Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006566.1 Hibiscus syriacus cultivar Beakdansim tig00016067_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: 106155
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:1009 original size:18 final size:18
Alignment explanation
Indices: 978--1014 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
968 ATGACCAAAG
978 TATAACTTTCAAAAAGCT
1 TATAACTTTCAAAAAGCT
996 TATAA-TTTCAAAAAGCT
1 TATAACTTTCAAAAAGCT
1013 TA
1 TA
1015 GAGACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (18 bp):
TATAACTTTCAAAAAGCT
Found at i:1425 original size:31 final size:31
Alignment explanation
Indices: 1387--1449 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
1377 CTTTGACTTA
*
1387 TGGAAAATGATAAGGTTGAGGTGTCTTGGTT
1 TGGAAAATGATAAGGTTGAGGAGTCTTGGTT
* *
1418 TGGAAAATGATAAGGTTTAGGAGTCTTTGTT
1 TGGAAAATGATAAGGTTGAGGAGTCTTGGTT
1449 T
1 T
1450 AATGGTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.32, T:0.38
Consensus pattern (31 bp):
TGGAAAATGATAAGGTTGAGGAGTCTTGGTT
Found at i:2274 original size:24 final size:24
Alignment explanation
Indices: 2242--2288 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2232 CATGAAATTG
2242 TACATAGATGTTTTATACATCATA
1 TACATAGATGTTTTATACATCATA
2266 TACATAGATGTTTTATACATCAT
1 TACATAGATGTTTTATACATCAT
2289 CAGCAAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
TACATAGATGTTTTATACATCATA
Found at i:8456 original size:31 final size:31
Alignment explanation
Indices: 8418--8538 Score: 224
Period size: 31 Copynumber: 3.9 Consensus size: 31
8408 GACATATGGG
*
8418 AGATGATAAGGTTGAAGTGTCTTGGTTTGGA
1 AGATGATAAGGTTGAGGTGTCTTGGTTTGGA
8449 AGATGATAAGGTTGAGGTGTCTTGGTTTGGA
1 AGATGATAAGGTTGAGGTGTCTTGGTTTGGA
8480 AGATGATAAGGTTGAGGTGTCTTGGTTTGGA
1 AGATGATAAGGTTGAGGTGTCTTGGTTTGGA
*
8511 AGATGATAAGGTTTAGGTGTCTTGGTTT
1 AGATGATAAGGTTGAGGTGTCTTGGTTT
8539 AATGGTAATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.23, C:0.03, G:0.36, T:0.37
Consensus pattern (31 bp):
AGATGATAAGGTTGAGGTGTCTTGGTTTGGA
Found at i:9867 original size:24 final size:24
Alignment explanation
Indices: 9835--9881 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
9825 CATGAAATTG
9835 TACATAGATGTTTTATACATCATA
1 TACATAGATGTTTTATACATCATA
9859 TACATAGATGTTTTATACATCAT
1 TACATAGATGTTTTATACATCAT
9882 CAGCAAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
TACATAGATGTTTTATACATCATA
Found at i:14243 original size:20 final size:20
Alignment explanation
Indices: 14218--14267 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
14208 TCAGTGAGGG
14218 GTATCGATACCAACAGG-TTA
1 GTATCGATACCAA-AGGTTTA
*
14238 GTATCGATACTAAAGGTTTA
1 GTATCGATACCAAAGGTTTA
*
14258 ATATCGATAC
1 GTATCGATAC
14268 TGAAGGGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (20 bp):
GTATCGATACCAAAGGTTTA
Found at i:14268 original size:20 final size:19
Alignment explanation
Indices: 14219--14273 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
14209 CAGTGAGGGG
* *
14219 TATCGATACCAACAGGTTAG
1 TATCGATACTAA-AGGTTAA
14239 TATCGATACTAAAGGTTTAA
1 TATCGATACTAAAGG-TTAA
*
14259 TATCGATACTGAAGG
1 TATCGATACTAAAGG
14274 GTCAATATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (19 bp):
TATCGATACTAAAGGTTAA
Found at i:14280 original size:20 final size:20
Alignment explanation
Indices: 14239--14282 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
14229 AACAGGTTAG
* *
14239 TATCGATACTAAAGGTTTAA
1 TATCGATACTAAAGGGTCAA
*
14259 TATCGATACTGAAGGGTCAA
1 TATCGATACTAAAGGGTCAA
14279 TATC
1 TATC
14283 AGTACACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
TATCGATACTAAAGGGTCAA
Found at i:16181 original size:103 final size:103
Alignment explanation
Indices: 15997--16200 Score: 309
Period size: 103 Copynumber: 2.0 Consensus size: 103
15987 TGAAAATGTA
* * * * *
15997 AGTTGAATGTTTTTTCTAACGTTATATGATCTAAAATGCTCGAGCGGAGTATACTAGTCGAGTGT
1 AGTTGAATGTTTTTTCTAACGTTATATGATCTAAAATACTAGAACGGAGTAGACTAGTCGAGTAT
16062 ACATTCTTGATCTTAACGGTGATTCAGGACTCACCCCC
66 ACATTCTTGATCTTAACGGTGATTCAGGACTCACCCCC
* * * *
16100 AGTTGAATGTTTTTTCTAACGTTATATGATCTAAAATATTAGAACGGAGTAGATTAGTTGGGTAT
1 AGTTGAATGTTTTTTCTAACGTTATATGATCTAAAATACTAGAACGGAGTAGACTAGTCGAGTAT
* *
16165 ACATTCTTGATGTTAACGGTGATTTAGGACTCACCC
66 ACATTCTTGATCTTAACGGTGATTCAGGACTCACCC
16201 AAAGTACTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 90 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (103 bp):
AGTTGAATGTTTTTTCTAACGTTATATGATCTAAAATACTAGAACGGAGTAGACTAGTCGAGTAT
ACATTCTTGATCTTAACGGTGATTCAGGACTCACCCCC
Found at i:18407 original size:16 final size:17
Alignment explanation
Indices: 18365--18413 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
18355 GAGATAATGG
*
18365 AAAGGAAGAAGAACAAGA
1 AAAGAAAGAA-AACAAGA
*
18383 AGAAGAGAAAAAAACAAGA
1 A-AAGA-AAGAAAACAAGA
18402 AAAGAAAGAAAA
1 AAAGAAAGAAAA
18414 AGATGTTGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 11 0.42
20 4 0.15
ACGTcount: A:0.73, C:0.04, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAACAAGA
Found at i:20314 original size:20 final size:20
Alignment explanation
Indices: 20266--20306 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20256 TGATACTTTT
*
20266 CAAGAGTTTCGAAACTATCT
1 CAAGAGTTTCGAAACTATCC
*
20286 CAAGAGTTTCGAAACTTTCC
1 CAAGAGTTTCGAAACTATCC
20306 C
1 C
20307 TAAAGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (20 bp):
CAAGAGTTTCGAAACTATCC
Found at i:20944 original size:19 final size:18
Alignment explanation
Indices: 20920--20955 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20910 CGATCGAGCT
20920 TCATAAATCCTAACATATA
1 TCATAAATCCT-ACATATA
*
20939 TCATAATTCCTACATAT
1 TCATAAATCCTACATAT
20956 GTGCGTGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (18 bp):
TCATAAATCCTACATATA
Found at i:22234 original size:14 final size:14
Alignment explanation
Indices: 22197--22294 Score: 69
Period size: 14 Copynumber: 7.1 Consensus size: 14
22187 AAGATTACAG
*
22197 TTTAGGATATAAG-
1 TTTAGGATTTAAGA
22210 TTTAAGG-TTTAAGA
1 TTT-AGGATTTAAGA
22224 TTTAGGATTTATAG-
1 TTTAGGATTTA-AGA
* *
22238 TTTAAGATTTAAAA
1 TTTAGGATTTAAGA
*
22252 TTTGGGATTTGAA-A
1 TTTAGGATTT-AAGA
**
22266 TTTAAAATTTAAGA
1 TTTAGGATTTAAGA
* *
22280 TTTGGGGTTTAAGA
1 TTTAGGATTTAAGA
22294 T
1 T
22295 AGGGGTTTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
13 14 0.21
14 48 0.73
15 4 0.06
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (14 bp):
TTTAGGATTTAAGA
Found at i:22269 original size:28 final size:28
Alignment explanation
Indices: 22204--22290 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
22194 CAGTTTAGGA
* *
22204 TATAAGTTTAAGGTTTAAGATTTAGGATT
1 TATAA-TTTAAGATTTAAGATTTGGGATT
* *
22233 TATAGTTTAAGATTTAAAATTTGGGATT
1 TATAATTTAAGATTTAAGATTTGGGATT
* *
22261 TGA-AATTTAAAATTTAAGATTTGGGGTT
1 T-ATAATTTAAGATTTAAGATTTGGGATT
22289 TA
1 TA
22291 AGATAGGGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 43 0.88
29 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.45
Consensus pattern (28 bp):
TATAATTTAAGATTTAAGATTTGGGATT
Found at i:22281 original size:21 final size:21
Alignment explanation
Indices: 22244--22283 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22234 ATAGTTTAAG
**
22244 ATTTAAAATTTGGGATTTGAA
1 ATTTAAAATTTAAGATTTGAA
22265 ATTTAAAATTTAAGATTTG
1 ATTTAAAATTTAAGATTTG
22284 GGGTTTAAGA
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:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTTAAAATTTAAGATTTGAA
Found at i:22904 original size:14 final size:14
Alignment explanation
Indices: 22885--22914 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22875 TCACGTTTAG
*
22885 ATTTTTTTTAAAAA
1 ATTTTTTTAAAAAA
22899 ATTTTTTTAAAAAA
1 ATTTTTTTAAAAAA
22913 AT
1 AT
22915 CAAAGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTTTAAAAAA
Found at i:22905 original size:13 final size:13
Alignment explanation
Indices: 22887--22912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22877 ACGTTTAGAT
22887 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
22900 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
22913 ATCAAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTTTAAAAAA
Found at i:25536 original size:36 final size:34
Alignment explanation
Indices: 25495--25581 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 34
25485 TTATAAATTT
**
25495 AATATTAATATAATAT-TTTAGTATAATTTTAATAAA
1 AATATTAATATAATATATTTAAAAT-ATTTT--TAAA
* *
25531 AATATTAATTATTAACATATTTAAAATATTTTTAAT
1 AATATTAA-TA-TAATATATTTAAAATATTTTTAAA
25567 AATATTAATATAATA
1 AATATTAATATAATA
25582 ATAATATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
34 4 0.09
35 2 0.05
36 19 0.44
37 2 0.05
38 10 0.23
39 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
AATATTAATATAATATATTTAAAATATTTTTAAA
Found at i:25585 original size:17 final size:17
Alignment explanation
Indices: 25563--25601 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
25553 AAAATATTTT
*
25563 TAATAATATTAATATAA
1 TAATAATATTAATACAA
*
25580 TAATAATATTATTACAA
1 TAATAATATTAATACAA
25597 TAATA
1 TAATA
25602 TACTCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATATTAATACAA
Found at i:25802 original size:23 final size:21
Alignment explanation
Indices: 25775--25829 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
25765 TAGTCTAATA
25775 ATATTATAACAATTCCTTAAAAT
1 ATATTATAACAATT--TTAAAAT
*
25798 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAACAATTTTAAAAT
*
25821 ATAATATAA
1 ATATTATAA
25830 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTATAACAATTTTAAAAT
Found at i:25830 original size:21 final size:23
Alignment explanation
Indices: 25791--25837 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
25781 TAACAATTCC
*
25791 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
25814 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
25835 TTA
1 TTA
25838 TTTTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:27903 original size:20 final size:21
Alignment explanation
Indices: 27866--27914 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
27856 AAAGTCAACG
* *
27866 TGGTCAA-AATCAAAGTGT-T
1 TGGTCAACGATCAAAGTGTCC
*
27885 TGGTCAACGATCAACGTGTCC
1 TGGTCAACGATCAAAGTGTCC
27906 TGGTCAACG
1 TGGTCAACG
27915 GATTGACTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (21 bp):
TGGTCAACGATCAAAGTGTCC
Found at i:28615 original size:37 final size:37
Alignment explanation
Indices: 28521--28625 Score: 115
Period size: 37 Copynumber: 2.8 Consensus size: 37
28511 CCTTTTCGTC
28521 CTACT-AGAATTCAAACTCCTAAAAATAGGATAACATT
1 CTACTAAG-ATTCAAACTCCTAAAAATAGGATAACATT
* * * *
28558 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGA-GTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATA-ACATT
* * *
28595 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
28626 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 54 0.96
38 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAACATT
Found at i:29034 original size:2 final size:2
Alignment explanation
Indices: 29029--29108 Score: 135
Period size: 2 Copynumber: 40.5 Consensus size: 2
29019 TTAGTGTTAT
29029 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
* *
29071 TA TA TA TA TA -A TA TA TA TA TA TA TT TA 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
29109 TTCCTATTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:29226 original size:21 final size:21
Alignment explanation
Indices: 29196--29243 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29186 CTTTTACTTT
*
29196 TTTATATATTTTACTTATT-TA
1 TTTATCTATTTT-CTTATTATA
*
29217 TTTATCTATTTTCTTTTTATA
1 TTTATCTATTTTCTTATTATA
29238 TTTATC
1 TTTATC
29244 CTATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATCTATTTTCTTATTATA
Found at i:32480 original size:22 final size:21
Alignment explanation
Indices: 32462--32517 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
32452 GATAAAAGAA
32462 AAGAAGCAAAAAAGGAAAAAAC
1 AAGAA-CAAAAAAGGAAAAAAC
*
32484 AAGAACAAAAAA-GAAAGAAC
1 AAGAACAAAAAAGGAAAAAAC
* *
32504 AAAAATAAAAAAGG
1 AAGAACAAAAAAGG
32518 GACAAAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.57
21 8 0.27
22 5 0.17
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (21 bp):
AAGAACAAAAAAGGAAAAAAC
Found at i:32499 original size:20 final size:20
Alignment explanation
Indices: 32447--32516 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
32437 CAAAAAGGGC
*
32447 AAAAAGATAAAAGAAAAGAAGCA
1 AAAAAGA-AAAA-ACAAGAA-CA
32470 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
32491 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
32511 AAAAAG
1 AAAAAG
32517 GGACAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 9 0.21
24 2 0.05
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:33144 original size:22 final size:22
Alignment explanation
Indices: 33116--33166 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
33106 CCCCATCAAT
33116 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
33138 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
33160 CCTTTGA
1 CCTTTGA
33167 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:33605 original size:18 final size:18
Alignment explanation
Indices: 33582--33617 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33572 TCAACATCAA
* *
33582 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
33600 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
33618 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:34063 original size:71 final size:71
Alignment explanation
Indices: 33980--34267 Score: 227
Period size: 65 Copynumber: 4.1 Consensus size: 71
33970 GTTTTTCTTA
* * * * *
33980 AAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAGT
1 AAACAA-ATTTGTCTCGCTTGAGACAG-TTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
34043 TTCCCTTG
64 TTCCCTTG
* * *
34051 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTT
1 AAACAAA-TTTGTCTCGCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGTT
34116 TCCCTTG
65 TCCCTTG
* * * * * * **
34123 AAACAAA---ATAT---TTGA-ATATGTTTTC-TTTGAAACAAATTCCGTCTCCCTTGAGACAGT
1 AAACAAATTTGTCTCGCTTGAGACA-G-TTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
**
34180 TTCTTTTG
64 TTCCCTTG
* * * * * *
34188 GAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAGT
1 AAAC-AA-ATTTGTCTCGCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
34253 TTCCCTTG
64 TTCCCTTG
34261 AAACAAA
1 AAACAAA
34268 ACCTTTGAAT
Statistics
Matches: 171, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
64 2 0.01
65 42 0.25
66 6 0.04
68 2 0.01
70 10 0.06
71 25 0.15
72 41 0.24
73 41 0.24
74 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (71 bp):
AAACAAATTTGTCTCGCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGTTT
CCCTTG
Found at i:34065 original size:36 final size:36
Alignment explanation
Indices: 34022--34267 Score: 249
Period size: 36 Copynumber: 7.0 Consensus size: 36
34012 ACTAGAAGAG
34022 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
34058 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
34094 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
34130 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** * *
34159 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
34196 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
34231 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
34268 ACCTTTGAAT
Statistics
Matches: 174, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.01
29 19 0.11
30 3 0.02
35 6 0.03
36 110 0.63
37 34 0.20
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:34173 original size:101 final size:102
Alignment explanation
Indices: 34048--34230 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 102
34038 ACAGTTTCCC
** *
34048 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACTAAATTTCGTCTATCTTGAGAC
34112 AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
66 AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* * * * *
34149 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACTAAATTTCGTCTATCTTGAGAC
*
34214 AGTTTCTCTTGAAACAA
66 AGTTTCCCTTGAAACAA
34231 TTTTCGTCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 38 0.53
102 34 0.47
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (102 bp):
TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACTAAATTTCGTCTATCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:34209 original size:138 final size:137
Alignment explanation
Indices: 34026--34330 Score: 439
Period size: 138 Copynumber: 2.2 Consensus size: 137
34016 GAAGAGTTTT
*
34026 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
* * * ** *
34091 AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCTTTGAAAC
66 AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATATATTTCCCCTAAAAC
34156 AAATTCC
131 AAATTCC
** * *
34163 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
1 GTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
* * *
34228 CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAATTTATTTCCCCTAAAA
65 CAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATATATTTCCCCTAAAA
**
34293 CAAATTTT
130 CAAATTCC
* *
34301 GTCTCCCTTGAGACAGTTACTCTTGAAACA
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACA
34331 CAAAATCTTC
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 26 0.18
138 122 0.82
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (137 bp):
GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATATATTTCCCCTAAAAC
AAATTCC
Found at i:34360 original size:67 final size:67
Alignment explanation
Indices: 34216--34397 Score: 201
Period size: 67 Copynumber: 2.7 Consensus size: 67
34206 CTTGAGACAG
* * ** * **
34216 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAAT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAAT
34278 TTA
65 TTA
* * *
34281 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATT
34346 TA
66 TA
* * *
34348 TTTCCCTTAAAACATAATTTTAT-TCCCTTGAGACCGTTTCTCATGAAACA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
34398 ACAGATATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
65 31 0.32
66 8 0.08
67 52 0.53
68 7 0.07
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (67 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATT
TA
Found at i:35363 original size:105 final size:105
Alignment explanation
Indices: 35002--35974 Score: 1385
Period size: 105 Copynumber: 9.3 Consensus size: 105
34992 GCCATCCGCG
* * * * * *
35002 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * * *
35067 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAATCTCAGAGCCA
35111 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
35176 ACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAA-CTTCCCAATCTCAGAGCCA
* *
35218 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
35283 ACCACTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* * *
35323 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
35388 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
35428 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
35493 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* * *
35528 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACAAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
35593 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
35633 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
35698 ACCGCTGTTTGTCAACAATAACTTCCCAATC-CTAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTC-AGAGCCA
*
35738 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
35803 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* * * *
35838 ATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * **
35903 ACGGCTGGTTGTCAACAAACAATTTCCCGGT-TCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATCT-CAGAGCCA
* *
35944 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
35975 TGGAACAATG
Statistics
Matches: 794, Mismatches: 55, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
100 168 0.21
101 9 0.01
102 6 0.01
103 7 0.01
104 8 0.01
105 385 0.48
106 92 0.12
107 97 0.12
109 22 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:35607 original size:205 final size:209
Alignment explanation
Indices: 35002--35974 Score: 1424
Period size: 205 Copynumber: 4.6 Consensus size: 209
34992 GCCATCCGCG
* * * * * *
35002 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
35067 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGACCGCTGGTTGTCAAC-AACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
35132 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
126 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
* *
35197 ATTTTCCCAATTTCAGAGCCA
190 ACTTT-CCAATCTCAGAGCCA
* *
35218 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
35283 ACCACTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAATGAAGGATAT
66 ACCGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* *
35348 TGGACTCCAGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGCTTGTCAACAACAACTTT
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
35413 CCAATCTCAGAGCCA
195 CCAATCTCAGAGCCA
35428 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
35493 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
66 ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* *
35554 GGACTCCAGACAATGCAAGTTCAACTTCACGACAAAGGGACCGCTGCTTGTCAACAACAACTTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
35619 CAATCTCAGAGCCA
196 CAATCTCAGAGCCA
35633 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * *
35698 ACCGCTGTTTGTCAACAATAACTTCCCAATCCTAGAGCCAATTTCAACTTCACAACGAAAGATAT
66 ACCGCTGGTTGTCAACAACAACTTCTCAATTC-AGAGCCAATTTCAACTTCACAACGAAGGATAT
35763 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TTT
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
**
35826 -C-AT-TCAGATTCA
195 CCAATCTCAGAGCCA
* * * *
35838 ATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** * *
35903 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATA
66 ACCGCTGGTTGTCAAC-AACAACTTCTCAATT-CAGAGCCAATTTCAACTTCACAACGAAGGATA
35968 TTGGACT
129 TTGGACT
35975 TGGAACAATG
Statistics
Matches: 699, Mismatches: 50, Indels: 26
0.90 0.06 0.03
Matches are distributed among these distances:
205 274 0.39
206 51 0.07
207 5 0.01
208 6 0.01
209 7 0.01
210 179 0.26
211 9 0.01
212 97 0.14
213 47 0.07
214 3 0.00
216 21 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (209 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
CAATCTCAGAGCCA
Found at i:35656 original size:310 final size:310
Alignment explanation
Indices: 35002--35974 Score: 1459
Period size: 310 Copynumber: 3.1 Consensus size: 310
34992 GCCATCCGCG
* * * * * *
35002 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
35067 GGGACGGCTGGTTGTCAACAAACAAC-TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
63 GGGACCGCTGCTTGTCAAC-AACAACTTTC-CAATCTCAGAGCCAATTTCAACTTCACAACGAAG
* *
35131 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC
126 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAA-
35196 AATTTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
189 AA-TTT--C-A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
* *
35261 AGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
249 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTTCCAATCTCAGAGCCA
* * *
35323 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
35388 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
35453 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCA
131 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCA
35518 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCA
196 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCA
* *
35583 CGACAAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
261 CGACGAAGGGACCGCTGGTTGTCAACAACAACTTTCCAATCTCAGAGCCA
35633 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
35698 ACCGCTGTTTGTCAACAATAACTTCCCAATC-CTAGAGCCAATTTCAACTTCACAACGAAAGATA
66 ACCGCTGCTTGTCAACAACAACTTTCCAATCTC-AGAGCCAATTTCAACTTCACAACGAAGGATA
35762 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTC
130 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTC
** * * * **
35827 ATTCAGATTCAATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAGTTCAACTTC
195 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
* * **
35892 ACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCCCGGT-TCCAGAGCCA
260 ACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTT-CCAATCT-CAGAGCCA
* *
35944 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
35975 TGGAACAATG
Statistics
Matches: 607, Mismatches: 40, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
309 1 0.00
310 381 0.63
311 46 0.08
312 1 0.00
314 3 0.00
315 2 0.00
316 2 0.00
317 98 0.16
318 49 0.08
319 3 0.00
321 21 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (310 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCA
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAACAACTTTCCAATCTCAGAGCCA
Found at i:36612 original size:37 final size:37
Alignment explanation
Indices: 36518--36614 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
36508 CCTTTTCGTC
36518 CTACT-AGAATTCAAACTCCTAAAAATAGGATAACATT
1 CTACTAAG-ATTCAAACTCCTAAAAATAGGATAACATT
* * * *
36555 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGA-GTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATA-ACATT
* *
36592 CTACTAAGATTTAAATTCCTAAA
1 CTACTAAGATTCAAACTCCTAAA
36615 GATATGATCC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 47 0.96
38 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAACATT
Found at i:37031 original size:2 final size:2
Alignment explanation
Indices: 37026--37068 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
37016 TTAGTGTTAT
*
37026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT 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
37068 T
1 T
37069 TTCCTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:38247 original size:21 final size:21
Alignment explanation
Indices: 38214--38266 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
38204 ATTCTGACTA
38214 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
38235 TCGCGTTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
38256 TCACAATGCGA
1 TCGCATTGCGA
38267 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:38284 original size:20 final size:20
Alignment explanation
Indices: 38256--38311 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
38246 TTTTCCAAAT
38256 TCACAATGCGAATATGTAAA
1 TCACAATGCGAATATGTAAA
*
38276 TCGCAATGCGAATATGTAAA
1 TCACAATGCGAATATGTAAA
*
38296 TCACAATGCGATTATG
1 TCACAATGCGAATATG
38312 ACTATCGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (20 bp):
TCACAATGCGAATATGTAAA
Found at i:38322 original size:20 final size:20
Alignment explanation
Indices: 38303--38402 Score: 137
Period size: 20 Copynumber: 5.0 Consensus size: 20
38293 AAATCACAAT
* *
38303 GCGATTATGACTATCGCAAT
1 GCGATTCTGACTATCGCAAC
*
38323 GTGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
*
38343 GCGATTCTGATTATCGCAAC
1 GCGATTCTGACTATCGCAAC
*
38363 GAGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
* *
38383 GCGATTCTAACTGTCGCAAC
1 GCGATTCTGACTATCGCAAC
38403 ACTGAATTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCGATTCTGACTATCGCAAC
Found at i:41527 original size:6 final size:6
Alignment explanation
Indices: 41516--41549 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
41506 AGAAAAAGGC
**
41516 AATCAA AATCAA AATCGC AATCAA AATCAA AATC
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATC
41550 CCAATCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:41535 original size:18 final size:18
Alignment explanation
Indices: 41514--41556 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
41504 CAAGAAAAAG
41514 GCAATCAAAATCAAAATC
1 GCAATCAAAATCAAAATC
41532 GCAATCAAAATCAAAATC
1 GCAATCAAAATCAAAATC
*
41550 CCAATCA
1 GCAATCA
41557 CAACCGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (18 bp):
GCAATCAAAATCAAAATC
Found at i:41752 original size:20 final size:20
Alignment explanation
Indices: 41727--41955 Score: 172
Period size: 20 Copynumber: 12.4 Consensus size: 20
41717 TTACACATTC
*
41727 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
41747 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
41767 ATTTGATTATCACAACTC-A
1 ATTTGACTATCGCAACGCGA
*
41786 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
41801 ATTTAACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
41821 ATTTGACTATCGCAA--CGA
1 ATTTGACTATCGCAACGCGA
** *
41839 A----AAAATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
41855 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
41875 ATTTGACTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
41895 ATTCGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
41915 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
41929 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
41949 A-TTGACT
1 ATTTGACT
41956 TTTGCGTTGC
Statistics
Matches: 164, Mismatches: 27, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
14 25 0.15
15 3 0.02
16 5 0.03
18 5 0.03
19 8 0.05
20 118 0.72
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:41817 original size:54 final size:54
Alignment explanation
Indices: 41735--41891 Score: 251
Period size: 54 Copynumber: 2.9 Consensus size: 54
41725 TCATTTGAAT
* * **
41735 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCACAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAAAAA
*
41789 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAAAAA
* *
41843 ATTGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
41892 GGTATTCGAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAAAAA
Found at i:41855 original size:34 final size:34
Alignment explanation
Indices: 41809--41945 Score: 139
Period size: 34 Copynumber: 3.9 Consensus size: 34
41799 GAATTTAACT
41809 ATCGCAACGCGAATTTGACTATCGCAACGAAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAAAAA
* *
41843 ATTGCAACGCGAATTTGACTATCGCAACGAGAATTTGACT
1 ATCGCAACGCGAATTTGACTATCGCAACGA-AA----A-A
* * * *
41883 ATCGCAACGGGTATTCGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAAAAA
* * *
41917 ATCGCAAAGCGTATTAGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
41946 CGAATTGACT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
34 55 0.64
35 3 0.03
39 2 0.02
40 26 0.30
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAAAAA
Found at i:41867 original size:74 final size:74
Alignment explanation
Indices: 41789--41951 Score: 236
Period size: 74 Copynumber: 2.2 Consensus size: 74
41779 CAACTCAAAA
* * *
41789 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAAAAAATTGCAACGCG
1 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTCGACTATCGCAACGAAAAAATCGCAAAGCG
*
41854 AATTTGACT
66 AATTAGACT
* * * * *
41863 ATCGCAACGAGAATTTGACTATCGCAACGGGTATTCGACTATCGCAACGAGAAAATCGCAAAGCG
1 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTCGACTATCGCAACGAAAAAATCGCAAAGCG
*
41928 TATTAGACT
66 AATTAGACT
41937 ATCGCAACGCGAATT
1 ATCGCAACGCGAATT
41952 GACTTTTGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (74 bp):
ATCGCAACGCGAATTTAACTATCGCAACGCGAATTCGACTATCGCAACGAAAAAATCGCAAAGCG
AATTAGACT
Found at i:43660 original size:42 final size:42
Alignment explanation
Indices: 43553--43664 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
43543 TCTAGAATGT
* * *
43553 TGGGAG-GGACCTCTTCAACGATGAAAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTCAACGATGATAGGGGCCTCTTGAACGA
* * * ** *
43595 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTTTTGAACGA
1 TGGGAGAGGCCTCTTCAACGATGATAGGGGCCTCTTGAACGA
43637 TAGGG-GAGGCCTCTTCAACGATGATAGG
1 T-GGGAGAGGCCTCTTCAACGATGATAGG
43665 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTCAACGATGATAGGGGCCTCTTGAACGA
Found at i:44172 original size:18 final size:18
Alignment explanation
Indices: 44149--44215 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 18
44139 GAAACTTAAA
*
44149 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
44167 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
* *
44187 ATCGTAACGCGAATTTGAAT
1 ATCGCAACGCGAA--TGACT
44207 ATCGCAACG
1 ATCGCAACG
44216 AGAGAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 12 0.29
20 29 0.71
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:44185 original size:20 final size:20
Alignment explanation
Indices: 44160--44215 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
44150 TCGCAACACG
44160 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
*
44180 AATGACTATCGTAACGCGAA
1 AATGACTATCGCAACGCGAA
** *
44200 TTTGAATATCGCAACG
1 AATGACTATCGCAACG
44216 AGAGAATCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:44283 original size:20 final size:20
Alignment explanation
Indices: 44258--44325 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
44248 GCGATTCTTT
**
44258 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
44278 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCG
44298 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
44318 CATTGCGA
1 CGTTGCGA
44326 AAATAAACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:46288 original size:19 final size:20
Alignment explanation
Indices: 46229--46315 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
46219 TCTGAAACTT
46229 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
46249 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
46269 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* * *
46288 AAAATTGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
46307 AAAATCGCA
1 AAAATCGCA
46316 TTGCGATTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.41
20 34 0.59
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:46728 original size:22 final size:22
Alignment explanation
Indices: 46697--46753 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
46687 GATGGAGATA
46697 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
46719 GACTGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
46741 GACGGATGTCGCC
1 GACGGATTTCGCC
46754 TTAGAGAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.18, C:0.19, G:0.42, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:46934 original size:20 final size:20
Alignment explanation
Indices: 46909--46995 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
46899 GAAAATCGCA
*
46909 TTGCGATAGTCAGCATCACG
1 TTGCGATAGTCAGAATCACG
*
46929 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCACG
*
46949 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCACG
* * *
46969 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCACG
46989 TTGCGAT
1 TTGCGAT
46996 TTACATATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCACG
Found at i:46971 original size:40 final size:40
Alignment explanation
Indices: 46902--46995 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
46892 GCGCTTTGAA
*
46902 AATCGCATTGCGATAGTCAGCATCACGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAGAATCACGTTGCGATAGTCAG
* * * *
46942 AATCTCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAGAATCACGTTGCGATAGTCAG
46982 AATCGCATTGCGAT
1 AATCGCATTGCGAT
46996 TTACATATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
AATCGCATTGCGATAGTCAGAATCACGTTGCGATAGTCAG
Found at i:47002 original size:20 final size:20
Alignment explanation
Indices: 46979--47054 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
46969 TTGCGATAGT
*
46979 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
46999 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
47019 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
47039 CATATTCGCATTGCGA
1 CATATTCGCATTGCGA
47055 ATTCGGAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:47013 original size:40 final size:40
Alignment explanation
Indices: 46929--47054 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 40
46919 CAGCATCACG
* * * * * * *
46929 TTGCGATAGTCAGAATCTCGTTGCGATAGT-CAGAATCGCG
1 TTGCGATAGTCATAATCGCATTGCGAT-TTACATATTCGCA
46969 TTGCGATAGTCATAATCGCATTGCGATTTACATATTCGCA
1 TTGCGATAGTCATAATCGCATTGCGATTTACATATTCGCA
* *
47009 TTGCGAT-TTACATATTCGCATTGCGATTTACATATTCGCA
1 TTGCGATAGT-CATAATCGCATTGCGATTTACATATTCGCA
47049 TTGCGA
1 TTGCGA
47055 ATTCGGAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.03
40 73 0.97
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (40 bp):
TTGCGATAGTCATAATCGCATTGCGATTTACATATTCGCA
Found at i:47075 original size:21 final size:22
Alignment explanation
Indices: 47051--47097 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
47041 TATTCGCATT
*
47051 GCGAATTCG-GAAAATCGCAAC
1 GCGAATTCGAAAAAATCGCAAC
* *
47072 GCGAATTTGAAAAAATCGCAAT
1 GCGAATTCGAAAAAATCGCAAC
47094 GCGA
1 GCGA
47098 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (22 bp):
GCGAATTCGAAAAAATCGCAAC
Found at i:50042 original size:25 final size:25
Alignment explanation
Indices: 49982--50042 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
49972 ATGTTTTATG
*
49982 TATTATGTATTTATTTTATGTATAT
1 TATTATGTATTTATTTTACGTATAT
*
50007 TATCATGTATTTATTTTACGTATAT
1 TATTATGTATTTATTTTACGTATAT
*
50032 TATTATATATT
1 TATTATGTATT
50043 ACATTGTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (25 bp):
TATTATGTATTTATTTTACGTATAT
Found at i:52988 original size:2 final size:2
Alignment explanation
Indices: 52981--53040 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
52971 TACCCTTTCA
52981 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
53023 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
53041 CCCTTGTTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53305 original size:9 final size:9
Alignment explanation
Indices: 53301--53385 Score: 57
Period size: 10 Copynumber: 8.9 Consensus size: 9
53291 TGAAAAATGA
53301 AAAAAAAAT
1 AAAAAAAAT
*
53310 GAAAAAAATT
1 -AAAAAAAAT
53320 AAAAAAAATT
1 AAAAAAAA-T
53330 AAAAAAAA-
1 AAAAAAAAT
53338 AATAAAAAAT
1 AA-AAAAAAT
53348 AAGAAAGAAA-
1 AA-AAA-AAAT
*
53358 AAAAGAAAAG
1 AAAA-AAAAT
* *
53368 AAAAGAAAG
1 AAAAAAAAT
53377 AAAAGAAAA
1 AAAA-AAAA
53386 GGAAGAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.03
9 26 0.41
10 32 0.51
11 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:53317 original size:14 final size:13
Alignment explanation
Indices: 53300--53411 Score: 80
Period size: 14 Copynumber: 8.1 Consensus size: 13
53290 ATGAAAAATG
*
53300 AAAAAAAAATGAA
1 AAAAAAAAAAGAA
*
53313 AAAAATTAAAAAAAA
1 AAAAA--AAAAAGAA
*
53328 TTAAAAAAAAAATAA
1 --AAAAAAAAAAGAA
*
53343 AAAATAAGAAAGAA
1 AAAA-AAAAAAGAA
*
53357 AAAAAGAAAAGAA
1 AAAAAAAAAAGAA
*
53370 AAGAAAGAAAAGAA
1 AA-AAAAAAAAGAA
* *
53384 AAGGAAGAAAAGAA
1 AA-AAAAAAAAGAA
*
53398 AAAAAAGAAAGAA
1 AAAAAAAAAAGAA
53411 A
1 A
53412 GAAGGTATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
13 27 0.33
14 37 0.45
15 13 0.16
17 5 0.06
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:53344 original size:10 final size:10
Alignment explanation
Indices: 53293--53360 Score: 64
Period size: 10 Copynumber: 6.5 Consensus size: 10
53283 ACACAAAATG
53293 AAAAATGAAAA
1 AAAAAT-AAAA
*
53304 AAAAATGAAA
1 AAAAATAAAA
*
53314 AAAATTAAAA
1 AAAAATAAAA
*
53324 AAAATTAAAAA
1 AAAAAT-AAAA
53335 AAAAATAAAA
1 AAAAATAAAA
* *
53345 AATAAGAAAGA
1 AAAAATAAA-A
53356 AAAAA
1 AAAAA
53361 AGAAAAGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
10 28 0.58
11 20 0.42
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:53344 original size:19 final size:19
Alignment explanation
Indices: 53293--53403 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 19
53283 ACACAAAATG
53293 AAAAATGAAAAAAAAATGAA
1 AAAAAT-AAAAAAAAATGAA
* *
53313 AAAAATTAAAAAAAATTAA
1 AAAAATAAAAAAAAATGAA
53332 AAAAA-AAATAAAAAAT-AA
1 AAAAATAAA-AAAAAATGAA
53350 GAAAGAA-AAAAAGAAAA-GAA
1 -AAA-AATAAAAA-AAAATGAA
* * *
53370 AAGAAAGAAAAGAAAAGGAA
1 AA-AAATAAAAAAAAATGAA
* *
53390 GAAAAGAAAAAAAA
1 AAAAATAAAAAAAA
53404 GAAAGAAAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.05
19 47 0.61
20 26 0.34
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAAATAAAAAAAAATGAA
Found at i:53358 original size:22 final size:21
Alignment explanation
Indices: 53293--53380 Score: 90
Period size: 22 Copynumber: 4.1 Consensus size: 21
53283 ACACAAAATG
* *
53293 AAAAATGAAAAAAA-AATGAA
1 AAAAATAAAAAAAAGAAAGAA
*
53313 AAAAATTAAAAAAAATTAAA-AA
1 AAAAA-TAAAAAAAA-GAAAGAA
53335 AAAAATAAAAAATAAGAAAGAA
1 AAAAATAAAAAA-AAGAAAGAA
*
53357 AAAAAGAAAAGAAAAGAAAGAA
1 AAAAATAAAA-AAAAGAAAGAA
53379 AA
1 AA
53381 GAAAAGGAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
20 5 0.09
21 18 0.31
22 31 0.53
23 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAATAAAAAAAAGAAAGAA
Found at i:53368 original size:5 final size:5
Alignment explanation
Indices: 53358--53411 Score: 71
Period size: 5 Copynumber: 11.6 Consensus size: 5
53348 AAGAAAGAAA
*
53358 AAAAG AAAAG AAAAG -AAAG AAAAG AAAAG -GAAG AAAAG AAAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
53405 -AAAG AAA
1 AAAAG AAA
53412 GAAGGTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 15 0.35
5 28 0.65
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:53391 original size:9 final size:9
Alignment explanation
Indices: 53348--53411 Score: 78
Period size: 9 Copynumber: 7.1 Consensus size: 9
53338 AATAAAAAAT
53348 AAGAAAGAA
1 AAGAAAGAA
53357 AA-AAAGAA
1 AAGAAAGAA
53365 AAGAAA-AGA
1 AAGAAAGA-A
53374 AAGAAAAGAA
1 AAG-AAAGAA
*
53384 AAGGAAGAA
1 AAGAAAGAA
*
53393 AAGAAAAAA
1 AAGAAAGAA
53402 AAGAAAGAA
1 AAGAAAGAA
53411 A
1 A
53412 GAAGGTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
8 9 0.19
9 30 0.64
10 7 0.15
11 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:53408 original size:4 final size:4
Alignment explanation
Indices: 53348--53414 Score: 53
Period size: 4 Copynumber: 15.2 Consensus size: 4
53338 AATAAAAAAT
* *
53348 AAGA AAGA AAAA AAGAA AAGAA AAGA AAGAA AAGAA AAGG AAGAA AAGAA
1 AAGA AAGA AAGA AAG-A AAG-A AAGA AAG-A AAG-A AAGA AAG-A AAG-A
*
53398 AAAA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA A
53415 GGTATAAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
4 29 0.54
5 25 0.46
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:61551 original size:112 final size:112
Alignment explanation
Indices: 60964--61539 Score: 954
Period size: 112 Copynumber: 5.1 Consensus size: 112
60954 TTGTCGGTTT
* * *
60964 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
61029 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
61076 GTGTCGATACTTTATAAAAATATATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
61141 GGTCTATAAATGAAAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
61188 GTGTCGATACTCTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
61253 GGTCTATAAATGATAAAACAGGTAAAGCGCTACAGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * * *
61300 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGTTAAAAAAATGATAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
61365 GGTCTATAAATGACAAAACAGGTAAAGCGTTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
61412 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* * * *
61477 CGGTTTATAAATGACAAAACAGGTAAAGCGCTACCTGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
61525 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
61540 TATAAGTATC
Statistics
Matches: 436, Mismatches: 27, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
112 362 0.83
113 74 0.17
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:62064 original size:20 final size:20
Alignment explanation
Indices: 62036--62074 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62026 AAATCGATAA
*
62036 TTATTATGTAACAGGTAAAT
1 TTATAATGTAACAGGTAAAT
*
62056 TTATAATGTAACCGGTAAA
1 TTATAATGTAACAGGTAAA
62075 AATATACTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (20 bp):
TTATAATGTAACAGGTAAAT
Found at i:62080 original size:20 final size:20
Alignment explanation
Indices: 62041--62080 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62031 GATAATTATT
**
62041 ATGTAACAGGTAAATTTATA
1 ATGTAACAGGTAAAAATATA
*
62061 ATGTAACCGGTAAAAATATA
1 ATGTAACAGGTAAAAATATA
62081 CTGGTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTAACAGGTAAAAATATA
Found at i:62590 original size:42 final size:42
Alignment explanation
Indices: 62433--62837 Score: 454
Period size: 42 Copynumber: 9.8 Consensus size: 42
62423 CAAAATACTA
* * *
62433 TACTTTAGTGGCGTTTGT-ATA-AAAACGCCGCTAAAGA-ATCG
1 TACTTTTGTGGCGTTT-TAATACCAAACGCCGCTATAGACA-CG
* * * * *
62474 TAATGTAGTGGCGTTTTTATA-CAAACGCCGCTATAAACTA-G
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAC-ACG
* *
62515 TA-TTTTAGTGGCGTTTTTATA-CAAACGCTGCTATAGACACG
1 TACTTTT-GTGGCGTTTTAATACCAAACGCCGCTATAGACACG
* * *
62556 TACTTTTGTGGCGTTTTAATACCAAACGACGCTATAGACTCA
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
* *
62598 TACTTTAGTGGCATTTT--TACACAAACGCCGCTATAGACACG
1 TACTTTTGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACG
** *
62639 TACTTTTGTGGTATTTTAATACTAAACGCCGCTATAGACACG
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
**
62681 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCG
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
*
62723 TACTTTAGTGGCGTTTT--TACACAAACGCCGCTATAGACACG
1 TACTTTTGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACG
* * *
62764 TACTTTTGTGGCGTTTTAATAACAAACACCGCTATAGACTCG
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
*
62806 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGC
62838 AATTGTCATA
Statistics
Matches: 314, Mismatches: 37, Indels: 25
0.84 0.10 0.07
Matches are distributed among these distances:
40 10 0.03
41 144 0.46
42 154 0.49
43 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (42 bp):
TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
Found at i:62615 original size:83 final size:83
Alignment explanation
Indices: 62432--62837 Score: 473
Period size: 83 Copynumber: 4.9 Consensus size: 83
62422 GCAAAATACT
* * * * * *
62432 ATACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCGTTTTTATA-
1 ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTAATAC
62495 CAAACGCCGCTATA-A-AC
65 CAAACGCCGCTATAGACAC
* * *
62512 TAGTATTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACACGTACTTTTGTGGCGTTTTAATA
1 -A-TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATA
* *
62577 CCAAACGACGCTATAGACTC
64 CCAAACGCCGCTATAGACAC
* * * ** *
62597 ATACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTTTTGTGGTATTTTAATACT
1 ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACC
62662 AAACGCCGCTATAGACAC
66 AAACGCCGCTATAGACAC
* * * **
62680 GTACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTT--TAC
1 ATACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC
62743 ACAAACGCCGCTATAGACAC
65 -CAAACGCCGCTATAGACAC
* * * * *
62763 GTACTTTTGTGGCGTTTTAATAACAAACACCGCTATAGACTCGTACTTTAGTGGCGTTTTAATAC
1 ATACTTTAGTGGCGTTTTTAT-ACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC
62828 CAAACGCCGC
65 CAAACGCCGC
62838 AATTGTCATA
Statistics
Matches: 282, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
81 1 0.00
82 54 0.19
83 178 0.63
84 45 0.16
85 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (83 bp):
ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACC
AAACGCCGCTATAGACAC
Found at i:62834 original size:125 final size:124
Alignment explanation
Indices: 62433--62837 Score: 566
Period size: 125 Copynumber: 3.3 Consensus size: 124
62423 CAAAATACTA
* * * * *
62433 TACTTTAGTGGCGTTTGT-ATA-AAAACGCCGCTAAAGAATCGTAATGTAGTGGCGTTTTTATAC
1 TACTTTAGTGGCGTTT-TAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACAC
* * *
62496 AAACGCCGCTATAAACTA-GTA-TTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACACG
65 AAACGCCGCTATAGAC-ACGTACTTTT-GTGGCGTTTTAATACAAACGCCGCTATAGACACG
* * * * *
62556 TACTTTTGTGGCGTTTTAATACCAAACGACGCTATAGACTCATACTTTAGTGGCATTTTTACACA
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
**
62621 AACGCCGCTATAGACACGTACTTTTGTGGTATTTTAATACTAAACGCCGCTATAGACACG
66 AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATAC-AAACGCCGCTATAGACACG
* *
62681 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTTTACACA
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
* *
62746 AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATAACAAACACCGCTATAGACTCG
66 AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAAT-ACAAACGCCGCTATAGACACG
62806 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
62838 AATTGTCATA
Statistics
Matches: 252, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
122 1 0.00
123 19 0.08
124 63 0.25
125 167 0.66
126 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (124 bp):
TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACAAACGCCGCTATAGACACG
Found at i:67636 original size:42 final size:43
Alignment explanation
Indices: 67475--67661 Score: 276
Period size: 43 Copynumber: 4.4 Consensus size: 43
67465 TTTGTGGGGG
*
67475 AAAACGCCGCTAAATATCAAGACCTATTGCGGCGTTTG-TGGA
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
67517 CAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
1 -AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
*
67561 AAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTTGGA
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
* *
67604 AAAA-GCCACCAAATATCAACACCTATTGCGGCGTTTG-T--A
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
*
67643 ACAAACGCCGCTATATATC
1 A-AAACGCCGCTAAATATC
67662 GTTACCTATT
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.02
40 3 0.02
41 11 0.08
42 30 0.23
43 83 0.62
44 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
Found at i:68698 original size:2 final size:2
Alignment explanation
Indices: 68691--68726 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
68681 TAAAAAGAGC
68691 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
68727 GAAAGAAAAA
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:71521 original size:2 final size:2
Alignment explanation
Indices: 71514--71544 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71504 TAAATATTTA
71514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71545 ATTATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75576 original size:29 final size:29
Alignment explanation
Indices: 75527--75589 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
75517 TTGGCCTTTG
*
75527 AAATAGAAGAGAATAAGGAAAATG-AAGA
1 AAATAGAAGAGAAGAAGGAAAATGAAAGA
75555 AAATGAGAAGAAGAAGAA-GAAAATGAAAGA
1 AAAT-AGAAG-AGAAGAAGGAAAATGAAAGA
75585 AAATA
1 AAATA
75590 AAGGCTCATC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 4 0.13
29 13 0.42
30 14 0.45
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.10
Consensus pattern (29 bp):
AAATAGAAGAGAAGAAGGAAAATGAAAGA
Found at i:89800 original size:18 final size:20
Alignment explanation
Indices: 89767--89810 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
89757 ACTTGACCCG
*
89767 AAATAATATATTTATTGAA-
1 AAATATTATATTTATTGAAT
*
89786 AAATATTAT-TTTATTTAAT
1 AAATATTATATTTATTGAAT
89805 AAATAT
1 AAATAT
89811 AGGGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AAATATTATATTTATTGAAT
Done.