Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_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: 2428596
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:1006 original size:24 final size:24
Alignment explanation
Indices: 978--1026 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
968 AAGATTTTCG
978 TTAAAAATATGTGTCTAATATTTT
1 TTAAAAATATGTGTCTAATATTTT
1002 TTAAAAATATGTGTCTAATATTTT
1 TTAAAAATATGTGTCTAATATTTT
1026 T
1 T
1027 AGTATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
TTAAAAATATGTGTCTAATATTTT
Found at i:9547 original size:3 final size:3
Alignment explanation
Indices: 9531--9568 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
9521 ATTTATTTTT
9531 TTA TT- TTA TT- TTA TTA TTA TTAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
9569 ATTTTACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9548 original size:13 final size:15
Alignment explanation
Indices: 9520--9574 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
9510 GGGTCTTTTA
* *
9520 TATTTATTTTTTTAT
1 TATTAATTTTATTAT
9535 T-TT-ATTTTATTAT
1 TATTAATTTTATTAT
9548 TATTAATTATTATTAT
1 TATTAATT-TTATTAT
9564 TATTAATTTTA
1 TATTAATTTTA
9575 CATATTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 10 0.28
14 4 0.11
15 7 0.19
16 15 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTAATTTTATTAT
Found at i:9715 original size:25 final size:25
Alignment explanation
Indices: 9686--9760 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
9676 CCAACAACCC
9686 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
9711 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
* *
9736 AACAAATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
9761 TCCCCTACTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:12335 original size:16 final size:17
Alignment explanation
Indices: 12302--12341 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
12292 GTAGACCAAA
12302 ATTTTGTCTTATAAAATT
1 ATTTT-TCTTATAAAATT
12320 ATTTTTCTTA-AAAATT
1 ATTTTTCTTATAAAATT
*
12336 GTTTTT
1 ATTTTT
12342 AAAAGACGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (17 bp):
ATTTTTCTTATAAAATT
Found at i:24539 original size:141 final size:141
Alignment explanation
Indices: 24281--24540 Score: 389
Period size: 141 Copynumber: 1.8 Consensus size: 141
24271 AACATCAACT
24281 GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
* * ** *
24346 GGAACCGAGTTATCACCCTTCCTAACGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
24411 TACCCTTAGAC
131 TACCCTTAGAC
* * * *
24422 GACCAGA-CTTCCTTATCACGTAGGAGCTGTGTCAACCTTA-GATAATCAGCCGTCCTCATCACG
1 GACCAGATC-TCCTCATCACGTAGGAG-AGTGTCAACATTAGGATAACCAGCCGTCCTCATCACG
* *
24485 TAGGAACCGAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCGCGTATGA
64 TAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGA
24541 GCCGTATCAT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
140 1 0.01
141 94 0.89
142 11 0.10
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (141 bp):
GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
TACCCTTAGAC
Found at i:24810 original size:3 final size:3
Alignment explanation
Indices: 24794--24831 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
24784 ATTTATTTTT
24794 TTA TT- TTA TT- TTA TTA TTA TTAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
24832 ATTTTACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24811 original size:13 final size:15
Alignment explanation
Indices: 24783--24837 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
24773 GGGTCTTTTA
* *
24783 TATTTATTTTTTTAT
1 TATTAATTTTATTAT
24798 T-TT-ATTTTATTAT
1 TATTAATTTTATTAT
24811 TATTAATTATTATTAT
1 TATTAATT-TTATTAT
24827 TATTAATTTTA
1 TATTAATTTTA
24838 CATATTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 10 0.28
14 4 0.11
15 7 0.19
16 15 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTAATTTTATTAT
Found at i:24978 original size:25 final size:25
Alignment explanation
Indices: 24949--25023 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
24939 CCAACAACCC
24949 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
24974 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
* *
24999 AACAAATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
25024 TCCCCTACTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:27604 original size:16 final size:17
Alignment explanation
Indices: 27571--27610 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
27561 GTAGACCAAA
27571 ATTTTGTCTTATAAAATT
1 ATTTT-TCTTATAAAATT
27589 ATTTTTCTTA-AAAATT
1 ATTTTTCTTATAAAATT
*
27605 GTTTTT
1 ATTTTT
27611 AAAAGACGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (17 bp):
ATTTTTCTTATAAAATT
Found at i:37223 original size:11 final size:11
Alignment explanation
Indices: 37194--37260 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
37184 AAAAATTCAA
37194 AAGCTCGATTTTG
1 AAGCTCGA--TTG
37207 -AGCTCGATTG
1 AAGCTCGATTG
37217 AAGCTCGATTG
1 AAGCTCGATTG
*
37228 AAACTCGATTTTG
1 AAGCTCGA--TTG
*
37241 -AGCTCGATTA
1 AAGCTCGATTG
*
37251 AAACTCGATT
1 AAGCTCGATT
37261 TTGAGCTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 5 0.11
11 25 0.54
12 13 0.28
13 3 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (11 bp):
AAGCTCGATTG
Found at i:37244 original size:23 final size:23
Alignment explanation
Indices: 37218--37278 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
37208 GCTCGATTGA
*
37218 AGCTCGATTGAAACTCGATTTTG
1 AGCTCGATTAAAACTCGATTTTG
37241 AGCTCGATTAAAACTCGATTTTG
1 AGCTCGATTAAAACTCGATTTTG
**
37264 AGCTTAATTAAAACT
1 AGCTCGATTAAAACT
37279 TGACGGGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AGCTCGATTAAAACTCGATTTTG
Found at i:38331 original size:21 final size:20
Alignment explanation
Indices: 38274--38332 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
38264 TAATATTTTT
38274 TTAATTTTTTCATCTAAATATA
1 TTAATTTTTT-AT-TAAATATA
***
38296 TTAATGTTCACATTAAATATA
1 TTAAT-TTTTTATTAAATATA
38317 TTAATATTTTTATTAA
1 TTAAT-TTTTTATTAA
38333 TCTTCACATC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 20 0.69
22 7 0.24
23 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAATTTTTTATTAAATATA
Found at i:38926 original size:14 final size:14
Alignment explanation
Indices: 38901--38949 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
38891 TCACATAATC
38901 AGATTAAGGGTTTAG
1 AGATT-AGGGTTTAG
*
38916 AGCTTAGGGTTTAG
1 AGATTAGGGTTTAG
*
38930 AGATTAGGGATTAG
1 AGATTAGGGTTTAG
38944 AGATTA
1 AGATTA
38950 TAGCTTATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.33
Consensus pattern (14 bp):
AGATTAGGGTTTAG
Found at i:38929 original size:7 final size:7
Alignment explanation
Indices: 38907--38991 Score: 53
Period size: 7 Copynumber: 12.1 Consensus size: 7
38897 AATCAGATTA
38907 AGGGTTT
1 AGGGTTT
* *
38914 AGAGCTT
1 AGGGTTT
38921 AGGGTTT
1 AGGGTTT
* *
38928 AGAGATT
1 AGGGTTT
*
38935 AGGGATT
1 AGGGTTT
* *
38942 AGAGATT
1 AGGGTTT
** *
38949 ATAGCTT
1 AGGGTTT
*
38956 ATGGTTT
1 AGGGTTT
*
38963 AAGGTTT
1 AGGGTTT
38970 AGGGTTT
1 AGGGTTT
*
38977 AGGGATT
1 AGGGTTT
38984 AGGGTTT
1 AGGGTTT
38991 A
1 A
38992 AAATTTATGA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.26, C:0.02, G:0.34, T:0.38
Consensus pattern (7 bp):
AGGGTTT
Found at i:38943 original size:21 final size:21
Alignment explanation
Indices: 38919--38991 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
38909 GGTTTAGAGC
38919 TTAGGGTTTAGAGATTAGGGA
1 TTAGGGTTTAGAGATTAGGGA
* * * * * *
38940 TTAGAGATTATAGCTTATGGT
1 TTAGGGTTTAGAGATTAGGGA
* * *
38961 TTAAGGTTTAGGGTTTAGGGA
1 TTAGGGTTTAGAGATTAGGGA
38982 TTAGGGTTTA
1 TTAGGGTTTA
38992 AAATTTATGA
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.26, C:0.01, G:0.33, T:0.40
Consensus pattern (21 bp):
TTAGGGTTTAGAGATTAGGGA
Found at i:38984 original size:35 final size:35
Alignment explanation
Indices: 38902--38985 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 35
38892 CACATAATCA
*
38902 GATTAAGGGTTTAGAGCTTAGGGTTTAGAGATTAGG
1 GATT-AGGGATTAGAGCTTAGGGTTTAGAGATTAGG
* * * *
38938 GATTAGAGATTATAGCTTATGGTTTA-AGGTTTAGG
1 GATTAGGGATTAGAGCTTAGGGTTTAGA-GATTAGG
*
38973 GTTTAGGGATTAG
1 GATTAGGGATTAG
38986 GGTTTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 1 0.03
35 34 0.87
36 4 0.10
ACGTcount: A:0.27, C:0.02, G:0.33, T:0.37
Consensus pattern (35 bp):
GATTAGGGATTAGAGCTTAGGGTTTAGAGATTAGG
Found at i:50259 original size:10 final size:10
Alignment explanation
Indices: 50244--50274 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
50234 CTAAAATGGG
*
50244 AGAGAGAGTA
1 AGAGAGAGAA
50254 AGAGAGAGAA
1 AGAGAGAGAA
50264 AGAGAGAGAA
1 AGAGAGAGAA
50274 A
1 A
50275 TCGAAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (10 bp):
AGAGAGAGAA
Found at i:56060 original size:9 final size:10
Alignment explanation
Indices: 56018--56065 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 10
56008 GGATTAGCAC
56018 AGAACCGGTAA
1 AGAACCGG-AA
56029 AGAACCGG-A
1 AGAACCGGAA
*
56038 AGAATCGGCAA
1 AGAACCGG-AA
56049 AGAACCGG-A
1 AGAACCGGAA
56058 AGAACCGG
1 AGAACCGG
56066 TTGAAAACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 17 0.52
11 16 0.48
ACGTcount: A:0.44, C:0.21, G:0.31, T:0.04
Consensus pattern (10 bp):
AGAACCGGAA
Found at i:59973 original size:243 final size:243
Alignment explanation
Indices: 59545--60030 Score: 911
Period size: 243 Copynumber: 2.0 Consensus size: 243
59535 TTAACGTTGA
59545 TCCGAAATTGACAAAGGACTAGGCCAAGGCTATTGGTTGTTCGATGGGGTCATTTCCGACAGAAT
1 TCCGAAATTGACAAAGGACTAGGCCAAGGCTATTGGTTGTTCGATGGGGTCATTTCCGACAGAAT
59610 ATCTAGGTTTACCTCTTGGGACTAAGAGGAATTCGATGGCTATGTGGGAGCCGATTATTGAAAGA
66 ATCTAGGTTTACCTCTTGGGACTAAGAGGAATTCGATGGCTATGTGGGAGCCGATTATTGAAAGA
*
59675 TTTCATAAAAAGATGGTTGGTTAGAAGGCTTCATCTTTATCCTTATCAGGAAGGGTGGTATTGGT
131 TTTCATAAAAAGATGGCTGGTTAGAAGGCTTCATCTTTATCCTTATCAGGAAGGGTGGTATTGGT
*
59740 GAAATCAGTGTTGTGTGCTCTTCTCATCTACTT-CTTTTCTATCTTTCG
196 GAAATCAGTGTTGTGTGCTCTTCCCATCTACTTAC-TTTCTATCTTTCG
* * *
59788 TCCGAAATTGATAAAGGACTGGGCCAAGGCTATTGGTTGTTCGATGGGGTCATTTCCGACAGAGT
1 TCCGAAATTGACAAAGGACTAGGCCAAGGCTATTGGTTGTTCGATGGGGTCATTTCCGACAGAAT
59853 ATCTAGGTTTACCTCTTGGGACTAAGAGGAATTCGATGGCTATGTGGGAGCCGATTATTGAAAGA
66 ATCTAGGTTTACCTCTTGGGACTAAGAGGAATTCGATGGCTATGTGGGAGCCGATTATTGAAAGA
59918 TTTCATAAAAAGATGGCTGGTTAGAAGGCTTCATCTTTATCCTTATCAGGAAGGGTGGTATTGGT
131 TTTCATAAAAAGATGGCTGGTTAGAAGGCTTCATCTTTATCCTTATCAGGAAGGGTGGTATTGGT
59983 GAAATCAGTGTTGTGTGCTCTTCCCATCTACTTACTTTCTATCTTTCG
196 GAAATCAGTGTTGTGTGCTCTTCCCATCTACTTACTTTCTATCTTTCG
60031 ATTACCAACA
Statistics
Matches: 237, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
243 236 1.00
244 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (243 bp):
TCCGAAATTGACAAAGGACTAGGCCAAGGCTATTGGTTGTTCGATGGGGTCATTTCCGACAGAAT
ATCTAGGTTTACCTCTTGGGACTAAGAGGAATTCGATGGCTATGTGGGAGCCGATTATTGAAAGA
TTTCATAAAAAGATGGCTGGTTAGAAGGCTTCATCTTTATCCTTATCAGGAAGGGTGGTATTGGT
GAAATCAGTGTTGTGTGCTCTTCCCATCTACTTACTTTCTATCTTTCG
Found at i:61694 original size:21 final size:21
Alignment explanation
Indices: 61668--61712 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61658 GATTTCTGGG
* *
61668 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
61689 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
61710 CAA
1 CAA
61713 ACGATAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:62740 original size:31 final size:31
Alignment explanation
Indices: 62523--62726 Score: 390
Period size: 31 Copynumber: 6.6 Consensus size: 31
62513 AGGGTCGAGG
62523 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
62554 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
62585 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
62616 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
62647 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
62678 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
62709 GATTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
62727 AAATCTATGG
Statistics
Matches: 171, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 171 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:64246 original size:16 final size:16
Alignment explanation
Indices: 64222--64267 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
64212 TACTAAGATT
*
64222 TTTTTGAGTTCGAGCC
1 TTTTCGAGTTCGAGCC
*
64238 TTTTCGAGTTCGAGTC
1 TTTTCGAGTTCGAGCC
*
64254 TTTTCGAGATCGAG
1 TTTTCGAGTTCGAG
64268 TCGAGTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.41
Consensus pattern (16 bp):
TTTTCGAGTTCGAGCC
Found at i:64391 original size:27 final size:27
Alignment explanation
Indices: 64361--64432 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
64351 TTTAAACTTT
64361 TCGAGTTCGAATCGAGCTCAGCAATAC
1 TCGAGTTCGAATCGAGCTCAGCAATAC
64388 TCGAGTTCGAATCGAGCTCAGCAATAC
1 TCGAGTTCGAATCGAGCTCAGCAATAC
* *
64415 TCGAGCTCGACTCG-GCTC
1 TCGAGTTCGAATCGAGCTC
64433 GTTTATAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (27 bp):
TCGAGTTCGAATCGAGCTCAGCAATAC
Found at i:64420 original size:16 final size:16
Alignment explanation
Indices: 64372--64422 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
64362 CGAGTTCGAA
64372 TCGAGCTCAGCAATAC
1 TCGAGCTCAGCAATAC
*
64388 TCGAGTTC-G--A-A-
1 TCGAGCTCAGCAATAC
64399 TCGAGCTCAGCAATAC
1 TCGAGCTCAGCAATAC
64415 TCGAGCTC
1 TCGAGCTC
64423 GACTCGGCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
11 7 0.25
12 2 0.07
13 1 0.04
14 1 0.04
15 2 0.07
16 15 0.54
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (16 bp):
TCGAGCTCAGCAATAC
Found at i:71200 original size:14 final size:14
Alignment explanation
Indices: 71181--71211 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
71171 CAAAAAAAGA
71181 AGAAAAAATGAGTG
1 AGAAAAAATGAGTG
71195 AGAAAAAATGAGTG
1 AGAAAAAATGAGTG
71209 AGA
1 AGA
71212 GAGAAAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (14 bp):
AGAAAAAATGAGTG
Found at i:84314 original size:20 final size:20
Alignment explanation
Indices: 84289--84334 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
84279 ATGGCAAACA
84289 CACCACAATTTTCATGATAC
1 CACCACAATTTTCATGATAC
84309 CACCACAATTTTCATGATAC
1 CACCACAATTTTCATGATAC
84329 CACCAC
1 CACCAC
84335 GCTACAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.35, G:0.04, T:0.26
Consensus pattern (20 bp):
CACCACAATTTTCATGATAC
Found at i:88197 original size:42 final size:42
Alignment explanation
Indices: 88146--88225 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
88136 ATATTTTTCA
* * *
88146 TAGCTTATGTAATGGGTATTGAAGTTGGAGGATGATTTTTGG
1 TAGCTTATGTAATAGGCATTGAAATTGGAGGATGATTTTTGG
* *
88188 TAGCTTATGTAGTAGGCATTGAAATTTGAGGATGATTT
1 TAGCTTATGTAATAGGCATTGAAATTGGAGGATGATTT
88226 ATGCAATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (42 bp):
TAGCTTATGTAATAGGCATTGAAATTGGAGGATGATTTTTGG
Found at i:91088 original size:23 final size:23
Alignment explanation
Indices: 91062--91113 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
91052 TTAAACGAGT
91062 ATGTTCAGGAACATTAAATG-AAC
1 ATGTTCAGGAACATTAAA-GAAAC
* *
91085 ATGTTCATGAACGTTAAAGAAAC
1 ATGTTCAGGAACATTAAAGAAAC
91108 ATGTTC
1 ATGTTC
91114 GCGAATGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (23 bp):
ATGTTCAGGAACATTAAAGAAAC
Found at i:91814 original size:20 final size:20
Alignment explanation
Indices: 91789--91833 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
91779 TTATCCGAAA
91789 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
*
91809 AAAAATCCGGTTTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
91829 AAAAA
1 AAAAA
91834 ATTAGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (20 bp):
AAAAATCCGGTCTGGGGTTT
Found at i:92349 original size:17 final size:18
Alignment explanation
Indices: 92327--92361 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
92317 TTTTACCGGA
*
92327 TTAAAAATCGA-TTTTTT
1 TTAAAAACCGACTTTTTT
92344 TTAAAAACCGACTTTTTT
1 TTAAAAACCGACTTTTTT
92362 CAAACCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (18 bp):
TTAAAAACCGACTTTTTT
Found at i:95483 original size:3 final size:3
Alignment explanation
Indices: 95475--95585 Score: 154
Period size: 3 Copynumber: 37.7 Consensus size: 3
95465 TTTTTATCCA
* *
95475 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
95523 TAA TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
95569 TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
95586 AATATATTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
2 4 0.04
3 92 0.96
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:108423 original size:1 final size:1
Alignment explanation
Indices: 108407--108494 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
108397 ATGCTTGAAG
* * * * * * * * * **
108407 AAAAAAGAAAAGAAAAAGAAAAGAAAGAAAAGAAAAAAAAAGAAAAAAAATAGAAAATGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
108472 AAGAAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
108495 GGATTAAGGT
Statistics
Matches: 60, Mismatches: 27, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (1 bp):
A
Found at i:108435 original size:20 final size:20
Alignment explanation
Indices: 108407--108495 Score: 117
Period size: 21 Copynumber: 4.3 Consensus size: 20
108397 ATGCTTGAAG
108407 AAAAAAGAAAAGAAAAAGAA
1 AAAAAAGAAAAGAAAAAGAA
*
108427 AAGAAAGAAAAGAAAAA-AA
1 AAAAAAGAAAAGAAAAAGAA
* *
108446 AAGAAAAAAAATAGAAAATGAA
1 AA-AAAAGAAA-AGAAAAAGAA
108468 AAAAAAGAAAAGAAAAAAGAA
1 AAAAAAGAAAAG-AAAAAGAA
108489 AAAAAAG
1 AAAAAAG
108496 GATTAAGGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.07
20 24 0.41
21 27 0.46
22 4 0.07
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAAGAAAAAGAA
Found at i:108469 original size:41 final size:42
Alignment explanation
Indices: 108404--108495 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 42
108394 ATTATGCTTG
*
108404 AAGAAAAAAGAAAAGAAAAAGAAAAGAAAGAAAAGAAAAAAA
1 AAGAAAAAAGAAAAGAAAAAGAAAAAAAAGAAAAGAAAAAAA
* * *
108446 AAGAAAAAA-AATAGAAAATGAAAAAAAAGAAAAGAAAAAAG
1 AAGAAAAAAGAAAAGAAAAAGAAAAAAAAGAAAAGAAAAAAA
108487 AA-AAAAAAG
1 AAGAAAAAAG
108496 GATTAAGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 6 0.13
41 30 0.67
42 9 0.20
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (42 bp):
AAGAAAAAAGAAAAGAAAAAGAAAAAAAAGAAAAGAAAAAAA
Found at i:108490 original size:5 final size:5
Alignment explanation
Indices: 108409--108483 Score: 91
Period size: 5 Copynumber: 14.8 Consensus size: 5
108399 GCTTGAAGAA
* *
108409 AAAAG AAAAG AAAAAG AAAAG -AAAG AAAAG AAAAA AAAAG AAAAA AAATAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG
108460 AAAATG AAAA- AAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAA
108484 AAGAAAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
4 8 0.13
5 39 0.64
6 14 0.23
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:109811 original size:84 final size:84
Alignment explanation
Indices: 109695--110163 Score: 809
Period size: 84 Copynumber: 5.6 Consensus size: 84
109685 GACAGAATCA
109695 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
109760 GAAGATGAATGTGCTCCAT
66 GAAGATGAATGTGCTCCAT
*
109779 AACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA-AATCCAATCATTGAATTT
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA-CCAATCATTGAATTT
109843 GGAAGATGAATGTGCTCCAT
65 GGAAGATGAATGTGCTCCAT
*
109863 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAAAACCAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
*
109928 GAAGATGAATGTG-TTCAT
66 GAAGATGAATGTGCTCCAT
* * *
109946 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAGTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
*
110011 GAAGATGAATGTGCTCAAT
66 GAAGATGAATGTGCTCCAT
* *
110030 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
110095 GAAGATGAATGTGC-CCAAT
66 GAAGATGAATGTGCTCC-AT
*
110114 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAAC
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAAC
110164 TTACAGAACC
Statistics
Matches: 370, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
83 81 0.22
84 287 0.78
85 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (84 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
GAAGATGAATGTGCTCCAT
Found at i:110035 original size:167 final size:167
Alignment explanation
Indices: 109695--110163 Score: 814
Period size: 167 Copynumber: 2.8 Consensus size: 167
109685 GACAGAATCA
109695 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
* *
109760 GAAGATGAATGTGCTCCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA
66 GAAGATGAATGTG-TCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
* * *
109825 -AATCCAATCATTGAATTTGGAAGATGAATGTGCTCCAT
130 GAA-CCAATCATTGAAGTTAGAAGATGAATGTGCTCAAT
*
109863 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAAAACCAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
*
109928 GAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
66 GAAGATGAATGTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
109993 AACCAATCATTGAAGTTAGAAGATGAATGTGCTCAAT
131 AACCAATCATTGAAGTTAGAAGATGAATGTGCTCAAT
* *
110030 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
*
110095 GAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
66 GAAGATGAATGTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
110160 GAAC
130 GAAC
110164 TTACAGAACC
Statistics
Matches: 287, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
167 156 0.54
168 131 0.46
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (167 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
GAAGATGAATGTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
AACCAATCATTGAAGTTAGAAGATGAATGTGCTCAAT
Found at i:110138 original size:251 final size:251
Alignment explanation
Indices: 109695--110156 Score: 829
Period size: 251 Copynumber: 1.8 Consensus size: 251
109685 GACAGAATCA
* *
109695 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAGTTA
*
109760 GAAGATGAATGTGCTCCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA
66 GAAGATGAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA
*
109825 AATCCAATCATTGAATTTGGAAGATGAATGTGCTCCATAGCATCTTCTGGAAGTGTTCTTTGAGT
131 AATCCAATCATTGAATTTAGAAGATGAATGTGCTCCATAGCATCTTCTGGAAGTGTTCTTTGAGT
109890 TATCTGATCTGGTTTGACAAAACCAATCATTGAATTTGGAAGATGAATGTGTTCAT
196 TATCTGATCTGGTTTGACAAAACCAATCATTGAATTTGGAAGATGAATGTGTTCAT
*
109946 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAGTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAGTTA
* *
110011 GAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
66 GAAGATGAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA
110076 GAA-CCAATCATTGAATTTAGAAGATGAATGTGC-CCAATAGCATCTTCTGGAAGTGTTCTTTGA
131 -AATCCAATCATTGAATTTAGAAGATGAATGTGCTCC-ATAGCATCTTCTGGAAGTGTTCTTTGA
110139 GTTATCTGATCTGGTTTG
194 GTTATCTGATCTGGTTTG
110157 GCAGAACTTA
Statistics
Matches: 202, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
250 2 0.01
251 198 0.98
252 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (251 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAGTTA
GAAGATGAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA
AATCCAATCATTGAATTTAGAAGATGAATGTGCTCCATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGGTTTGACAAAACCAATCATTGAATTTGGAAGATGAATGTGTTCAT
Found at i:110943 original size:113 final size:113
Alignment explanation
Indices: 110775--111299 Score: 798
Period size: 113 Copynumber: 4.6 Consensus size: 113
110765 TGCAAGGTAG
*
110775 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
110840 AACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAA
* *
110888 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
110953 AACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAA
111001 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *** * *
111066 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
66 AACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAA
* *
111114 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *** * *
111179 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAA
66 AACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAA
* *
111227 AGTTCATGAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
111292 CAACCTTT
65 CAACCTTT
111300 GTTTGATATT
Statistics
Matches: 390, Mismatches: 21, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
113 329 0.84
114 61 0.16
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAA
Found at i:111602 original size:3 final size:3
Alignment explanation
Indices: 111594--111705 Score: 154
Period size: 3 Copynumber: 37.7 Consensus size: 3
111584 TTTTTATCCA
* *
111594 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
111642 TAA TAT TAT TAT TAT TTT TAT TTT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
111689 TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
111706 AATATATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 93 0.98
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:113184 original size:20 final size:21
Alignment explanation
Indices: 113147--113187 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
113137 GATATTTTTA
**
113147 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
113168 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
113188 ACATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:120609 original size:13 final size:14
Alignment explanation
Indices: 120581--120609 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120571 TTTTCCAAAG
120581 AAAATTATTATAAT
1 AAAATTATTATAAT
120595 AAAATTATT-TAAT
1 AAAATTATTATAAT
120608 AA
1 AA
120610 TCATCGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTATTATAAT
Found at i:124688 original size:21 final size:21
Alignment explanation
Indices: 124646--124690 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
124636 AAAATCTACA
*
124646 ATGTTGATGTGACAGTTCACG
1 ATGTTGATGTGACAGTACACG
* *
124667 ATGTTGTTGTGACAGTAGACG
1 ATGTTGATGTGACAGTACACG
124688 ATG
1 ATG
124691 AAAAATGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.33
Consensus pattern (21 bp):
ATGTTGATGTGACAGTACACG
Found at i:127053 original size:19 final size:19
Alignment explanation
Indices: 127029--127065 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
127019 TGTTGAAATA
*
127029 TGCATTCTAGAATATGCAG
1 TGCATTCTAGAACATGCAG
127048 TGCATTCTAGAACATGCA
1 TGCATTCTAGAACATGCA
127066 CTGCTAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TGCATTCTAGAACATGCAG
Found at i:130124 original size:210 final size:207
Alignment explanation
Indices: 129734--130149 Score: 602
Period size: 210 Copynumber: 2.0 Consensus size: 207
129724 GTCTATTTCC
* *
129734 ATGTGATTCCCGGCTTCTGACTGATGATCCGAATGTGCATCGTCGACATTCAGAATCACTTCGGA
1 ATGTGATTCCCGGCTTCTGACTGATGATCCGAATGTGCATCATCGACATTCAGAATCACTTCAGA
* * * *
129799 CAACTTTCTGTCTCCTGCATTCTGCTCATGTAAAAAGAGGGGACCAGTTTCCCCCTCTAAATATT
66 CAACTTACTGTCACCTGCATTCTGCTCAGGTAAAAAGAGGGGACCAGTTTCCCCCTCTAAATACT
* *
129864 TTGACTCAAACTGTACATGAGGTTTACCCAAGCTGCCTTCTCCGCCGTCGACTTCAACTAGCTTC
131 TTGACTCAAACTGCACATGAGGTTTACCCAAGCTGCCTTCCCCGCCGTCGACTTCAACTAGCTTC
129929 TCAAGGCATTCT
196 TCAAGGCATTCT
* * *
129941 ATGTGATTCCCTGCTTCTGACTGATGATCCGAATGTGTATCATCGACATTTAGAATCACTTCAGA
1 ATGTGATTCCCGGCTTCTGACTGATGATCCGAATGTGCATCATCGACATTCAGAATCACTTCAGA
* *
130006 CAACTGTCGACTTTCACCTGCATTCTGCTCAGGTGAACAAA-AGGGG-GCAGTTTCCCCCTCTAA
66 CAACT-T--ACTGTCACCTGCATTCTGCTCAGGT-AA-AAAGAGGGGACCAGTTTCCCCCTCTAA
* * ** * *
130069 ATCCTTTGAGTCAAACTGCACATGAGGTTTATTCAAGTTGCCTTCCCCTCCGTCGACTTCAACTA
126 ATACTTTGACTCAAACTGCACATGAGGTTTACCCAAGCTGCCTTCCCCGCCGTCGACTTCAACTA
130134 GCTTCTCAAGGCATTC
191 GCTTCTCAAGGCATTC
130150 AAATTCTCTA
Statistics
Matches: 185, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
207 65 0.35
208 1 0.01
210 109 0.59
211 7 0.04
212 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (207 bp):
ATGTGATTCCCGGCTTCTGACTGATGATCCGAATGTGCATCATCGACATTCAGAATCACTTCAGA
CAACTTACTGTCACCTGCATTCTGCTCAGGTAAAAAGAGGGGACCAGTTTCCCCCTCTAAATACT
TTGACTCAAACTGCACATGAGGTTTACCCAAGCTGCCTTCCCCGCCGTCGACTTCAACTAGCTTC
TCAAGGCATTCT
Found at i:133469 original size:2 final size:2
Alignment explanation
Indices: 133427--133456 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
133417 AACAGGGATA
133427 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
133457 ACTATCTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133940 original size:13 final size:14
Alignment explanation
Indices: 133922--133955 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
133912 CAAGTCATTG
*
133922 TAAAAAATAT-AGT
1 TAAAAAATATAAAT
133935 TAAAAAATATAAAT
1 TAAAAAATATAAAT
133949 TAAAAAA
1 TAAAAAA
133956 AGAACAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
TAAAAAATATAAAT
Found at i:137838 original size:28 final size:28
Alignment explanation
Indices: 137798--137889 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
137788 TTTGGGTCGA
*
137798 GTCAGGTTTTTTTAAGTGTGATATTCAG
1 GTCAGGATTTTTTAAGTGTGATATTCAG
* *
137826 GTCAGGATTTTTTAAGTGTGCTATTCGGGTCGG
1 GTCAGGATTTTTTAAGTGTGATA-T----TCAG
* *
137859 GTCAGGGTTTTTTAATTGTGATATTCAG
1 GTCAGGATTTTTTAAGTGTGATATTCAG
137887 GTC
1 GTC
137890 GGGTTCGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
28 27 0.52
29 1 0.02
32 1 0.02
33 23 0.44
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
GTCAGGATTTTTTAAGTGTGATATTCAG
Found at i:137900 original size:33 final size:33
Alignment explanation
Indices: 137792--137901 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
137782 ATCGGGTTTG
* *
137792 GGTCGAGTCAGGTTTTTTTAAGTGTGATATTCA
1 GGTCGGGTCAGGGTTTTTTAAGTGTGATATTCA
* * *
137825 -----GGTCAGGATTTTTTAAGTGTGCTATTCG
1 GGTCGGGTCAGGGTTTTTTAAGTGTGATATTCA
*
137853 GGTCGGGTCAGGGTTTTTTAATTGTGATATTCA
1 GGTCGGGTCAGGGTTTTTTAAGTGTGATATTCA
137886 GGTCGGGTTC-GGGTTT
1 GGTCGGG-TCAGGGTTT
137902 AGGGTGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
28 24 0.38
33 37 0.59
34 2 0.03
ACGTcount: A:0.16, C:0.10, G:0.32, T:0.42
Consensus pattern (33 bp):
GGTCGGGTCAGGGTTTTTTAAGTGTGATATTCA
Found at i:142854 original size:14 final size:14
Alignment explanation
Indices: 142837--142895 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
142827 GAACGTTCGA
142837 TTATGTTCGTTCAT
1 TTATGTTCGTTCAT
**
142851 TTATGTTCGTTCGG
1 TTATGTTCGTTCAT
142865 TTATGTTCG----T
1 TTATGTTCGTTCAT
*
142875 TTATGTTCATTCAT
1 TTATGTTCGTTCAT
142889 TTATGTT
1 TTATGTT
142896 TAACCCAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 8 0.22
14 29 0.78
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.58
Consensus pattern (14 bp):
TTATGTTCGTTCAT
Found at i:142862 original size:38 final size:38
Alignment explanation
Indices: 142820--142895 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
142810 CGTTCATTTA
*
142820 CGTTC-GTGAACGTTCGATTATGTTCGTTCATTTATGTT
1 CGTTCGGT-AACGTTCGATTATGTTCATTCATTTATGTT
* * *
142858 CGTTCGGTTATGTTCGTTTATGTTCATTCATTTATGTT
1 CGTTCGGTAACGTTCGATTATGTTCATTCATTTATGTT
142896 TAACCCAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 31 0.94
39 2 0.06
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.51
Consensus pattern (38 bp):
CGTTCGGTAACGTTCGATTATGTTCATTCATTTATGTT
Found at i:142892 original size:24 final size:24
Alignment explanation
Indices: 142845--142895 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
142835 GATTATGTTC
* *
142845 GTTCATTTATGTTCGTTCGGTTAT
1 GTTCATTTATGTTCATTCAGTTAT
* *
142869 GTTCGTTTATGTTCATTCATTTAT
1 GTTCATTTATGTTCATTCAGTTAT
142893 GTT
1 GTT
142896 TAACCCAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.57
Consensus pattern (24 bp):
GTTCATTTATGTTCATTCAGTTAT
Found at i:143964 original size:16 final size:16
Alignment explanation
Indices: 143941--144000 Score: 93
Period size: 16 Copynumber: 3.8 Consensus size: 16
143931 AGGTCTCCAA
143941 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
143957 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
**
143973 CGTTTATGTTCGTGCG
1 CGTTTATGTTCGTGTT
143989 CGTTTATGTTCG
1 CGTTTATGTTCG
144001 ATTATTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.08, C:0.15, G:0.25, T:0.52
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:145879 original size:2 final size:2
Alignment explanation
Indices: 145872--145911 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
145862 TAAATAAAAT
145872 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
145912 AATGTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:155481 original size:23 final size:23
Alignment explanation
Indices: 155451--155530 Score: 103
Period size: 22 Copynumber: 3.6 Consensus size: 23
155441 CATGTACATT
155451 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* * *
155474 GTGCATCGGTGCACCTTC-ATG-
1 GTGCATCGATGCACATTCAAGGA
*
155495 GTGTATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
155518 -TGCATCGATGCAC
1 GTGCATCGATGCAC
155531 TGTTAAGTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
21 15 0.32
22 16 0.34
23 16 0.34
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:155507 original size:21 final size:21
Alignment explanation
Indices: 155451--155530 Score: 97
Period size: 21 Copynumber: 3.7 Consensus size: 21
155441 CATGTACATT
155451 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAA-G
* * *
155473 AGTGCATCGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCAAG
*
155495 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTCAAG
155516 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
155531 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.38
22 13 0.27
23 17 0.35
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCACATTCAAG
Found at i:161312 original size:64 final size:64
Alignment explanation
Indices: 161242--161366 Score: 182
Period size: 64 Copynumber: 1.9 Consensus size: 64
161232 GGAACACTTA
* *
161242 GTGCATCGATGTATCAAATGCATTCGATGTTTT-GTAAAAGCC-TGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATATTTTAGTAAAA-CCAT-AGTGCATCGATGCATGGTA
161305 T
64 T
*
161306 GTGCATCGATGCATCAAATGCATTCGATATTTTCATTAAAACCATAGTGCATCGATGCATG
1 GTGCATCGATGCATCAAATGCATTCGATATTTT-AGTAAAACCATAGTGCATCGATGCATG
161367 ACCTGCATTC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
64 31 0.56
65 18 0.33
66 6 0.11
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATATTTTAGTAAAACCATAGTGCATCGATGCATGGTAT
Found at i:161379 original size:64 final size:64
Alignment explanation
Indices: 161243--161380 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 64
161233 GAACACTTAG
* * **
161243 TGCATCGATGTATCAAATGCATTCGATGTTTTGTAAAAGCCTGAGTGCATCGATGCATGGTATG
1 TGCATCGATGCATCAAATGCATTCGATATTTTGTAAAAGCCTGAGTGCATCGATGCATGGTACC
*
161307 TGCATCGATGCATCAAATGCATTCGATATTTTCATTAAAA-CCAT-AGTGCATCGATGCAT-G-A
1 TGCATCGATGCATCAAATGCATTCGATATTTT--GTAAAAGCC-TGAGTGCATCGATGCATGGTA
161368 CC
63 CC
161370 TGCATTCGATG
1 TGCA-TCGATG
161381 TTCAATTAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
63 5 0.08
64 37 0.57
65 17 0.26
66 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (64 bp):
TGCATCGATGCATCAAATGCATTCGATATTTTGTAAAAGCCTGAGTGCATCGATGCATGGTACC
Found at i:161418 original size:20 final size:20
Alignment explanation
Indices: 161393--161430 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
161383 CAATTAATTC
161393 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
161413 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
161431 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:165961 original size:18 final size:19
Alignment explanation
Indices: 165926--165981 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 19
165916 TTTATATTAA
*
165926 TATATTTCGATTTATAAATC
1 TATATTT-GATATATAAATC
165946 TATATTTGTATATAAATAAATC
1 TATATTTG-ATAT--ATAAATC
165968 TATATTTG-TATATA
1 TATATTTGATATATA
165982 GTATTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 3 0.09
19 1 0.03
20 13 0.41
22 15 0.47
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
TATATTTGATATATAAATC
Found at i:165964 original size:22 final size:22
Alignment explanation
Indices: 165939--165981 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
165929 ATTTCGATTT
165939 ATAAATCTATATTTGTATATAA
1 ATAAATCTATATTTGTATATAA
165961 ATAAATCTATATTTGTATATA
1 ATAAATCTATATTTGTATATA
165982 GTATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
ATAAATCTATATTTGTATATAA
Found at i:166018 original size:18 final size:18
Alignment explanation
Indices: 165976--166033 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
165966 TCTATATTTG
*
165976 TATATAGTATTATTAAGTC
1 TATATAGTATTATTAAG-A
165995 TATATAGTATTATTAAGA
1 TATATAGTATTATTAAGA
* *
166013 TATATAATATTATTAATA
1 TATATAGTATTATTAAGA
166031 TAT
1 TAT
166034 TATTAAGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 19 0.53
19 17 0.47
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (18 bp):
TATATAGTATTATTAAGA
Found at i:166092 original size:29 final size:31
Alignment explanation
Indices: 166046--166111 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
166036 TTAAGAATAA
166046 TATAATAATATATT-TTATTATTATATAATTCT
1 TATAAT-ATATATTATTA-TATTATATAATTCT
*
166078 TATAATGTATATTATTTATATTATATAATTCT
1 TATAATATATATTA-TTATATTATATAATTCT
166110 TA
1 TA
166112 CTCTCGATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 6 0.19
32 22 0.71
33 3 0.10
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (31 bp):
TATAATATATATTATTATATTATATAATTCT
Found at i:177831 original size:2 final size:2
Alignment explanation
Indices: 177824--177885 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
177814 TGAAACAATT
177824 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
177866 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
177886 GAAAGCTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:191199 original size:14 final size:14
Alignment explanation
Indices: 191180--191210 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
191170 ATATCTGCTC
*
191180 TCTCGTTCTCTCGA
1 TCTCGTTCTCTCCA
191194 TCTCGTTCTCTCCA
1 TCTCGTTCTCTCCA
191208 TCT
1 TCT
191211 TTGCCATCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.10, T:0.45
Consensus pattern (14 bp):
TCTCGTTCTCTCCA
Found at i:193410 original size:22 final size:23
Alignment explanation
Indices: 193379--193425 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
193369 TAATCGCGAG
193379 TTTAGAAGATACGA-TTCTGGGC
1 TTTAGAAGATACGATTTCTGGGC
* *
193401 TTTAGCAGATACGATTTTTGGGC
1 TTTAGAAGATACGATTTCTGGGC
193424 TT
1 TT
193426 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (23 bp):
TTTAGAAGATACGATTTCTGGGC
Found at i:207374 original size:17 final size:17
Alignment explanation
Indices: 207354--207389 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
207344 ATTGCAAAGA
207354 AATTAAAGAAGAA-AAAT
1 AATTAAAGAA-AATAAAT
207371 AATTAAAGAAAATAAAT
1 AATTAAAGAAAATAAAT
207388 AA
1 AA
207390 AGGTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (17 bp):
AATTAAAGAAAATAAAT
Found at i:216163 original size:22 final size:22
Alignment explanation
Indices: 216138--216192 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
216128 TCAGGAGTTA
* *
216138 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
216160 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
216182 CGGGAGTTATA
1 CAGGAGTTATA
216193 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:222495 original size:142 final size:142
Alignment explanation
Indices: 222239--222495 Score: 372
Period size: 142 Copynumber: 1.8 Consensus size: 142
222229 CAGTTTAGGT
*
222239 TGCAAATGGCCGTATGCATCTCCTCGGGGTCCCCTCGCGTGGCCAACAAAGTCGCATGGCATGCC
1 TGCAAATGGCCGTATGCATCTCCTCGAGGTCCCCTCGCGTGGCCAACAAAGTCGCATGGCATGCC
* * * * **
222304 ACTCACGTATGTACAGTAGGTAGTTGGCATTTGAATGATAAAAGTTTAACTCATGCGTCTCCCAA
66 ACTCACGCAAGTACAGTAGGTAGCTGACATTCAAATGATAAAAGTTTAACTCATGCGTCTCCCAA
222369 GGGGGGTTGGGC
131 GGGGGGTTGGGC
* * * *** *
222381 TGCAAGTGGCCGTATGCGTCTCCTCGAGG-CCCTTTCGCGTGGCTGGCAAAGTCGCATGTCATGC
1 TGCAAATGGCCGTATGCATCTCCTCGAGGTCCC-CTCGCGTGGCCAACAAAGTCGCATGGCATGC
222445 CACTCACGCAAGTACAGTAGGTAGCTGACATTCAAATGATAAAAGTTTAAC
65 CACTCACGCAAGTACAGTAGGTAGCTGACATTCAAATGATAAAAGTTTAAC
222496 CCATACCCAT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
141 3 0.03
142 97 0.97
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (142 bp):
TGCAAATGGCCGTATGCATCTCCTCGAGGTCCCCTCGCGTGGCCAACAAAGTCGCATGGCATGCC
ACTCACGCAAGTACAGTAGGTAGCTGACATTCAAATGATAAAAGTTTAACTCATGCGTCTCCCAA
GGGGGGTTGGGC
Found at i:223212 original size:22 final size:22
Alignment explanation
Indices: 223187--223251 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
223177 ATATTTATTA
*
223187 ATATTTCTAATAATATGATAAT
1 ATATTTCTAATAATATAATAAT
* * *
223209 ATATTTTTAATATTATAATAAA
1 ATATTTCTAATAATATAATAAT
* *
223231 ATA-ATC-AATTATATAATAAT
1 ATATTTCTAATAATATAATAAT
223251 A
1 A
223252 ATATAAGATA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 12 0.35
21 1 0.03
22 21 0.62
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (22 bp):
ATATTTCTAATAATATAATAAT
Found at i:223370 original size:19 final size:19
Alignment explanation
Indices: 223346--223414 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
223336 ATATTATTAA
223346 ATTATTAATAATGAATAAT
1 ATTATTAATAATGAATAAT
* **
223365 ATTATTTAT-ATGTTTAAT
1 ATTATTAATAATGAATAAT
*
223383 GTTAATATAATAATCGAATAAT
1 ATT-AT-TAATAAT-GAATAAT
223405 ATT-TTAATAA
1 ATTATTAATAA
223415 AGATATTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 9 0.24
19 16 0.42
20 4 0.11
21 2 0.05
22 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (19 bp):
ATTATTAATAATGAATAAT
Found at i:223435 original size:23 final size:23
Alignment explanation
Indices: 223409--223453 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
223399 AATAATATTT
223409 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * * *
223432 TAATTAATATTTTTTAAATATA
1 TAATAAAGATATTTAAAATATA
223454 ATATAACACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:223576 original size:18 final size:20
Alignment explanation
Indices: 223549--223586 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
223539 TAATAAAATT
223549 ATAAAAAAA-TA-TTTAATA
1 ATAAAAAAATTATTTTAATA
*
223567 ATAAATAAATTATTTTAATA
1 ATAAAAAAATTATTTTAATA
223587 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAAAATTATTTTAATA
Found at i:223820 original size:14 final size:14
Alignment explanation
Indices: 223801--223859 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
223791 CTAGAAATAT
*
223801 AATTCATTTTCCAG
1 AATTCAATTTCCAG
223815 AATTCAATTTCCAG
1 AATTCAATTTCCAG
* *
223829 TAATTCATTTTCCAA
1 -AATTCAATTTCCAG
223844 AATTCAATTTCCAG
1 AATTCAATTTCCAG
223858 AA
1 AA
223860 AACCAATTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:223842 original size:29 final size:29
Alignment explanation
Indices: 223800--223857 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
223790 TCTAGAAATA
*
223800 TAATTCATTTTCCAGAATTCAATTTCCAG
1 TAATTCATTTTCCAAAATTCAATTTCCAG
223829 TAATTCATTTTCCAAAATTCAATTTCCAG
1 TAATTCATTTTCCAAAATTCAATTTCCAG
223858 AAAACCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (29 bp):
TAATTCATTTTCCAAAATTCAATTTCCAG
Found at i:226839 original size:28 final size:30
Alignment explanation
Indices: 226801--226921 Score: 124
Period size: 34 Copynumber: 4.0 Consensus size: 30
226791 TTTTATAAAA
226801 ATTAACTTGATTTTATAATAATTTATGTAT
1 ATTAACTTGATTTTATAATAATTTATGTAT
* *
226831 A-T-ATTTGATTTTATAATAATTAACT-TA-
1 ATTAACTTGATTTTATAATAATTTA-TGTAT
*
226858 ATTAACTTGATTTTATAATGATTTATGTATAAT
1 ATTAACTTGATTTTATAATAATTTATG--T-AT
* *
226891 AATTAACTTTATTTTATAATCATTTATGTAT
1 -ATTAACTTGATTTTATAATAATTTATGTAT
226922 TTTTTTTAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
27 1 0.01
28 23 0.31
29 20 0.27
30 1 0.01
31 3 0.04
32 2 0.03
34 25 0.33
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (30 bp):
ATTAACTTGATTTTATAATAATTTATGTAT
Found at i:226909 original size:17 final size:17
Alignment explanation
Indices: 226856--226910 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
226846 ATAATTAACT
*
226856 TAATTAACTTGATTTTA
1 TAATTAACTTTATTTTA
* *
226873 TAA-TGA-TTTATGTATAA
1 TAATTAACTTTAT-T-TTA
226890 TAATTAACTTTATTTTA
1 TAATTAACTTTATTTTA
226907 TAAT
1 TAAT
226911 CATTTATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
15 4 0.14
16 3 0.10
17 14 0.48
18 3 0.10
19 5 0.17
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (17 bp):
TAATTAACTTTATTTTA
Found at i:228181 original size:18 final size:19
Alignment explanation
Indices: 228160--228208 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
228150 AAACTTATAA
228160 AATTATAAATAAAGAA-AT
1 AATTATAAATAAAGAACAT
* *
228178 AATTATAAATAAATAACTT
1 AATTATAAATAAAGAACAT
228197 AATT-TAAATAAA
1 AATTATAAATAAA
228209 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATTATAAATAAAGAACAT
Found at i:228220 original size:20 final size:18
Alignment explanation
Indices: 228177--228223 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
228167 AATAAAGAAA
228177 TAATTATAAATAAATAACT
1 TAATT-TAAATAAATAACT
*
228196 TAATTTAAATAAATTTAATT
1 TAATTTAAATAAA--TAACT
228216 TAATTTAA
1 TAATTTAA
228224 TAGTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 5 0.20
20 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATTTAAATAAATAACT
Found at i:229856 original size:20 final size:19
Alignment explanation
Indices: 229822--229861 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
229812 TTTAACTGTC
229822 TTCTCTTCTTCTTCTTTCT
1 TTCTCTTCTTCTTCTTTCT
*
229841 TTCTCTTTTCTCTTCTTTCT
1 TTCTCTTCT-TCTTCTTTCT
229861 T
1 T
229862 CACCCCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTCTCTTCTTCTTCTTTCT
Found at i:230105 original size:27 final size:27
Alignment explanation
Indices: 230064--230123 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
230054 ACGGGCGTAT
230064 GCATGGTTCACAGGTGTAGGGAGAGTC
1 GCATGGTTCACAGGTGTAGGGAGAGTC
*
230091 GCATGGTTCATAGGTGTAGGGAGAGTC
1 GCATGGTTCACAGGTGTAGGGAGAGTC
230118 GCATGG
1 GCATGG
230124 ATTTCCATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.13, G:0.42, T:0.23
Consensus pattern (27 bp):
GCATGGTTCACAGGTGTAGGGAGAGTC
Found at i:232752 original size:21 final size:21
Alignment explanation
Indices: 232735--232777 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
232725 TATAAATTCA
232735 ATTTTTTGTGTAAAAAATTAT
1 ATTTTTTGTGTAAAAAATTAT
* *
232756 TTTTTTTGTGTAAAAAAATAT
1 ATTTTTTGTGTAAAAAATTAT
232777 A
1 A
232778 GTTTGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
ATTTTTTGTGTAAAAAATTAT
Found at i:236581 original size:17 final size:17
Alignment explanation
Indices: 236559--236596 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
236549 GTGCATATAT
236559 TGGCCCAATTTTATTAC
1 TGGCCCAATTTTATTAC
236576 TGGCCCAATTTTATTAC
1 TGGCCCAATTTTATTAC
236593 TGGC
1 TGGC
236597 ATGCAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (17 bp):
TGGCCCAATTTTATTAC
Found at i:243587 original size:3 final size:3
Alignment explanation
Indices: 243581--243610 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
243571 TCACAACCAC
*
243581 CAT CAT CAT CAT CTT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
243611 AACTTGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:244119 original size:16 final size:17
Alignment explanation
Indices: 244092--244127 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
244082 AGATATGAGA
244092 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
244109 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
244125 AAA
1 AAA
244128 ATAACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:246151 original size:32 final size:32
Alignment explanation
Indices: 246110--246173 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
246100 CATCTTCCCC
*
246110 TATTCATCCTCCTTTGTTCATAATCGAGTCTA
1 TATTCATCCTCCGTTGTTCATAATCGAGTCTA
* * *
246142 TATTCATCCTTCGTTGTTCTTCATCGAGTCTA
1 TATTCATCCTCCGTTGTTCATAATCGAGTCTA
246174 GAGTTTTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (32 bp):
TATTCATCCTCCGTTGTTCATAATCGAGTCTA
Found at i:265620 original size:12 final size:12
Alignment explanation
Indices: 265603--265627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
265593 TTGTCAACCA
265603 TATGAACAGGTG
1 TATGAACAGGTG
265615 TATGAACAGGTG
1 TATGAACAGGTG
265627 T
1 T
265628 TGCGGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TATGAACAGGTG
Found at i:265700 original size:30 final size:30
Alignment explanation
Indices: 265666--265725 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
265656 ACTGAATCTT
265666 CTAAAATATGAAGATGTATGCTACTCGTCA
1 CTAAAATATGAAGATGTATGCTACTCGTCA
265696 CTAAAATATGAAGATGTATGCTACTCGTCA
1 CTAAAATATGAAGATGTATGCTACTCGTCA
265726 GATTTCTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (30 bp):
CTAAAATATGAAGATGTATGCTACTCGTCA
Found at i:276616 original size:81 final size:82
Alignment explanation
Indices: 276529--276701 Score: 260
Period size: 81 Copynumber: 2.1 Consensus size: 82
276519 CAGATTCGCA
* *
276529 TGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA-ATT-CGTTG
1 TGCGATAGTCGAAGTTCGCATTGCGATTCATTCCAAA-TCATTGCGATAGTCCAAGATTGCGTTG
*
276592 CGATTCATTCTAAATCGT
65 CGATTCATTCCAAATCGT
* * * *
276610 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCATTGCGATAGTCGAAGTTTGTGTTGC
1 TGCGATAGTCGAAGTTCGCATTGCGATTCATTCCAAATCATTGCGATAGTCCAAGATTGCGTTGC
276675 GATTCATTCCAAATCGT
66 GATTCATTCCAAATCGT
276692 TGCGATAGTC
1 TGCGATAGTC
276702 CAAATATTGC
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 15 0.18
81 37 0.45
82 31 0.37
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (82 bp):
TGCGATAGTCGAAGTTCGCATTGCGATTCATTCCAAATCATTGCGATAGTCCAAGATTGCGTTGC
GATTCATTCCAAATCGT
Found at i:276641 original size:41 final size:41
Alignment explanation
Indices: 276529--276701 Score: 251
Period size: 41 Copynumber: 4.2 Consensus size: 41
276519 CAGATTCGCA
* *
276529 TGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGT
* * *
276571 TGCGATAGTCCAAATT--CGTTGCGATTCATTCTAAATCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
*
276610 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCAT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
* *
276651 TGCGATAGTCGAAGTTTGTGTTGCGATTCATTCCAAATCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
276692 TGCGATAGTC
1 TGCGATAGTC
276702 CAAATATTGC
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 18 0.15
40 16 0.14
41 69 0.59
42 14 0.12
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
Found at i:277583 original size:19 final size:19
Alignment explanation
Indices: 277559--277622 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 19
277549 CAAATGCAAT
277559 ATTTGGACTATCGCAACGA
1 ATTTGGACTATCGCAACGA
*
277578 ATTTGGAATGAATCGCAACGCGA
1 ATTTGGACT--ATCGCAA--CGA
* * *
277601 ACTTCGCCTATCGCAACGA
1 ATTTGGACTATCGCAACGA
277620 ATT
1 ATT
277623 GGAATGAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 13 0.37
21 14 0.40
23 8 0.23
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (19 bp):
ATTTGGACTATCGCAACGA
Found at i:277635 original size:41 final size:41
Alignment explanation
Indices: 277566--277779 Score: 338
Period size: 41 Copynumber: 5.2 Consensus size: 41
277556 AATATTTGGA
277566 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
277608 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
* * *
277649 CTGTCGCAACGAATTGGAATGAATCGTAACGCGAACTTCGA
1 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
* *
277690 CTATCGCAACGATTTGGAATGAATTGCAACGCGAACTTCGC
1 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
* * *
277731 CTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGA
1 CTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
277773 CTATCGC
1 CTATCGC
277780 GTTGCGAATC
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 114 0.72
42 44 0.28
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
Found at i:278038 original size:2 final size:2
Alignment explanation
Indices: 278031--278055 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
278021 AATATAATCT
278031 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 T
278056 GAATCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:287897 original size:2 final size:2
Alignment explanation
Indices: 287892--287927 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
287882 TTTTTTAAAG
287892 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
287928 GTATTGTATA
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:302259 original size:2 final size:2
Alignment explanation
Indices: 302254--302310 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
302244 TTAGACACAA
302254 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
302296 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
302311 AAATATCTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:315944 original size:21 final size:21
Alignment explanation
Indices: 315914--315953 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
315904 AAAACTTCTC
315914 TTAACAAACTAATAACAACCT
1 TTAACAAACTAATAACAACCT
* *
315935 TTAACCAACTCATAACAAC
1 TTAACAAACTAATAACAAC
315954 TTAGTTAAAA
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:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TTAACAAACTAATAACAACCT
Found at i:317648 original size:35 final size:35
Alignment explanation
Indices: 317583--317652 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
317573 AACATCTACC
317583 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
*
317618 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
317653 TTGGTTGCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:322218 original size:21 final size:21
Alignment explanation
Indices: 322194--322254 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
322184 TTCAAAGAAA
322194 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
322215 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
322229 TATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
322250 CATTT
1 CATTT
322255 TCAAAGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
16 1 0.03
19 1 0.03
20 7 0.24
21 9 0.31
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:322221 original size:35 final size:35
Alignment explanation
Indices: 322146--322260 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
322136 ACTCATTCCT
* * **
322146 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAT
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
322180 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
*
322216 ATTTTCAAAGAAATATTTACCAAACTTTGAAAACC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
322251 ATTTTCAAAG
1 ATTTTCAAAG
322261 TTGGTTGTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 1 0.01
35 48 0.65
36 25 0.34
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.31
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:329463 original size:5 final size:5
Alignment explanation
Indices: 329453--329479 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
329443 AAATAAGAAT
329453 ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT
329480 GGTGGCTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:335924 original size:21 final size:22
Alignment explanation
Indices: 335900--335968 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 22
335890 CAAGACCAAC
*
335900 AATGATCTTG-AAAGTAAAATT
1 AATGATATTGAAAAGTAAAATT
* *
335921 AATGA-ATTGCAAA-TCAAAATC
1 AATGATATTGAAAAGT-AAAATT
*
335942 AATGATTTTGAAAAG-AAAATT
1 AATGATATTGAAAAGTAAAATT
*
335963 TATGAT
1 AATGAT
335969 TTGCATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.11
21 28 0.74
22 6 0.16
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (22 bp):
AATGATATTGAAAAGTAAAATT
Found at i:339707 original size:33 final size:33
Alignment explanation
Indices: 339661--339734 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
339651 AGGTATCGAT
*
339661 ACATCCTCGCTATGTATTGATACACTATGTGTA
1 ACATCCTCGCTATGTATCGATACACTATGTGTA
*
339694 ACATCCTCTCTATGTATCGATACACTATGTGTA
1 ACATCCTCGCTATGTATCGATACACTATGTGTA
339727 ACATCCTC
1 ACATCCTC
339735 AATACTAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (33 bp):
ACATCCTCGCTATGTATCGATACACTATGTGTA
Found at i:342012 original size:21 final size:21
Alignment explanation
Indices: 341983--342045 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
341973 TCATGAAAGT
341983 TACTGTAGCAGTGCATCGATG
1 TACTGTAGCAGTGCATCGATG
*
342004 TATTGTAGCAGTGCATCGATG
1 TACTGTAGCAGTGCATCGATG
342025 TACTGTAGCAGTGCATCGATG
1 TACTGTAGCAGTGCATCGATG
342046 CACAATTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (21 bp):
TACTGTAGCAGTGCATCGATG
Found at i:347949 original size:21 final size:21
Alignment explanation
Indices: 347923--348003 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
347913 CAGAACCCCA
*
347923 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
* *
347944 GGGGGGAATCGGTTCCCCTTT
1 GGGGGGAATCGATTCCCCTGT
* * *
347965 AAAGGGGGAATCGGTT-CCCTCAT
1 --GGGGGGAATCGATTCCCCT-GT
347988 GGGGGG-ATCGATTCCC
1 GGGGGGAATCGATTCCC
348004 TCTGCACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 6 0.12
21 25 0.51
22 4 0.08
23 14 0.29
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:347997 original size:20 final size:20
Alignment explanation
Indices: 347968--348005 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
347958 CCCCTTTAAA
*
347968 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
347988 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
348006 TGCACAAAAA
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:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:351827 original size:22 final size:21
Alignment explanation
Indices: 351785--351824 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
351775 GAGTTTGTTT
*
351785 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
351806 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
351825 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:354197 original size:13 final size:13
Alignment explanation
Indices: 354175--354208 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
354165 AGGGGAAGAA
*
354175 ATTTTCAAAATTG
1 ATTTTCAAAAATG
354188 A-TTTCAAAAATG
1 ATTTTCAAAAATG
354200 ATTTTCAAA
1 ATTTTCAAA
354209 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:366572 original size:15 final size:15
Alignment explanation
Indices: 366547--366584 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
366537 AGACCATGGA
*
366547 AGAAGAGGTGGA-GT
1 AGAAGAAGTGGAGGT
366561 ATGAAGAAGTGGAGGT
1 A-GAAGAAGTGGAGGT
366577 AGAAGAAG
1 AGAAGAAG
366585 AAGAGGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.81
16 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.45, T:0.13
Consensus pattern (15 bp):
AGAAGAAGTGGAGGT
Found at i:366584 original size:18 final size:18
Alignment explanation
Indices: 366563--366623 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
366553 GGTGGAGTAT
*
366563 GAAGAAGTGGAGGTAGAA
1 GAAGAAGTGGAAGTAGAA
* *
366581 GAAGAAGAGGAAATAGAA
1 GAAGAAGTGGAAGTAGAA
* * *
366599 GAGGAGGTGGAAGAAGAA
1 GAAGAAGTGGAAGTAGAA
366617 GAAGAAG
1 GAAGAAG
366624 ATCAGGATGT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.07
Consensus pattern (18 bp):
GAAGAAGTGGAAGTAGAA
Found at i:366590 original size:15 final size:15
Alignment explanation
Indices: 366572--366618 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
366562 TGAAGAAGTG
366572 GAGGTAGAAGAAGAA
1 GAGGTAGAAGAAGAA
* *
366587 GAGG-AAATAGAAGAG
1 GAGGTAGA-AGAAGAA
*
366602 GAGGTGGAAGAAGAA
1 GAGGTAGAAGAAGAA
366617 GA
1 GA
366619 AGAAGATCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.88
16 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.06
Consensus pattern (15 bp):
GAGGTAGAAGAAGAA
Found at i:373648 original size:109 final size:111
Alignment explanation
Indices: 373445--373673 Score: 356
Period size: 109 Copynumber: 2.0 Consensus size: 111
373435 TTAGATTAAC
* *
373445 CTTTTGCCTTCAATTCCCATATGTTGAATGTCTTACTTTGATCAGGGAATATAATTTATTATGTA
1 CTTTTGCCTTCAATTCCCACATGTTGAATGTCTTACTTT-AT---GGAATATAATTTATGATGTA
373510 ATGGACTGCATGTTTTGACCTTTGTGGTGCCAGTCAAGATGTAACAGAATG
62 ATGGACTGCATGTTTTGACCTTTGTGGTG-CAGTCAAGATGTAACAGAATG
* *
373561 CTTTTGCCTTCAATTCCCACATGTTGAATGTCTTAC-TT-T-GAATGTAGTTTATGATGTAATGG
1 CTTTTGCCTTCAATTCCCACATGTTGAATGTCTTACTTTATGGAATATAATTTATGATGTAATGG
373623 ACTGCATGTTTTGACCTTTGTGGTGCAGTCAAGATGTAACAGAATG
66 ACTGCATGTTTTGACCTTTGTGGTGCAGTCAAGATGTAACAGAATG
373669 CTTTT
1 CTTTT
373674 AATCTCTTTA
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
108 26 0.24
109 45 0.41
113 1 0.01
115 2 0.02
116 35 0.32
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (111 bp):
CTTTTGCCTTCAATTCCCACATGTTGAATGTCTTACTTTATGGAATATAATTTATGATGTAATGG
ACTGCATGTTTTGACCTTTGTGGTGCAGTCAAGATGTAACAGAATG
Found at i:377338 original size:16 final size:16
Alignment explanation
Indices: 377317--377363 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
377307 TTACCCGACC
*
377317 TGTTTTCAACCTGACG
1 TGTTTTCAACCTGACA
377333 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACA
*
377349 TGTTTTTAACCTGAC
1 TGTTTTCAACCTGAC
377364 CTGTAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:377647 original size:23 final size:24
Alignment explanation
Indices: 377613--377658 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
377603 ATGCAAAGAA
377613 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
377637 AAATT-ATATAGTTTAATTTATA
1 AAATTAATATAGTTTAATTTATA
377659 CAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:377839 original size:7 final size:7
Alignment explanation
Indices: 377827--377895 Score: 93
Period size: 7 Copynumber: 9.9 Consensus size: 7
377817 TTTACATTAT
377827 GGTTTAG
1 GGTTTAG
377834 GGTTTAG
1 GGTTTAG
*
377841 TGTTTAG
1 GGTTTAG
*
377848 TGTTTAG
1 GGTTTAG
*
377855 GGTTTAA
1 GGTTTAG
*
377862 AGTTTAG
1 GGTTTAG
*
377869 TGTTTAG
1 GGTTTAG
377876 GGTTTAG
1 GGTTTAG
377883 GGTTTAG
1 GGTTTAG
377890 GGTTTA
1 GGTTTA
377896 TGATTTCTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:378529 original size:7 final size:7
Alignment explanation
Indices: 378519--378564 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
378509 GGGATTTATA
378519 GTTTAGG
1 GTTTAGG
378526 GTTTAGG
1 GTTTAGG
378533 GTTTAGG
1 GTTTAGG
*
378540 GTTTATG
1 GTTTAGG
*
378547 ATTTAGG
1 GTTTAGG
378554 GTTTAGG
1 GTTTAGG
378561 GTTT
1 GTTT
378565 CTATAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:379003 original size:7 final size:7
Alignment explanation
Indices: 378981--379038 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
378971 TCTATTTATA
378981 TTAGGGT
1 TTAGGGT
**
378988 TTATAGT
1 TTAGGGT
*
378995 TTAGTGT
1 TTAGGGT
379002 TTAGGGT
1 TTAGGGT
**
379009 TTAAAGT
1 TTAGGGT
379016 TTAGGGT
1 TTAGGGT
379023 TTAGGGT
1 TTAGGGT
379030 TTAGGGT
1 TTAGGGT
379037 TT
1 TT
379039 CTATAAACCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:379038 original size:21 final size:21
Alignment explanation
Indices: 378981--379032 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
378971 TCTATTTATA
* *
378981 TTAGGGTTTATAGTTTAGTGT
1 TTAGGGTTTAAAGTTTAGGGT
379002 TTAGGGTTTAAAGTTTAGGGT
1 TTAGGGTTTAAAGTTTAGGGT
379023 TTAGGGTTTA
1 TTAGGGTTTA
379033 GGGTTTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTAAAGTTTAGGGT
Found at i:379128 original size:2 final size:2
Alignment explanation
Indices: 379123--379193 Score: 81
Period size: 2 Copynumber: 35.0 Consensus size: 2
379113 TTATATAGTT
*
379123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
379164 TA TA TG TA TA TG TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
379194 CATGATTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
1 1 0.02
2 55 0.93
3 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:379468 original size:260 final size:260
Alignment explanation
Indices: 378981--379471 Score: 568
Period size: 260 Copynumber: 1.9 Consensus size: 260
378971 TCTATTTATA
* * * * *
378981 TTAGGGTTTATAGTTTAGTGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTAGGGTTTCTATAAA
1 TTAGGGTTTATAGTTAAATGTTTAGGGTTCAAAGTTTAGGATTTAAGGTTTAGGGTTTCTATAAA
*
379046 CCTATATACTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAAATATATAAATAATTTA
66 CCTATATACTTTATTACTTTATATAGTTTATGCATAGTATTTCTATAAAATATATAAATAATTTA
* * * * ** **
379111 CTTTATATAGTTTATATATATATATATATATATATATATATATATATATGTTATATATGTATATG
131 CATTATATAG-TTATATATACATACATATATACATATATATATATATAAATTATATATGTATAAC
* **
379176 TAGTTTATATATACTATACATGATTTATACATACATGTACTATAAGTTACATATATAGTTTAGAG
195 TAGTATATATATACTATACATGATACATACATACATGTACTATAAGTTACATATATAGTTTAGAG
379241 G
260 G
* * *
379242 TTAGGGTTTATGGTTAAATGTTTAGGGTTC-ATGATTTAGGATTTAAGGTTTAGGGTTTTTATAA
1 TTAGGGTTTATAGTTAAATGTTTAGGGTTCAAAG-TTTAGGATTTAAGGTTTAGGGTTTCTATAA
* *
379306 A-CTATATATTTTATTACTTTATATAGTTTATGCATAGTATTTCTATATAATATATATATATAAT
65 ACCTATATACTTTATTACTTTATATAGTTTATGCATAGTATTTCTATA-AA-ATATATAAATAAT
* *
379370 CTATAGATTACTTATA-TTATTTATACATACATATATACACTATAT-TA-ATATAAATTATA-AT
128 -T-TACATTA--TATAGTTATATATACATACATATATACA-TATATATATATATAAATTATATAT
* * ** *
379431 TTATAAACTA-TATAT-TTTA-TATAGTTTATACATACATACAT
188 GTAT-AACTAGTATATATATACTATACATGATACATACATACAT
379472 ACACACACAC
Statistics
Matches: 192, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
260 63 0.33
261 59 0.31
262 21 0.11
263 14 0.07
264 26 0.14
265 5 0.03
266 4 0.02
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (260 bp):
TTAGGGTTTATAGTTAAATGTTTAGGGTTCAAAGTTTAGGATTTAAGGTTTAGGGTTTCTATAAA
CCTATATACTTTATTACTTTATATAGTTTATGCATAGTATTTCTATAAAATATATAAATAATTTA
CATTATATAGTTATATATACATACATATATACATATATATATATATAAATTATATATGTATAACT
AGTATATATATACTATACATGATACATACATACATGTACTATAAGTTACATATATAGTTTAGAGG
Done.