCTATATATATA
1 TATAAACC-ATATATATA
61673 TATA
1 TATA
61677 TATAAACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 1 0.02
14 11 0.26
15 6 0.14
16 5 0.12
17 13 0.31
18 6 0.14
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAAACCATATATATA
Found at i:61675 original size:21 final size:21
Alignment explanation
Indices: 61620--61689 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
61610 ATAAACCATG
* *
61620 TATAGTATATAAACTATATATA-
1 TATA-TATATATA-TATATAAAC
*
61642 TATATATATATATATATAACC
1 TATATATATATATATATAAAC
61663 TATATATATATATATATAAAC
1 TATATATATATATATATAAAC
61684 TATATA
1 TATATA
61690 AAGTAAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 6 0.14
21 33 0.77
22 4 0.09
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (21 bp):
TATATATATATATATATAAAC
Found at i:61689 original size:2 final size:2
Alignment explanation
Indices: 61620--61680 Score: 70
Period size: 2 Copynumber: 30.0 Consensus size: 2
61610 ATAAACCATG
* **
61620 TA TA GTA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA -A CC
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61663 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
61681 AACTATATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
1 1 0.02
2 47 0.92
3 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:61689 original size:563 final size:542
Alignment explanation
Indices: 61081--62119 Score: 1494
Period size: 550 Copynumber: 1.9 Consensus size: 542
61071 ATAAACCATG
**
61081 TATAATATATATATATATATATATATATATATATATATGCTATATAAAGTAAATTACATATATAG
1 TATAATATATATATATATATATATATATATATATATAAACTATATAAAGTAAATTACATATATAG
* * *
61146 TTTATAGAAACACTATGCATAAACTAAATAAAGTAATAAAATATATAATTTATAGGAACCCTAAA
66 TTTATAGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTAAA
*
61211 CCCTAAACCCTACACTTTAAATCCTAAACACTAAACCATAAACCATAAACCCTAATATAAATAGA
131 CCCTAAA---T----GTTAAA--C----CA-TAAA-C----A-C-TAAACCCTAATATAAATAGA
* * *
61276 CTAGCACTAATGC-ATATATATTTGTAATAAAAAAGTGGGCTTATGTATTGGGTCTATGTAAACT
175 ATAGCACTAATACAATATATATTTGTAATAAAAAAGTGAGCTTATGTATTGGGTCTATGTAAACT
* *
61340 AATGTAAATGGACTAGCACTATTGTAAATTG-ACTTATTTTTT-GGTTTTATTATTACTTATTCA
240 AATGTAAATGGACTAGCACTATTGCAAA-TGAACTTATTTTTTGGGGTTTATTATTACTTATTCA
* * *
61403 TAACAACAAAATAAATGGGCTATTAATGT-TATT-TAACCTGCAACTAAAATACTAATTATACAA
304 TAACAACAAAATAAATGGGCTATGAATGTGAATTATAACATGCAACTAAAATACTAATTATACAA
* *
61466 ATGAAAATAATATGACATGTACTACTATTTATGAATCACATAATATGTAATGTGACATACTAATT
369 ATGAAAATAATATGACATGTACTACTATTTATGAACCACATAATATGCAATGTGACATACTAATT
61531 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTA
434 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTA
61596 TATAATATGTATGTATAAACCATGTATAGTATATAAACTATATA
499 TATAATATGTATGTATAAACCATGTATAGTATATAAACTATATA
*
61640 TATATATATATATATATATAACCTATATATATATATATATAAACTATATAAAGTAAATTACTTAT
1 TATA-ATATATATATATAT-A--TATATATATATATATATAAACTATATAAAGTAAATTACATAT
* * * *
61705 ATAGTTTATAGAAATACTATGCATAAACTATATAAAATAATAAAGTATATAGGTTATAGAAACCC
62 ATAGTTTATAGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCC
*
61770 TAAACCCTAAATGTTAAACCATAAACACTAAACCCTAATATAAATGGAATAGCACTAATACATAT
127 TAAACCCTAAATGTTAAACCATAAACACTAAACCCTAATATAAATAGAATAGCACTAATACA-AT
* *
61835 ATATATTTGTAATAAAAGAGTGAGCTTATGTATTGGGTTTATGTAAACTAATGTAAATGGACTAG
191 ATATATTTGTAATAAAAAAGTGAGCTTATGTATTGGGTCTATGTAAACTAATGTAAATGGACTAG
* * *
61900 CACTATTGCAAATGAACTTATTTTTTGGGGTTTATTATTATTTATTTATAGCAACAAAATAAATG
256 CACTATTGCAAATGAACTTATTTTTTGGGGTTTATTATTACTTATTCATAACAACAAAATAAATG
* *
61965 GGCTATGAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
321 GGCTATGAATGTGAATT-A--TAACATGCAACTAAAATACTAATTATACAAATGAAAATAATATG
* *
62030 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTATT
383 ACATGTACTACTATTTATGAACCACATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
62095 TAATCATGTTTTATATAATTTACAT
448 TAATCATGTTTTATATAATTTACAT
62120 GTAACATCTC
Statistics
Matches: 436, Mismatches: 31, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
542 30 0.07
543 3 0.01
544 87 0.20
545 45 0.10
546 3 0.01
548 1 0.00
549 4 0.01
550 129 0.30
554 1 0.00
556 5 0.01
559 4 0.01
560 15 0.03
561 1 0.00
563 108 0.25
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (542 bp):
TATAATATATATATATATATATATATATATATATATAAACTATATAAAGTAAATTACATATATAG
TTTATAGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTAAA
CCCTAAATGTTAAACCATAAACACTAAACCCTAATATAAATAGAATAGCACTAATACAATATATA
TTTGTAATAAAAAAGTGAGCTTATGTATTGGGTCTATGTAAACTAATGTAAATGGACTAGCACTA
TTGCAAATGAACTTATTTTTTGGGGTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTA
TGAATGTGAATTATAACATGCAACTAAAATACTAATTATACAAATGAAAATAATATGACATGTAC
TACTATTTATGAACCACATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATG
TTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCA
TGTATAGTATATAAACTATATA
Found at i:63028 original size:20 final size:20
Alignment explanation
Indices: 62969--63019 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
62959 ACACGGGTTC
62969 CAAAATCGCAACGCGAAAGT
1 CAAAATCGCAACGCGAAAGT
* *
62989 CAAATTCGCAACGCCAAAGT
1 CAAAATCGCAACGCGAAAGT
63009 CAAAATCGCAA
1 CAAAATCGCAA
63020 TACGAAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.12
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGT
Found at i:63037 original size:20 final size:21
Alignment explanation
Indices: 63014--63052 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
63004 AAAGTCAAAA
63014 TCGCAATACGAA-AGTTAATT
1 TCGCAATACGAATAGTTAATT
*
63034 TCGCAATGCGAATAGTTAA
1 TCGCAATACGAATAGTTAA
63053 ATTGCAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (21 bp):
TCGCAATACGAATAGTTAATT
Found at i:63059 original size:20 final size:19
Alignment explanation
Indices: 63011--63059 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
63001 GCCAAAGTCA
*
63011 AAATCGCAATACGAAAGTT
1 AAATTGCAATACGAAAGTT
* *
63030 AATTTCGCAATGCGAATAGTT
1 AAATT-GCAATACGAA-AGTT
63051 AAATTGCAA
1 AAATTGCAA
63060 CGATAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 13 0.54
21 8 0.33
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (19 bp):
AAATTGCAATACGAAAGTT
Found at i:63077 original size:40 final size:40
Alignment explanation
Indices: 63033--63122 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
63023 GAAAGTTAAT
* * *
63033 TTCGCAATGCGAATAGTTAAATTGCAACGATAATATGTAA
1 TTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAA
63073 TTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAA
1 TTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAA
* *
63113 ATCACAACGC
1 TTCGCAACGC
63123 AAATTCTCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (40 bp):
TTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAA
Found at i:63112 original size:20 final size:20
Alignment explanation
Indices: 63050--63121 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
63040 TGCGAATAGT
*
63050 TAAATTGCAACGATAATATG
1 TAAATCGCAACGATAATATG
* ** *
63070 TAATTCGCAACGCGAATAGG
1 TAAATCGCAACGATAATATG
63090 TAAATCGCAACGATAATATG
1 TAAATCGCAACGATAATATG
*
63110 TAAATCACAACG
1 TAAATCGCAACG
63122 CAAATTCTCC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
TAAATCGCAACGATAATATG
Found at i:63229 original size:146 final size:146
Alignment explanation
Indices: 63071--63336 Score: 469
Period size: 146 Copynumber: 1.8 Consensus size: 146
63061 GATAATATGT
*
63071 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACGCAAATTCTCCAAAT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACACAAATTCTCCAAAT
*
63136 TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGTGTAGCGAAAACGAAATTC
66 TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTAGCGAAAACGAAATTC
63201 GCGTTGCGATTTTCCA
131 GCGTTGCGATTTTCCA
** *
63217 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATGGCAACACGAATTCTCCAAAT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACACAAATTCTCCAAAT
* *
63282 TCGCAACTCGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAA
66 TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTAGCGAA
63337 TTTCATTTTT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 113 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (146 bp):
AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACACAAATTCTCCAAAT
TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTAGCGAAAACGAAATTC
GCGTTGCGATTTTCCA
Found at i:63245 original size:20 final size:20
Alignment explanation
Indices: 63220--63272 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
63210 TTTTCCAAAT
63220 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATAGGTAAA
** *
63240 TCGCAACGATAATATGTAAA
1 TCGCAACGCGAATAGGTAAA
* *
63260 TGGCAACACGAAT
1 TCGCAACGCGAAT
63273 TCTCCAAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAGGTAAA
Found at i:63414 original size:63 final size:63
Alignment explanation
Indices: 63277--63420 Score: 191
Period size: 63 Copynumber: 2.3 Consensus size: 63
63267 ACGAATTCTC
* **
63277 CAAATTCGCAACTCGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAATTT
1 CAAATTCGCAACTTGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAAT
** * *
63340 CATTTTTGCAACTTGAATTTCGCAACGCTAATTACCT-ATATCGGTAATTAGCGTTGCGAAAAT
1 CAAATTCGCAACTTGAATTTCGCAACGCTAATTA-CTGATATAGGTAATTAGCGTTGCGAAAAT
* *
63403 GAAATTCGCAACGTGAAT
1 CAAATTCGCAACTTGAAT
63421 AGATAAATCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
63 66 0.97
64 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (63 bp):
CAAATTCGCAACTTGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAAT
Found at i:63612 original size:110 final size:110
Alignment explanation
Indices: 63465--63673 Score: 314
Period size: 110 Copynumber: 1.9 Consensus size: 110
63455 GCGAATTCTC
*
63465 CAAATTCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGTAA-TTCGCGTTGCG
1 CAAAATCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATG-AATTTCGCGTTGCG
*
63529 ATTTCGGGA-AATCGAGTTGCAAAAACGAAATTCGCAACGCGAAAGT
65 ATTT-GGGAGAATCGAGTTGCAAAAACAAAATTCGCAACGCGAAAGT
* * *
63575 CAAAATCGCAATGCCAATTACCGATATAGGTAATTAGCGTTGTGAAAATGAATTTCGCGTTGCGA
1 CAAAATCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAATTTCGCGTTGCGA
* * *
63640 TTTTGGAGAATCGCGTTGCGAAAACAAAATTCGC
66 TTTGGGAGAATCGAGTTGCAAAAACAAAATTCGC
63674 GTTGCGATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 5 0.06
110 84 0.94
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (110 bp):
CAAAATCGCAACGCAAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAATTTCGCGTTGCGA
TTTGGGAGAATCGAGTTGCAAAAACAAAATTCGCAACGCGAAAGT
Found at i:63724 original size:20 final size:20
Alignment explanation
Indices: 63701--63738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63691 TCGCAACACG
*
63701 AATAGGTAAATCGCAACGAT
1 AATAGGTAAATCACAACGAT
*
63721 AATATGTAAATCACAACG
1 AATAGGTAAATCACAACG
63739 CGAATTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (20 bp):
AATAGGTAAATCACAACGAT
Found at i:64073 original size:20 final size:20
Alignment explanation
Indices: 64050--64099 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
64040 TGACTTCTGT
*
64050 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTAGC
* *
64070 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTAGC
64090 GTTGCGATTT
1 GTTGCGATTT
64100 TGGAACTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (20 bp):
GTTGCGATTTACATATTAGC
Found at i:64852 original size:19 final size:19
Alignment explanation
Indices: 64824--64911 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 19
64814 GAATTTGGTG
*
64824 AAATTGATTTTTAAAT-TT
1 AAATTTATTTTTAAATATT
*
64842 CAAATTTATTTTAAAAATATT
1 -AAATTTATTTT-TAAATATT
*
64863 GAATTTATTTTTATACATATT
1 AAATTTATTTTTA-A-ATATT
* * *
64884 GAATATATTTTAAAATATT
1 AAATTTATTTTTAAATATT
64903 AAATTTATT
1 AAATTTATT
64912 ATTATTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 23 0.40
20 16 0.28
21 18 0.32
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
AAATTTATTTTTAAATATT
Found at i:64882 original size:21 final size:20
Alignment explanation
Indices: 64844--64916 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
64834 TTAAATTTCA
*
64844 AATTTATTTTAAAAATATTG
1 AATTTATTTTATAAATATTG
*
64864 AATTTATTTTTATACATATTG
1 AATTTA-TTTTATAAATATTG
* *
64885 AATATATTTTA-AAATATTA
1 AATTTATTTTATAAATATTG
64904 AATTTATTATTAT
1 AATTTATT-TTAT
64917 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 13 0.30
20 14 0.32
21 17 0.39
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTTATTTTATAAATATTG
Found at i:66501 original size:17 final size:16
Alignment explanation
Indices: 66470--66516 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
66460 AATTGAAAAA
66470 AATATAATATATATAT
1 AATATAATATATATAT
*
66486 AATATAAGTTTATATAT
1 AATATAA-TATATATAT
66503 AA-ACT-ATATATATA
1 AATA-TAATATATATA
66517 AACTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.26
16 9 0.33
17 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AATATAATATATATAT
Found at i:66513 original size:30 final size:31
Alignment explanation
Indices: 66476--66539 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 31
66466 AAAAAATATA
66476 ATATATATATAA-TATAAGTTTATA-TATAAACT
1 ATATATATA-AACTAT-A-TTTATATTATAAACT
66508 ATATATATAAACTATATTTATATTATAAACT
1 ATATATATAAACTATATTTATATTATAAACT
66539 A
1 A
66540 CATAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 6 0.20
31 12 0.40
32 12 0.40
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (31 bp):
ATATATATAAACTATATTTATATTATAAACT
Found at i:66658 original size:2 final size:2
Alignment explanation
Indices: 66651--66688 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
66641 ATTTATATTA
66651 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
66689 TTATTCAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66791 original size:20 final size:20
Alignment explanation
Indices: 66761--66813 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
66751 TTGATTTTAT
66761 TTGGG-AATTTAGAGAGAAA
1 TTGGGAAATTTAGAGAGAAA
*
66780 TTGGGAAATTTAGAGGGAAA
1 TTGGGAAATTTAGAGAGAAA
66800 TTGGGAAATTTAGA
1 TTGGGAAATTTAGA
66814 TGGAATAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (20 bp):
TTGGGAAATTTAGAGAGAAA
Found at i:67819 original size:13 final size:13
Alignment explanation
Indices: 67819--67855 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
67809 CCGTTGACCC
67819 GACCCGACCCGTT
1 GACCCGACCCGTT
67832 GACCCGACCCGTT
1 GACCCGACCCGTT
67845 GACCCGACCCG
1 GACCCGACCCG
67856 ATCGTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.24, T:0.11
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:67856 original size:18 final size:18
Alignment explanation
Indices: 67800--67842 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
67790 TGACCGGTCA
67800 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
67818 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
67836 CGACCCG
1 CGACCCG
67843 TTGACCCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.51, G:0.23, T:0.09
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:67876 original size:31 final size:31
Alignment explanation
Indices: 67801--67865 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
67791 GACCGGTCAC
67801 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
67832 GACCCGACCCGTTGACCCGACCCGA-TCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
67862 GACC
1 GACC
67866 GTTGACCGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:67962 original size:29 final size:29
Alignment explanation
Indices: 67902--67969 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
67892 ATTTGGTTTT
* * * *
67902 GGTGTTATTCTGGTAATTAATTCGAAATG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
* *
67931 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
67960 GGTGCTATTT
1 GGTGCTATTT
67970 GTGTAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCAAAAAG
Found at i:75248 original size:13 final size:13
Alignment explanation
Indices: 75230--75266 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
75220 GACCGGTCAC
75230 GACCCGACCCGTT
1 GACCCGACCCGTT
75243 GACCCGACCCGTT
1 GACCCGACCCGTT
75256 GACCCGACCCG
1 GACCCGACCCG
75267 ATCGTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.24, T:0.11
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:75358 original size:29 final size:29
Alignment explanation
Indices: 75285--75360 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
75275 CCGTTGACCT
* ** *
75285 GTGCTATTCTGGTAAATAATTCGATTTTG
1 GTGCTATTCTGGTAATTAATTCGAAATGG
75314 GTGCTATTCTGGTAATTAATTCGAAATGG
1 GTGCTATTCTGGTAATTAATTCGAAATGG
*
75343 GTGCTATTTTGGTAATTA
1 GTGCTATTCTGGTAATTA
75361 TTTTAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.43
Consensus pattern (29 bp):
GTGCTATTCTGGTAATTAATTCGAAATGG
Found at i:75375 original size:29 final size:29
Alignment explanation
Indices: 75314--75380 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
75304 TTCGATTTTG
* * * *
75314 GTGCTATTCTGGTAATTAATTCGAAATGG
1 GTGCTATTTTGGTAATTAATTCAAAAAGC
* *
75343 GTGCTATTTTGGTAATTATTTTAAAAAGC
1 GTGCTATTTTGGTAATTAATTCAAAAAGC
75372 GTGCTATTT
1 GTGCTATTT
75381 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (29 bp):
GTGCTATTTTGGTAATTAATTCAAAAAGC
Found at i:77202 original size:2 final size:2
Alignment explanation
Indices: 77153--77194 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
77143 ATAAACCATG
77153 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77194 T
1 T
77195 GCTATATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77287 original size:7 final size:7
Alignment explanation
Indices: 77277--77334 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
77267 TAATTTATAG
77277 AAACCCT
1 AAACCCT
77284 AAACCCT
1 AAACCCT
**
77291 AAACTTT
1 AAACCCT
*
77298 AAATCCT
1 AAACCCT
*
77305 AAACACT
1 AAACCCT
*
77312 AAACCAT
1 AAACCCT
*
77319 AAACCAT
1 AAACCCT
77326 AAACCCT
1 AAACCCT
77333 AA
1 AA
77335 TATAAATGGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:77672 original size:13 final size:13
Alignment explanation
Indices: 77640--77666 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77630 TAATTTACAT
77640 TTAAATAATTTTA
1 TTAAATAATTTTA
77653 TTAAATAATTTTA
1 TTAAATAATTTTA
77666 T
1 T
77667 ATAATATGTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:77701 original size:19 final size:20
Alignment explanation
Indices: 77664--77730 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 20
77654 TAAATAATTT
*
77664 TATATAATATGTATGTATAAAC
1 TATAT-ATA-GTATATATAAAC
*
77686 -ATGTATAGTATATATAAAC
1 TATATATAGTATATATAAAC
*
77705 TATATATA-TATATATATA-
1 TATATATAGTATATATAAAC
77723 TATATATA
1 TATATATA
77731 ACCTCTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.20
19 20 0.50
20 9 0.22
21 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (20 bp):
TATATATAGTATATATAAAC
Found at i:77717 original size:547 final size:546
Alignment explanation
Indices: 77157--78191 Score: 1537
Period size: 554 Copynumber: 1.9 Consensus size: 546
77147 ACCATGTATA
**
77157 ATATATATATATATATATATATAT-A-TATATATATATATGCTATATAAAGTAAATTACATATAT
1 ATATATATATATATATATATATATAACTATATATATA-AAACTATATAAAGTAAATTACATATAT
* *
77220 AGTTTATAGAAACACTATGCATAAACTAAATAAAGTAATAAAATATATAATTTATAGAAACCCTA
65 AGTTTATAGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTA
*
77285 AACCCTAAACT-TTAAATCC-TAAACACTAAACCATAAACCATAAACCCTAATATAAATGGACTA
130 AACCCTAAA-TGTTAAA-CCATAAACACTAAA-C-----CC-TAAACCCTAATATAAATGGAATA
* *
77348 GCACTAATGC-ATATATATTTATAATAAAAGAGTGGGCTTATGTATTGGGTCTATGTAAACTAAT
186 GCACTAATGCAATATATATTTATAATAAAAGAGTGAGCTTATGTATTGAGTCTATGTAAACTAAT
* * * *
77412 GTAAATGGACTAGCACTATTGTAAAATTGACTTATTTTTT-TGTTTTGTTATTACTTATTCATAA
251 GTAAATGGACTAGCACTATTG-AAAATTAACTTATTTTTTGGGGTTTATTATTACTTATTCATAA
* * *
77476 CAACAAAATAAATGGGATATTAATGTTATTTAACCT-A-CAACTAAAATACTAATTATACAAAAG
315 CAACAAAATAAATGGGATATGAATGTGAATTAACCTAAGCAACTAAAATACTAATTATACAAAAG
*
77539 AAAATAATATGACATGTACTACTATTTATGAATCACATAATATGCAATGTGACATACTAATTATT
380 AAAATAATATGACATGTACTACTATTTATGAACCACATAATATGCAATGTGACATACTAATTATT
77604 TAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTATAT
445 TAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTATAT
77669 AATATGTATGTATAAACATGTATAGTATATATAAACT
510 AATATGTATGTATAAACATGTATAGTATATATAAACT
*
77706 ATATATATATATATATATATATATAACCTCTATATATATAAAAACTATATAAAGTAAATTACTTA
1 ATATATATATATATATATATATATAA---CTATATATAT-AAAACTATATAAAGTAAATTACATA
* * * *
77771 TATAGTTTATAGAAATACTATGCATAAACTATATAAAATAATAAAGTATATAGGTTATAGAAACC
62 TATAGTTTATAGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACC
*
77836 CTAAACCTTAAATGTTAAACCATAAACACTAAACCCTAAACCCTAATATAAATGGAATAGCACTA
127 CTAAACCCTAAATGTTAAACCATAAACACTAAACCCTAAACCCTAATATAAATGGAATAGCACTA
* *
77901 ATGCATATATATATTTGTAATAAAAGAGTGAGCTTATGTATTGAGTTTATGTAAACTAATGTAAA
192 ATGCA-ATATATATTTATAATAAAAGAGTGAGCTTATGTATTGAGTCTATGTAAACTAATGTAAA
* * * *
77966 TGGACTAGCACTATTGCAAATTAACTTATTTTTTGGGGTTTATTATTATTTATTTATAGCAACAA
256 TGGACTAGCACTATTGAAAATTAACTTATTTTTTGGGGTTTATTATTACTTATTCATAACAACAA
* * * *
78031 AATAAATGGGCTATGAATGTGAATTAACCTAACATGCAACTAAAATATTAATTATGCAAATGAAA
321 AATAAATGGGATATGAATGTGAATTAACCT-A-A-GCAACTAAAATACTAATTATACAAAAGAAA
* *
78096 TTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAA
383 ATAATATGACATGTACTACTATTTATGAACCACATAATATGCAATGTGACATACTAATTATTTAA
*
78161 CACCTATTTAATCATGTTTTATATAATTTAC
448 CACCTAATTAATCATGTTTTATATAATTTAC
78192 GTGTAACATC
Statistics
Matches: 436, Mismatches: 34, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
547 32 0.07
548 18 0.04
549 145 0.33
550 1 0.00
552 1 0.00
553 4 0.01
554 234 0.54
555 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (546 bp):
ATATATATATATATATATATATATAACTATATATATAAAACTATATAAAGTAAATTACATATATA
GTTTATAGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTAA
ACCCTAAATGTTAAACCATAAACACTAAACCCTAAACCCTAATATAAATGGAATAGCACTAATGC
AATATATATTTATAATAAAAGAGTGAGCTTATGTATTGAGTCTATGTAAACTAATGTAAATGGAC
TAGCACTATTGAAAATTAACTTATTTTTTGGGGTTTATTATTACTTATTCATAACAACAAAATAA
ATGGGATATGAATGTGAATTAACCTAAGCAACTAAAATACTAATTATACAAAAGAAAATAATATG
ACATGTACTACTATTTATGAACCACATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATATGTATGT
ATAAACATGTATAGTATATATAAACT
Found at i:77730 original size:29 final size:30
Alignment explanation
Indices: 77689--77745 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
77679 TATAAACATG
77689 TATAGTATATATAAACTATATATATATATA
1 TATAGTATATATAAACTATATATATATATA
* *
77719 TATA-TATATATAACCTCTATATATATA
1 TATAGTATATATAAACTATATATATATA
77746 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (30 bp):
TATAGTATATATAAACTATATATATATATA
Found at i:77745 original size:2 final size:2
Alignment explanation
Indices: 77689--77730 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
77679 TATAAACATG
*
77689 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
77731 ACCTCTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 33 0.92
3 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:77753 original size:15 final size:15
Alignment explanation
Indices: 77689--77756 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
77679 TATAAACATG
*
77689 TATAGTATATATAAAC
1 TATA-TATATAAAAAC
*
77705 TATATATATATATATA-
1 TATATATATA-A-AAAC
***
77721 TATATATATAACCTC
1 TATATATATAAAAAC
77736 TATATATATAAAAAC
1 TATATATATAAAAAC
77751 TATATA
1 TATATA
77757 AAGTAAATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
15 25 0.61
16 14 0.34
17 2 0.05
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.41
Consensus pattern (15 bp):
TATATATATAAAAAC
Found at i:78964 original size:20 final size:20
Alignment explanation
Indices: 78939--78987 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
78929 AATATGTAAT
78939 TCGCAACGCCAAAGTCAAAA
1 TCGCAACGCCAAAGTCAAAA
** * * *
78959 TCGCAATACGAAAGTTAAAT
1 TCGCAACGCCAAAGTCAAAA
78979 TCGCAACGC
1 TCGCAACGC
78988 AAACAGTTAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (20 bp):
TCGCAACGCCAAAGTCAAAA
Found at i:79024 original size:20 final size:19
Alignment explanation
Indices: 78997--79037 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
78987 CAAACAGTTA
78997 AATTGCAACGATAATATGT
1 AATTGCAACGATAATATGT
79016 AATTCGCAACGATAATATGT
1 AATT-GCAACGATAATATGT
79036 AA
1 AA
79038 ATCACAACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (19 bp):
AATTGCAACGATAATATGT
Found at i:79045 original size:20 final size:20
Alignment explanation
Indices: 79002--79046 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
78992 AGTTAAATTG
* *
79002 CAACGATAATATGTAATTCG
1 CAACGATAATATGTAAATCA
79022 CAACGATAATATGTAAATCA
1 CAACGATAATATGTAAATCA
79042 CAACG
1 CAACG
79047 CAAATTCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (20 bp):
CAACGATAATATGTAAATCA
Found at i:79273 original size:146 final size:145
Alignment explanation
Indices: 78996--79261 Score: 406
Period size: 146 Copynumber: 1.8 Consensus size: 145
78986 GCAAACAGTT
* * * * *
78996 AAATTGCAACGATAATATGTAATTCGCAACGATAATATGTAAATCACAACGCAAATTCTCCAAAT
1 AAATTGCAACGAGAATAGGTAAATCACAACGATAATATGTAAATCACAACACAAATTCTCCAAAT
79061 TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGAGTTGCGAAAACGAAATTC
66 TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGAGTTGCGAAAACGAAATTC
79126 GCGTTGCGATTTTCC
131 GCGTTGCGATTTTCC
* ** *
79141 AAATTCGCAACGCGAATAGGTAAATCACAACGATAATATGTAAATGGCAACACGAATTCTCCAAA
1 AAATT-GCAACGAGAATAGGTAAATCACAACGATAATATGTAAATCACAACACAAATTCTCCAAA
* * * *
79206 TTCGCAACTCGAATTTTGCAATGCTAATTACTGATATAGGTAATTAGCGTTGCGAA
65 TTCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGAGTTGCGAA
79262 TTTCATTTTC
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
145 5 0.05
146 102 0.95
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (145 bp):
AAATTGCAACGAGAATAGGTAAATCACAACGATAATATGTAAATCACAACACAAATTCTCCAAAT
TCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGAGTTGCGAAAACGAAATTC
GCGTTGCGATTTTCC
Found at i:79295 original size:63 final size:63
Alignment explanation
Indices: 79206--79324 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 63
79196 ATTCTCCAAA
* *
79206 TTCGCAACTCGAATTTTGCAATGCTAATTA-CTGATATAGGTAATTAGCGTTGCGAATTTCATT
1 TTCGCAACTCGAATTTCGCAACGCTAATTACCT-ATATAGGTAATTAGCGTTGCGAATTTCATT
* * *
79269 TTCGCAATTTGAATTTCGCAACGCTAATTACCTATATCGGTAATTAGCGTTGCGAA
1 TTCGCAACTCGAATTTCGCAACGCTAATTACCTATATAGGTAATTAGCGTTGCGAA
79325 AATGAAATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
63 48 0.96
64 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (63 bp):
TTCGCAACTCGAATTTCGCAACGCTAATTACCTATATAGGTAATTAGCGTTGCGAATTTCATT
Found at i:79336 original size:63 final size:63
Alignment explanation
Indices: 79202--79345 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 63
79192 ACGAATTCTC
* * **
79202 CAAATTCGCAACTCGAATTTTGCAATGCTAATTACTGATATAGGTAATTAGCGTTGCGAATTT
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAAT
** * * *
79265 CATTTTCGCAATTTGAATTTCGCAACGCTAATTACCT-ATATCGGTAATTAGCGTTGCGAAAAT
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTA-CTGATATAGGTAATTAGCGTTGCGAAAAT
* *
79328 GAAATTCGCAACGCGAAT
1 CAAATTCGCAACTCGAAT
79346 AGGTAAATCA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
63 63 0.97
64 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (63 bp):
CAAATTCGCAACTCGAATTTCGCAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAAT
Found at i:79371 original size:20 final size:20
Alignment explanation
Indices: 79343--79380 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
79333 TCGCAACGCG
79343 AATAGGTAAATCACAATGAT
1 AATAGGTAAATCACAATGAT
* *
79363 AATATGTAAATCGCAATG
1 AATAGGTAAATCACAATG
79381 CGAATTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
AATAGGTAAATCACAATGAT
Found at i:79544 original size:90 final size:90
Alignment explanation
Indices: 79391--79578 Score: 279
Period size: 90 Copynumber: 2.1 Consensus size: 90
79381 CGAATTCTCC
*
79391 AAATTCGCAACGCTAATTACCGATATAGGTAATTAACGTTGCGAAAATGAAATTCGCGTTGCGAT
1 AAATTCGCAACGCCAATTACCGATATAGGTAATTAACGTTGCGAAAATGAAATTCGCGTTGCGAT
* *
79456 TTCGGGA-AATTGAGTTGCAAAAACG
66 TT-GGGAGAATCGAGTTGCAAAAACA
* * *
79481 AAATTCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAATTTCGTGTTGCGAT
1 AAATTCGCAACGCCAATTACCGATATAGGTAATTAACGTTGCGAAAATGAAATTCGCGTTGCGAT
* * *
79546 TTTGGAGAATCGCGTTGCGAAAACA
66 TTGGGAGAATCGAGTTGCAAAAACA
79571 AAATTCGC
1 AAATTCGC
79579 GTTGCGATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 3 0.03
90 85 0.97
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (90 bp):
AAATTCGCAACGCCAATTACCGATATAGGTAATTAACGTTGCGAAAATGAAATTCGCGTTGCGAT
TTGGGAGAATCGAGTTGCAAAAACA
Found at i:79977 original size:20 final size:20
Alignment explanation
Indices: 79954--80003 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
79944 TGACTTATGT
79954 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
*
79974 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
79994 GTTGCGATTT
1 GTTGCGATTT
80004 TGGAACTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:80757 original size:19 final size:19
Alignment explanation
Indices: 80729--80816 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 19
80719 GAATTTGGTG
*
80729 AAATTGATTTTTAAAT-TT
1 AAATTTATTTTTAAATATT
*
80747 CAAATTTATTTTAAAAATATT
1 -AAATTTATTTT-TAAATATT
*
80768 GAATTTATTTTTATACATATT
1 AAATTTATTTTTA-A-ATATT
* * *
80789 GAATATATTTTAAAATATT
1 AAATTTATTTTTAAATATT
80808 AAATTTATT
1 AAATTTATT
80817 ATTATTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 23 0.40
20 16 0.28
21 18 0.32
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
AAATTTATTTTTAAATATT
Found at i:80787 original size:21 final size:20
Alignment explanation
Indices: 80749--80821 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
80739 TTAAATTTCA
*
80749 AATTTATTTTAAAAATATTG
1 AATTTATTTTATAAATATTG
*
80769 AATTTATTTTTATACATATTG
1 AATTTA-TTTTATAAATATTG
* *
80790 AATATATTTTA-AAATATTA
1 AATTTATTTTATAAATATTG
80809 AATTTATTATTAT
1 AATTTATT-TTAT
80822 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 13 0.30
20 14 0.32
21 17 0.39
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTTATTTTATAAATATTG
Found at i:82518 original size:17 final size:16
Alignment explanation
Indices: 82487--82533 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
82477 AATTGAAAAA
82487 AATATAATATATATAT
1 AATATAATATATATAT
*
82503 AATATAAGTTTATATAT
1 AATATAA-TATATATAT
82520 AA-ACT-ATATATATA
1 AATA-TAATATATATA
82534 AACTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.26
16 9 0.33
17 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AATATAATATATATAT
Found at i:82530 original size:30 final size:31
Alignment explanation
Indices: 82493--82556 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 31
82483 AAAAAATATA
82493 ATATATATATAA-TATAAGTTTATA-TATAAACT
1 ATATATATA-AACTAT-A-TTTATATTATAAACT
82525 ATATATATAAACTATATTTATATTATAAACT
1 ATATATATAAACTATATTTATATTATAAACT
82556 A
1 A
82557 CATAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 6 0.20
31 12 0.40
32 12 0.40
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (31 bp):
ATATATATAAACTATATTTATATTATAAACT
Found at i:82531 original size:15 final size:15
Alignment explanation
Indices: 82513--82632 Score: 74
Period size: 15 Copynumber: 8.0 Consensus size: 15
82503 AATATAAGTT
82513 TATATATAAAC--TA
1 TATATATAAACTATA
82526 TATATATAAACTATA
1 TATATATAAACTATA
*
82541 TTTATATTATAAACTACA
1 --TATA-TATAAACTATA
*
82559 TA-ATTATTAA-TAGCTA
1 TATA-TATAAACTA--TA
* *
82575 TATATATAAATTATG
1 TATATATAAACTATA
*
82590 TTTATA-AGAACTATA
1 TATATATA-AACTATA
82605 TATATA-AAA-TATA
1 TATATATAAACTATA
*
82618 TATGTATAAACTATA
1 TATATATAAACTATA
82633 AAAAGTATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 22
0.73 0.09 0.19
Matches are distributed among these distances:
13 20 0.24
14 8 0.09
15 30 0.35
16 10 0.12
17 7 0.08
18 10 0.12
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:82681 original size:2 final size:2
Alignment explanation
Indices: 82668--82702 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
82658 ATTTATATTA
82668 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82703 TATTCAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82693 original size:29 final size:29
Alignment explanation
Indices: 82639--82694 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
82629 TATAAAAAGT
* *
82639 ATATAGTTTATAAACTATAATTTATATTA
1 ATATAGTATATAAACTATAATATATATTA
*
82668 ATATAGTATATATA-TATATATATATAT
1 ATATAGTATATAAACTATA-ATATATAT
82695 ATATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (29 bp):
ATATAGTATATAAACTATAATATATATTA
Found at i:82828 original size:20 final size:20
Alignment explanation
Indices: 82774--82831 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
82764 TTGATTTTAT
*
82774 TTGGG-AATTTAGAGAGAAA
1 TTGGGAAATTTAGAGGGAAA
82793 TTGGGAAATTTAGAGGGAAA
1 TTGGGAAATTTAGAGGGAAA
82813 TTGGGAAATTTAGAGGGAA
1 TTGGGAAATTTAGAGGGAA
82832 TAGAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 5 0.14
20 32 0.86
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (20 bp):
TTGGGAAATTTAGAGGGAAA
Found at i:83255 original size:2 final size:2
Alignment explanation
Indices: 83214--83247 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
83204 ATAAACCATG
83214 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83248 GCTATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83378 original size:14 final size:14
Alignment explanation
Indices: 83330--83379 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
83320 TAATTTATAG
**
83330 AAACCCTAAACTTT
1 AAACCCTAAACCAT
*
83344 AAATCCTAAA-CACT
1 AAACCCTAAACCA-T
83358 AAA-CCTAAACCAT
1 AAACCCTAAACCAT
83371 AAACCCTAA
1 AAACCCTAA
83380 TATAAATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:83716 original size:13 final size:13
Alignment explanation
Indices: 83684--83710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83674 TAATTTACAT
83684 TTAAATAATTTTA
1 TTAAATAATTTTA
83697 TTAAATAATTTTA
1 TTAAATAATTTTA
83710 T
1 T
83711 ATAATATATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:83762 original size:19 final size:19
Alignment explanation
Indices: 83714--83791 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
83704 ATTTTATATA
* *
83714 ATATATATGTATAAACCAT
1 ATATATATATATAAACTAT
*
83733 GTATAATATATATAAAC--T
1 ATAT-ATATATATAAACTAT
*
83751 ATATATATATATAACCTAT
1 ATATATATATATAAACTAT
*
83770 ATATATATATAAAAACTAT
1 ATATATATATATAAACTAT
83789 ATA
1 ATA
83792 AAGTAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
17 11 0.22
18 4 0.08
19 24 0.48
20 11 0.22
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (19 bp):
ATATATATATATAAACTAT
Found at i:83791 original size:17 final size:17
Alignment explanation
Indices: 83714--83782 Score: 84
Period size: 17 Copynumber: 3.9 Consensus size: 17
83704 ATTTTATATA
*
83714 ATATATATGTATAAACCAT
1 ATATATATATATAAA-C-T
*
83733 GTATAATATATATAAACT
1 ATAT-ATATATATAAACT
*
83751 ATATATATATATAACCT
1 ATATATATATATAAACT
83768 ATATATATATATAAA
1 ATATATATATATAAA
83783 AACTATATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
17 26 0.59
18 4 0.09
19 4 0.09
20 10 0.23
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATATATATATAAACT
Found at i:83876 original size:7 final size:7
Alignment explanation
Indices: 83866--83916 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
83856 TAAGTTATAG
83866 AAACCCT
1 AAACCCT
83873 AAACCCT
1 AAACCCT
***
83880 AAATGTT
1 AAACCCT
*
83887 AAACCAT
1 AAACCCT
*
83894 AAACACT
1 AAACCCT
83901 AAACCCT
1 AAACCCT
83908 AAACCCT
1 AAACCCT
83915 AA
1 AA
83917 TATAAATGGA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:84209 original size:545 final size:534
Alignment explanation
Indices: 83218--84271 Score: 1655
Period size: 545 Copynumber: 2.0 Consensus size: 534
83208 ACCATGTATA
* ** * *
83218 ATATATATATATATATATATATATATATATGCTATATAAAGTAAATTAGATATATAGTTTATAGA
1 ATATATATATATATATATATATATATAAAAACTATATAAAGTAAATTACATATATAATTTATAGA
* * **
83283 AACACTATGCATAAACTAAATAAAGTAATAAAATATATAATTTATAGAAACCCTAAACTTTAAAT
66 AACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTAAACCCTAAAT
*
83348 CCTAAACACTAAACCTAAACCATAAACCCTAATATAAATGGACTAGCACTAATGCATATATATTT
131 CCTAAACACTAAACCTAAACCATAAACCCTAATATAAATGGAATAGCACTAATGCATATATATTT
83413 GTAATAAAAGAGTGGGCTTATGTATTGGGTCTATGTAAACTAATGTAAATGGACTAGCACTATTG
196 GTAATAAAAGAGTGGGCTTATGTATTGGGTCTATGTAAACTAATGTAAATGGACTAGCACTATTG
* * *
83478 CAAATTGACTTATTTTTTGGTTTTGTTATTACTTATTCATAACAACAAAATAAATGGGCTATTAA
261 CAAATTGACTTATTTTTTGGGTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTATGAA
* *
83543 TGTTATTTAACCTGCAACCAAAATACTAATTATACAAATGAAAATAATATGACATGTACTACTAT
326 TGTAATTTAACATGCAACCAAAATACTAATTATACAAATGAAAATAATATGACATGTACTACTAT
*
83608 TTATGAATCACATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTAT
391 TTATGAACCACATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTAT
83673 ATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATA-TATATGTATAAACCATGTAT
456 ATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATAGTATATGTATAAACCATGTAT
83737 AATATATATAAACT
521 AATATATATAAACT
*
83751 ATATATATATATAACCTATATATATATATAAAAACTATATAAAGTAAATTACTTATATAATTTAT
1 ATATATATATAT-A--TATATATATATATAAAAACTATATAAAGTAAATTACATATATAATTTAT
* * *
83816 AGAAATACTATGCATAAACTATATAAAATAATAAAGTATATAAGTTATAGAAACCCTAAACCCTA
63 AGAAACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTAAACCCTA
** *
83881 AATGTTAAAC-CATAAACACTAAACCCTAAACCCTAATATAAATGGAATAGCACTAATGCATATA
128 AATCCTAAACAC-TAAAC-CTAAACCATAAACCCTAATATAAATGGAATAGCACTAATGC--ATA
*
83945 TATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGTTTATGTAAACTAATGTAAATGGACTAGC
189 TATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGTCTATGTAAACTAATGTAAATGGACTAGC
* * * *
84010 ACTATTGTAAA-TGAACTTATTTTTTGGGGTTTATTATTATTTATTTATAGCAACAAAATAAATG
254 ACTATTGCAAATTG-ACTTATTTTTT-GGGTTTATTATTACTTATTCATAACAACAAAATAAATG
* * *
84074 GGCTATGAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
317 GGCTATGAATGT-AATT----TAACATGCAACCAAAATACTAATTATACAAATGAAAATAATATG
* *
84139 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTATT
377 ACATGTACTACTATTTATGAACCACATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
84204 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATATGTATAT
442 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATA-GTATAT
84269 GTA
506 GTA
84272 AACTCTCTAT
Statistics
Matches: 472, Mismatches: 33, Indels: 18
0.90 0.06 0.03
Matches are distributed among these distances:
533 12 0.03
534 1 0.00
535 1 0.00
536 114 0.24
537 39 0.08
538 2 0.00
539 88 0.19
540 44 0.09
541 3 0.01
545 160 0.34
547 8 0.02
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (534 bp):
ATATATATATATATATATATATATATAAAAACTATATAAAGTAAATTACATATATAATTTATAGA
AACACTATGCATAAACTAAATAAAATAATAAAATATATAAGTTATAGAAACCCTAAACCCTAAAT
CCTAAACACTAAACCTAAACCATAAACCCTAATATAAATGGAATAGCACTAATGCATATATATTT
GTAATAAAAGAGTGGGCTTATGTATTGGGTCTATGTAAACTAATGTAAATGGACTAGCACTATTG
CAAATTGACTTATTTTTTGGGTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTATGAA
TGTAATTTAACATGCAACCAAAATACTAATTATACAAATGAAAATAATATGACATGTACTACTAT
TTATGAACCACATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTAT
ATAATTTACATTTAAATAATTTTATTAAATAATTTTATATAATAGTATATGTATAAACCATGTAT
AATATATATAAACT
Found at i:84261 original size:13 final size:13
Alignment explanation
Indices: 84229--84255 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84219 TAATTTACAT
84229 TTAAATAATTTTA
1 TTAAATAATTTTA
84242 TTAAATAATTTTA
1 TTAAATAATTTTA
84255 T
1 T
84256 ATAATATGTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:84770 original size:400 final size:402
Alignment explanation
Indices: 83992--85047 Score: 1936
Period size: 400 Copynumber: 2.6 Consensus size: 402
83982 TTATGTAAAC
* * * *
83992 TAATGTAAATGGACTAGCACTATTGTAAATGAACTTATTTTTTGGGGTTTATTATTATTTATTTA
1 TAATGTAAATGGACTAGCACTATTGCAAATGAACTTA-TTTTTGGGTTTTATTATTACTTATTCA
* *
84057 TAGCAACAAAATAAATGGGCTATGAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATG
65 TAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATG
* *
84122 CAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTA
130 CAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATCCAA
*
84187 ATTATTTAACACCTATTTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATT
195 ATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATT
*
84252 TTATATAATATGTATATGTAAACTCTCTATCTCTCTCTATATATAAACTATATATAAAGTAAAAT
260 GTATATAATATGTATATGTAAACTCTCTATCTCTCTCTATATATAAACTATATATAAAGTAAAAT
84317 ACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAAT-AAA-ATATAATTTATAA
325 ACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAA
84380 AAACCATAAACCT
390 AAACCATAAACCT
*
84393 TAATGTAAATGGACTAGCACTAATGCAAATGAACTTATTTTTGGGTTTTATTATTACTTATTCAT
1 TAATGTAAATGGACTAGCACTATTGCAAATGAACTTATTTTTGGGTTTTATTATTACTTATTCAT
84458 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
66 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
84523 AAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATCCAAA
131 AAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATCCAAA
84588 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTG
196 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTG
* * *
84653 TATATAATATGTATATGTAAACTCTCTATCTCTCTCTCTCTATAAACTATATATAAAGTAAATTA
261 TATATAATATGTATATGTAAACTCTCTATCTCTCTCTATATATAAACTATATATAAAGTAAAATA
*
84718 CTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAGA
326 CTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAA
84783 AACCATAAACCT
391 AACCATAAACCT
* *
84795 TAATGTAAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCAT
1 TAATGTAAATGGACTAGCACTATTGCAAATGAACTTATTTTTGGGTTTTATTATTACTTATTCAT
84860 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
66 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
84925 AAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATCCAAA
131 AAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATCCAAA
84990 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAA
196 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAA
85048 TTTTATTAAA
Statistics
Matches: 635, Mismatches: 18, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
400 322 0.51
401 38 0.06
402 275 0.43
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.38
Consensus pattern (402 bp):
TAATGTAAATGGACTAGCACTATTGCAAATGAACTTATTTTTGGGTTTTATTATTACTTATTCAT
AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
AAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATCCAAA
TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAAATAATTG
TATATAATATGTATATGTAAACTCTCTATCTCTCTCTATATATAAACTATATATAAAGTAAAATA
CTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAA
AACCATAAACCT
Found at i:85113 original size:20 final size:21
Alignment explanation
Indices: 85064--85114 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
85054 TAAATAATTT
*
85064 TATATAATATGTATTTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
85086 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
85106 TATATATAT
1 TATATATAT
85115 AACATATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:85141 original size:13 final size:14
Alignment explanation
Indices: 85095--85128 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
85085 CCATGTATAG
85095 TATATATAAAC-TA
1 TATATATAAACATA
85108 TATATAT-AACATA
1 TATATATAAACATA
85121 TATATATA
1 TATATATA
85129 TATAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 16 0.84
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
TATATATAAACATA
Found at i:85226 original size:7 final size:7
Alignment explanation
Indices: 85216--85273 Score: 98
Period size: 7 Copynumber: 8.3 Consensus size: 7
85206 TAGGTTATAG
85216 AAACCCT
1 AAACCCT
85223 AAACCCT
1 AAACCCT
85230 AAACCCT
1 AAACCCT
85237 AAACCCT
1 AAACCCT
85244 AAACCCT
1 AAACCCT
*
85251 AAACACT
1 AAACCCT
*
85258 AAACCAT
1 AAACCCT
85265 AAACCCT
1 AAACCCT
85272 AA
1 AA
85274 TGTAAATGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:85233 original size:49 final size:49
Alignment explanation
Indices: 85130--85233 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 49
85120 ATATATATAT
* * ** * **
85130 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAATAAATAAAGTATATAGGTTATAGAAACACTAACC
*
85179 ATAAACTATATAAAAT-AATAAAGTATATAGGTTATAGAAACCCTAAACC
1 ATAAACTATATAAAATAAATAAAGTATATAGGTTATAGAAACACT-AACC
*
85228 CTAAAC
1 ATAAAC
85234 CCTAAACCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 23 0.51
49 22 0.49
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (49 bp):
ATAAACTATATAAAATAAATAAAGTATATAGGTTATAGAAACACTAACC
Found at i:85603 original size:2 final size:2
Alignment explanation
Indices: 85598--85656 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
85588 ATAAACCATG
85598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85640 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
85657 TGTAACATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87550 original size:22 final size:22
Alignment explanation
Indices: 87522--87567 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
87512 TATATACAGT
*
87522 ATACATAGGTCATTTGGGACAA
1 ATACATAGGTCATTCGGGACAA
87544 ATACATAGGTCATTCGGGACAA
1 ATACATAGGTCATTCGGGACAA
87566 AT
1 AT
87568 TTCATATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (22 bp):
ATACATAGGTCATTCGGGACAA
Found at i:89122 original size:65 final size:64
Alignment explanation
Indices: 88998--89157 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 64
88988 TGCACTAAGA
* * * ** *
88998 GTGCATCAATGCATGAAGTGCATTCGAT-ATTTCAAAATAGTCTGAGTGCATCGATGCAT-GTCT
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCAAAATAACCTGAGTGCATCGATGCATGGT-A
89061 T
64 T
*
89062 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AACCTGAGTGCGTCGATGCATGGTA
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCA-AAATAACCTGAGTGCATCGATGCATGGTA
89126 T
64 T
*
89127 GTGCATCGATGCATATAATGTATTCGATGTT
1 GTGCATCGATGCATA-AATGCATTCGATGTT
89158 CAATTTATTC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 26 0.31
65 52 0.63
66 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTTCAAAATAACCTGAGTGCATCGATGCATGGTAT
Found at i:89789 original size:2 final size:2
Alignment explanation
Indices: 89782--89811 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89772 CAAACCAAAC
89782 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
89812 TAAGATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95785 original size:22 final size:21
Alignment explanation
Indices: 95743--95782 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95733 GAGATTATTT
95743 TCATTTTTCAATTTTAAAATA
1 TCATTTTTCAATTTTAAAATA
**
95764 TCATTTTTGTATTTTAAAA
1 TCATTTTTCAATTTTAAAA
95783 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:96218 original size:21 final size:21
Alignment explanation
Indices: 96194--96234 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96184 GTAGACGTAC
*
96194 TGTAGCAGTGCATCGGTACAT
1 TGTAGCAGTGCATCGATACAT
*
96215 TGTAGTAGTGCATCGATACA
1 TGTAGCAGTGCATCGATACA
96235 CAATTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATACAT
Found at i:96376 original size:19 final size:19
Alignment explanation
Indices: 96330--96377 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
96320 CTGTTCGTGG
96330 TACTGTTCATACAGTATAA
1 TACTGTTCATACAGTATAA
* * *
96349 TACTATTCATACCGTATAG
1 TACTGTTCATACAGTATAA
*
96368 TATTGTTCAT
1 TACTGTTCAT
96378 GAAAACATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TACTGTTCATACAGTATAA
Found at i:96664 original size:14 final size:14
Alignment explanation
Indices: 96642--96679 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
96632 TAGGTTATAG
*
96642 AAACCTTAAACCCT
1 AAACTTTAAACCCT
96656 AAACTTTAAACCCT
1 AAACTTTAAACCCT
*
96670 AAACTCTAAA
1 AAACTTTAAA
96680 TACTAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACTTTAAACCCT
Found at i:96672 original size:21 final size:21
Alignment explanation
Indices: 96642--96706 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
96632 TAGGTTATAG
*
96642 AAACCTTAAACCCTAAACTTT
1 AAACCCTAAACCCTAAACTTT
* *
96663 AAACCCTAAACTCTAAA-TACT
1 AAACCCTAAACCCTAAACT-TT
* *
96684 AAACCCTAAACCATAAACCTT
1 AAACCCTAAACCCTAAACTTT
96705 AA
1 AA
96707 TGTAAATGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACTTT
Found at i:97386 original size:23 final size:24
Alignment explanation
Indices: 97359--97408 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
97349 ATTATTTTTC
*
97359 TTTATATAGATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
97382 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
97406 TTT
1 TTT
97409 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:97673 original size:16 final size:16
Alignment explanation
Indices: 97620--97674 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
97610 CGGATCATTT
*
97620 ACAGGTCAAGTTAAAA
1 ACAGGTCAGGTTAAAA
* *
97636 ACATGCCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
97652 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
97668 ACAGGTC
1 ACAGGTC
97675 GGGTAATACC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:99709 original size:19 final size:19
Alignment explanation
Indices: 99674--99710 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99664 TCATCATTAT
*
99674 ATTACTAAATTTACTTTAA
1 ATTACTAAATTGACTTTAA
*
99693 ATTACTAAATTGGCTTTA
1 ATTACTAAATTGACTTTA
99711 TGTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTACTAAATTGACTTTAA
Found at i:103232 original size:13 final size:12
Alignment explanation
Indices: 103196--103265 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 12
103186 TTGTTAGAAC
103196 AATAAATATAAACA
1 AATAAATA-AAA-A
*
103210 AAAAACATAAAATA
1 AATAA-ATAAAA-A
103224 AATAAATAACAGAA
1 AATAAATAA-A-AA
*
103238 AACAAATAAAAA
1 AATAAATAAAAA
103250 AACTAAATAATAAA
1 AA-TAAATAA-AAA
103264 AA
1 AA
103266 ACAAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
12 4 0.09
13 11 0.24
14 27 0.59
15 4 0.09
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.16
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:103234 original size:18 final size:18
Alignment explanation
Indices: 103197--103281 Score: 72
Period size: 18 Copynumber: 4.9 Consensus size: 18
103187 TGTTAGAACA
*
103197 ATAAATATAAACAAAAAAC
1 ATAAA-ATAAATAAAAAAC
*
103216 ATAAAATAAATAAATAAC
1 ATAAAATAAATAAAAAAC
* *
103234 AGAAAACAAATAAAAAA-
1 ATAAAATAAATAAAAAAC
103251 ACT-AAAT-AATAAAAAAC
1 A-TAAAATAAATAAAAAAC
*
103268 A-AAAA-AAACAAAAA
1 ATAAAATAAATAAAAA
103282 CAAATAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 19 0.35
17 5 0.09
18 25 0.46
19 5 0.09
ACGTcount: A:0.78, C:0.08, G:0.01, T:0.13
Consensus pattern (18 bp):
ATAAAATAAATAAAAAAC
Found at i:103247 original size:27 final size:26
Alignment explanation
Indices: 103196--103275 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
103186 TTGTTAGAAC
* *
103196 AATAAATATA-AACAAAAA-ACATAA
1 AATAAATAAATAACAAAAACAAATAA
103220 AATAAATAAATAACAGAAAACAAATAA
1 AATAAATAAATAACA-AAAACAAATAA
* *
103247 AA-AAACTAAATAATAAAAAACAAAAAA
1 AATAAA-TAAATAA-CAAAAACAAATAA
103274 AA
1 AA
103276 CAAAAACAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 9 0.19
25 4 0.09
26 7 0.15
27 26 0.55
28 1 0.02
ACGTcount: A:0.78, C:0.07, G:0.01, T:0.14
Consensus pattern (26 bp):
AATAAATAAATAACAAAAACAAATAA
Found at i:103292 original size:18 final size:19
Alignment explanation
Indices: 103209--103292 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 19
103199 AAATATAAAC
*
103209 AAAAAACATAAAATAAAT-
1 AAAAAACATAAAACAAATA
* *
103227 AAATAACAGAAAACAAATA
1 AAAAAACATAAAACAAATA
* *
103246 AAAAAACTAAATAATAAAAAACAA
1 AAAAAAC---ATAA-AACAAA-TA
103270 AAAAAACA-AAAACAAATA
1 AAAAAACATAAAACAAATA
103288 AAAAA
1 AAAAA
103293 TAGAAAACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
18 21 0.41
19 11 0.22
20 2 0.04
21 1 0.02
22 3 0.06
23 5 0.10
24 8 0.16
ACGTcount: A:0.80, C:0.08, G:0.01, T:0.11
Consensus pattern (19 bp):
AAAAAACATAAAACAAATA
Done.