Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 87 of 290
Found at i:26563279 original size:19 final size:19
Alignment explanation
Indices: 26563253--26563339 Score: 62
Period size: 18 Copynumber: 4.8 Consensus size: 19
26563243 TTAAAATAAA
26563253 ATTA-ATATATTAAATTAT
1 ATTATATATATTAAATTAT
* *
26563271 ATTATATATATT-TACT-T
1 ATTATATATATTAAATTAT
* *
26563288 ATTATTTA-AGT-AATTATT
1 ATTATATATATTAAATTA-T
*
26563306 ATTATAT-TATTATATTAT
1 ATTATATATATTAAATTAT
26563324 ATTAGTATA-ATTAAAT
1 ATTA-TATATATTAAAT
26563340 AAATGAATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
16 4 0.08
17 8 0.15
18 20 0.38
19 20 0.38
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTATATATATTAAATTAT
Found at i:26563390 original size:12 final size:12
Alignment explanation
Indices: 26563335--26563390 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
26563325 TTAGTATAAT
26563335 TAAATAAATG-AA
1 TAAA-AAATGAAA
26563347 TAAAAAAT-AAA
1 TAAAAAATGAAA
26563358 TAAAGAAATGAGAA
1 TAAA-AAATGA-AA
*
26563372 TAGAAAATGAAA
1 TAAAAAATGAAA
26563384 TAGAAAA
1 TA-AAAA
26563391 GACTAGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 10 0.27
12 12 0.32
13 10 0.27
14 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (12 bp):
TAAAAAATGAAA
Found at i:26563429 original size:13 final size:13
Alignment explanation
Indices: 26563411--26563457 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
26563401 GAAAACGAAT
26563411 AGGAGAGAAAAAA
1 AGGAGAGAAAAAA
*
26563424 AGGAGAAAAGAAAA
1 AGGAGAGAA-AAAA
*
26563438 AGAGAAAGAAAAAA
1 AG-GAGAGAAAAAA
26563452 AGGAGA
1 AGGAGA
26563458 AATTTAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.39
14 12 0.43
15 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AGGAGAGAAAAAA
Found at i:26563452 original size:15 final size:15
Alignment explanation
Indices: 26563416--26563459 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
26563406 CGAATAGGAG
26563416 AGAAAAAAAGGAGAA
1 AGAAAAAAAGGAGAA
*
26563431 A-AGAAAAA-GAGAA
1 AGAAAAAAAGGAGAA
26563444 AGAAAAAAAGGAGAA
1 AGAAAAAAAGGAGAA
26563459 A
1 A
26563460 TTTAAGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
14 12 0.48
15 7 0.28
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGGAGAA
Found at i:26565025 original size:126 final size:126
Alignment explanation
Indices: 26564865--26565103 Score: 383
Period size: 126 Copynumber: 1.9 Consensus size: 126
26564855 TAGCTTTAAG
*
26564865 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATCCTTT
1 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACATTAGGGCACGATCCTTT
* *
26564930 GAATTCTTTAAATATCGAACATTACCTTTATTTTGAAAAA-ATTTGAGAGTGAACCGGTAAA
66 GAATTCTTTAAATATCGAACATTACCATTATTTT-AAAAACAATTGAGAGTGAACCGGTAAA
* *
26564991 AGGATATTCTG-ATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTT
1 AGGATATTC-GAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACATTAGGGCACGATCCTT
* *
26565055 TGAATTCTTTAAATATTGAACATTGCCATTATTTTAAAAACAATTGAGA
65 TGAATTCTTTAAATATCGAACATTACCATTATTTTAAAAACAATTGAGA
26565104 ATAAATCTGT
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
125 5 0.05
126 98 0.94
127 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (126 bp):
AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACATTAGGGCACGATCCTTT
GAATTCTTTAAATATCGAACATTACCATTATTTTAAAAACAATTGAGAGTGAACCGGTAAA
Found at i:26565746 original size:20 final size:21
Alignment explanation
Indices: 26565721--26565811 Score: 62
Period size: 21 Copynumber: 4.3 Consensus size: 21
26565711 ACGAACTATT
*
26565721 ATAATAGTAG-AATATAATAA
1 ATAATAGTAGTAATAAAATAA
*
26565741 ATAATATTAGTAATAAAATAA
1 ATAATAGTAGTAATAAAATAA
* ** *
26565762 TATTAACTATTAACAATAAAGTATA
1 -A-TAA-TAGTAGTAATAAAATA-A
*
26565787 ATAA-AATAGTAATAAAA-AA
1 ATAATAGTAGTAATAAAATAA
26565806 ATAATA
1 ATAATA
26565812 CTAAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
19 5 0.09
20 11 0.20
21 18 0.32
22 1 0.02
23 6 0.11
24 14 0.25
25 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATAATAGTAGTAATAAAATAA
Found at i:26565754 original size:16 final size:17
Alignment explanation
Indices: 26565735--26565766 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26565725 TAGTAGAATA
26565735 TAAT-AAATAATATTAG
1 TAATAAAATAATATTAG
26565751 TAATAAAATAATATTA
1 TAATAAAATAATATTA
26565767 ACTATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAAAATAATATTAG
Found at i:26566874 original size:17 final size:15
Alignment explanation
Indices: 26566841--26566876 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
26566831 TAGGTTTAGG
26566841 TGGGTTTTGGGGTAT
1 TGGGTTTTGGGGTAT
26566856 TGGGTTATTGGGTGTAT
1 TGGGTT-TTGGG-GTAT
26566873 TGGG
1 TGGG
26566877 CTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
TGGGTTTTGGGGTAT
Found at i:26568767 original size:27 final size:28
Alignment explanation
Indices: 26568728--26568804 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 28
26568718 CACGGAGCCT
*
26568728 GCCACAAATGCTTA-TCTTTCATAGTTC
1 GCCACAAAGGCTTATTCTTTCATAGTTC
* *
26568755 GCCACAAAGGCTTATTTTTTTCGTAGTTC
1 GCCACAAAGGCTTA-TTCTTTCATAGTTC
26568784 GCCACAAAGGCTTATTCTTTC
1 GCCACAAAGGCTTATTCTTTC
26568805 CTAACATGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 13 0.30
28 6 0.14
29 25 0.57
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (28 bp):
GCCACAAAGGCTTATTCTTTCATAGTTC
Found at i:26571114 original size:20 final size:20
Alignment explanation
Indices: 26571089--26571142 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
26571079 AGGGGCACAC
26571089 GCCCGTGTGGCCT-GAGACAA
1 GCCCGTGTGGCCTGGA-ACAA
* *
26571109 GCCCGTGTGACCTGGAACAT
1 GCCCGTGTGGCCTGGAACAA
*
26571129 GCCCATGTGGCCTG
1 GCCCGTGTGGCCTG
26571143 CCCGTGGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAA
Found at i:26573090 original size:5 final size:5
Alignment explanation
Indices: 26573080--26573106 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26573070 AATTGCTCCT
26573080 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
26573107 CTTTCTTTCC
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:26575375 original size:27 final size:28
Alignment explanation
Indices: 26575324--26575376 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
26575314 TCTCTATATA
26575324 TTTAAAATTTAATGTCTCATTTTTTATT
1 TTTAAAATTTAATGTCTCATTTTTTATT
*
26575352 TTTAAGAATTT-A-GTCTCTTTTTTTA
1 TTTAA-AATTTAATGTCTCATTTTTTA
26575377 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 12 0.52
28 6 0.26
29 5 0.22
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTAATGTCTCATTTTTTATT
Found at i:26576861 original size:3 final size:3
Alignment explanation
Indices: 26576855--26576880 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26576845 AATAATAATA
26576855 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
26576881 AAAAGGCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:26577182 original size:10 final size:11
Alignment explanation
Indices: 26577166--26577209 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
26577156 CCTTTTCTAG
26577166 AATTTTTATAA
1 AATTTTTATAA
*
26577177 GATTTTTATAA
1 AATTTTTATAA
*
26577188 AATTTTTATAG
1 AATTTTTATAA
*
26577199 AATTTTAATAA
1 AATTTTTATAA
26577210 TTACTAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (11 bp):
AATTTTTATAA
Found at i:26577437 original size:21 final size:21
Alignment explanation
Indices: 26577411--26577453 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26577401 GTCAACACAC
26577411 TTGTCTACATGGCATGTCATG
1 TTGTCTACATGGCATGTCATG
*
26577432 TTGTCTACCTGGCATGTCATG
1 TTGTCTACATGGCATGTCATG
26577453 T
1 T
26577454 GTCAGCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (21 bp):
TTGTCTACATGGCATGTCATG
Found at i:26577951 original size:18 final size:18
Alignment explanation
Indices: 26577920--26577954 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26577910 CTATTGAATT
* *
26577920 AATTTTAATTTATATTAG
1 AATTTAAATGTATATTAG
26577938 AATTTAAATGTATATTA
1 AATTTAAATGTATATTA
26577955 AATGTTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTTAAATGTATATTAG
Found at i:26583482 original size:7 final size:7
Alignment explanation
Indices: 26583470--26583501 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
26583460 AAATTTATCA
26583470 TTCCAAT
1 TTCCAAT
26583477 TTCCAAT
1 TTCCAAT
26583484 TTCCAAT
1 TTCCAAT
26583491 TTCCAAT
1 TTCCAAT
26583498 TTCC
1 TTCC
26583502 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCCAAT
Found at i:26587024 original size:31 final size:30
Alignment explanation
Indices: 26586986--26587082 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
26586976 AATGGCTTAA
*
26586986 TGACTAAAATGTTACAACATGAT-AACGTAAG
1 TGACTAAAATGTT--AACATGATAAACATAAG
**
26587017 TGACTAAAATG-TAACATTTTAAACATAAG
1 TGACTAAAATGTTAACATGATAAACATAAG
*
26587046 TGACTAAAATG-TAAC-TCGAAGTAAACAAAAG
1 TGACTAAAATGTTAACAT-G-A-TAAACATAAG
26587077 TGACTA
1 TGACTA
26587083 TTTTAGTTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 7 0.12
29 22 0.39
30 1 0.02
31 26 0.46
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (30 bp):
TGACTAAAATGTTAACATGATAAACATAAG
Found at i:26587960 original size:8 final size:8
Alignment explanation
Indices: 26587947--26588007 Score: 61
Period size: 8 Copynumber: 7.5 Consensus size: 8
26587937 TAATATTATT
26587947 TTTAAAAA
1 TTTAAAAA
26587955 TTTAAAAA
1 TTTAAAAA
*
26587963 GTT-AAAA
1 TTTAAAAA
*
26587970 TTTTAAAA
1 TTTAAAAA
*
26587978 TATAAAAAA
1 T-TTAAAAA
*
26587987 TTCAAAAA
1 TTTAAAAA
26587995 TTATAAAAA
1 TT-TAAAAA
26588004 TTTA
1 TTTA
26588008 TATATTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 6 0.14
8 25 0.57
9 13 0.30
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (8 bp):
TTTAAAAA
Found at i:26596485 original size:27 final size:27
Alignment explanation
Indices: 26596464--26596543 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
26596454 ATGCTGATTG
26596464 CCAGGCTGGTGTTCAAATTGCTGCTGA
1 CCAGGCTGGTGTTCAAATTGCTGCTGA
* * *
26596491 CTAGGCTGGTGTTCGAATTGCTGCTGG
1 CCAGGCTGGTGTTCAAATTGCTGCTGA
** * * *
26596518 GTAGGCCGGTGATCGAATTGCTGCTG
1 CCAGGCTGGTGTTCAAATTGCTGCTG
26596544 GTTAGGCCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (27 bp):
CCAGGCTGGTGTTCAAATTGCTGCTGA
Found at i:26596544 original size:27 final size:27
Alignment explanation
Indices: 26596479--26596711 Score: 259
Period size: 27 Copynumber: 8.6 Consensus size: 27
26596469 CTGGTGTTCA
** * *
26596479 AATTGCTGCTGACTAGGCTGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
26596506 AATTGCTGCTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
26596533 AATTGCTGCTGGTTAGGCCGGTGCTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * * *
26596560 TATGGCTGTTGGTTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * * *
26596587 AATGGCTGTTGGTTAGGCCGTTGATCA
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
26596614 AATTGCTGTTGGGTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
26596641 AATGGCTGTTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
** *
26596668 AATTGCTGCTGGGCCGGCAGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
26596695 AATTGCTGCTGGGTAGG
1 AATTGCTGCTGGGTAGG
26596712 GCAATAGTCG
Statistics
Matches: 178, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 178 1.00
ACGTcount: A:0.14, C:0.17, G:0.39, T:0.30
Consensus pattern (27 bp):
AATTGCTGCTGGGTAGGCCGGTGATCG
Found at i:26596724 original size:81 final size:81
Alignment explanation
Indices: 26596492--26596711 Score: 305
Period size: 81 Copynumber: 2.7 Consensus size: 81
26596482 TGCTGCTGAC
* *
26596492 TAGGCTGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGTTAGGCCGGTGC
1 TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGC
* *
26596557 TCGTATGGCTGTTGGT
66 TCGAATGGCTGTTGGG
* * * * * * *
26596573 TAGGCCGGTGTTCGAATGGCTGTTGGTTAGGCCGTTGATCAAATTGCTGTTGGGTAGGCCGGTGT
1 TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGC
26596638 TCGAATGGCTGTTGGG
66 TCGAATGGCTGTTGGG
* ** *
26596654 TAGGCCGGTGATCGAATTGCTGCTGGGCCGGCAGGTGATCGAATTGCTGCTGGGTAGG
1 TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGG
26596712 GCAATAGTCG
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 118 1.00
ACGTcount: A:0.13, C:0.17, G:0.40, T:0.30
Consensus pattern (81 bp):
TAGGCCGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGC
TCGAATGGCTGTTGGG
Found at i:26601169 original size:9 final size:9
Alignment explanation
Indices: 26601157--26601189 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
26601147 GAATTATTCG
26601157 AATCGAGTT
1 AATCGAGTT
26601166 AATCGAGTT
1 AATCGAGTT
*
26601175 AATCGAATT
1 AATCGAGTT
26601184 AATCGA
1 AATCGA
26601190 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:26601190 original size:9 final size:9
Alignment explanation
Indices: 26601157--26601202 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
26601147 GAATTATTCG
*
26601157 AATCGAGTT
1 AATCGAATT
*
26601166 AATCGAGTT
1 AATCGAATT
26601175 AATCGAATT
1 AATCGAATT
*
26601184 AATCGAATC
1 AATCGAATT
26601193 AACTCGAATT
1 AA-TCGAATT
26601203 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:26602007 original size:5 final size:5
Alignment explanation
Indices: 26601997--26602027 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
26601987 CTCAAAAATT
*
26601997 TTCGA TTCGA TTCGA TTCGA TTTGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
26602028 CGAATACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:26602264 original size:33 final size:33
Alignment explanation
Indices: 26602227--26602289 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
26602217 CTTTTACCTT
*
26602227 TTCAACATCACCCTCCCTAGCAGTTTCTACACC
1 TTCAACATCACCCTCCCTAGCAGCTTCTACACC
* *
26602260 TTCAACATCACCTTCCCTAGTAGCTTCTAC
1 TTCAACATCACCCTCCCTAGCAGCTTCTAC
26602290 GCCCTCCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.24, C:0.40, G:0.06, T:0.30
Consensus pattern (33 bp):
TTCAACATCACCCTCCCTAGCAGCTTCTACACC
Found at i:26602296 original size:54 final size:53
Alignment explanation
Indices: 26602237--26602386 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 53
26602227 TTCAACATCA
*
26602237 CCCTCCCTAGCAGTTTCTACACC-TTCAACATCACCTTCCCTAGTAGCTTCTACG
1 CCCTCCCTAGCAGTTTCTAC-CCATTCAACATCACC-TCCCTAGTAGCTTCTACC
* ** * * * * * *
26602291 CCCTCCCTAGTAACTTCTACCCTTTCAAAAACACCCTCCTTAGTAGTTTGTACC
1 CCCTCCCTAGCAGTTTCTACCCATTCAACATCA-CCTCCCTAGTAGCTTCTACC
* *
26602345 CCCTCCCCATCAGTTTCTACCCATTCAACATCACACTCCCTA
1 CCCTCCCTAGCAGTTTCTACCCATTCAACATCAC-CTCCCTA
26602387 TCAATTTCTT
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 3 0.04
54 70 0.93
55 2 0.03
ACGTcount: A:0.23, C:0.41, G:0.07, T:0.29
Consensus pattern (53 bp):
CCCTCCCTAGCAGTTTCTACCCATTCAACATCACCTCCCTAGTAGCTTCTACC
Found at i:26604496 original size:20 final size:21
Alignment explanation
Indices: 26604471--26604510 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26604461 TTAATTAACG
26604471 TTAATTAA-TTAACTTAATCT
1 TTAATTAATTTAACTTAATCT
*
26604491 TTAATTAATTTACCTTAATC
1 TTAATTAATTTAACTTAATC
26604511 ATCATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTAATTTAACTTAATCT
Found at i:26605825 original size:175 final size:175
Alignment explanation
Indices: 26605534--26605883 Score: 691
Period size: 175 Copynumber: 2.0 Consensus size: 175
26605524 TTTGCTTTAA
26605534 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
1 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
26605599 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
66 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
26605664 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
131 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
*
26605709 AACTGACATCAATATAATAAATCAAGTTAGAACAATGAGAAACAACAATCAATACCTTTTAAATT
1 AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
26605774 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
66 CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
26605839 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
131 CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
26605884 TAGGAACTCA
Statistics
Matches: 174, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 174 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (175 bp):
AACTGACATCAATATAATAAATCAAGTTAGAACAATAAGAAACAACAATCAATACCTTTTAAATT
CAACAAAAACATGCAATGCAATCAAGCAATGCGTTTTTCTACTTCAATGCCTGCTTTTGAGAACT
CAATCGAACCTTACTAAGAATTAAATCTAACATTGGTTTCATATT
Found at i:26619149 original size:268 final size:266
Alignment explanation
Indices: 26618523--26619188 Score: 749
Period size: 268 Copynumber: 2.5 Consensus size: 266
26618513 TAGAAGGTCG
* * * * * *
26618523 TGATCGTAAATCAGGGAATTGTTTAATTGGAGTTGTGATTGTAAATTGACGAACTGTTTAAGAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTT-TGATCGTAAATTGACGAACTATTT-AGAAA
* * * *
26618588 TGATCATGATCATAAATCGATGAACTAAAGCTGTGATCGTAAATCAGTGAGCTTTAAAAATTACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
* * * *
26618653 GTTGTGATCATAAATAAGCTTACTGTTTAGGTGAAGTCACGACCGTAAATCGATGAACTCTTTTT
129 GTTGTGATCATAAATAAGCTAACTGTTTAAGTGAAGTCACAACCGTAAATCGATGAACTCTTTAT
** * * * **
26618718 GAAGTGTTTGTGATCATAAATCAATGAACCGAAACTGTTATTATAAATCAACGAGCTTTAAAAAT
194 GAAGTGTTCATGATCATAAATCAATGAACCAAAACCGTAAACATAAATCAACGAGCTTTAAAAAT
*
26618783 AACAGTCG
259 AACAGTCA
* *** * * *
26618791 TGATCGTAAATCAGCTAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTATTTAAAAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGT-TTGATCGTAAATTGACGAACTATTTAGAAA-
* * * * * *
26618856 TGATCATGATCGTAAGTGGATGAACTGAAGCTATAATTGTAAATCAACGAGCTTTAAAAATGACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
* * * *
26618921 GTTGTGATCATAAATTAG-TGAACTGTTTAAGTGGAGTCACAATCGTAAATCGGTGAACTCTTTA
129 GTTGTGATCATAAATAAGCT-AACTGTTTAAGTGAAGTCACAACCGTAAATCGATGAACTCTTTA
* * * * * *
26618985 TGAAGTGTTCATGATCGTAAATTAATGAACTAAAACCGTAAACGTAAATCAGCGAGTTTTAAAAA
193 TGAAGTGTTCATGATCATAAATCAATGAACCAAAACCGTAAACATAAATCAACGAGCTTTAAAAA
**
26619050 TGGCAGTCA
258 TAACAGTCA
* * * *
26619059 TGATCGTAAATCAGCGAACTGTTTAAGTGGGGTGTTGGTCGTTAATTGACGAACTCTTTACGAAA
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGT-TTGATCGTAAATTGACGAACTATTTA-GAAA
* * ** * *
26619124 TGGTCATAATCATAAATTAATGAACTGAAGCTGTGATTGTAAATTAGCAAGCTTTAAAAATGACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
26619189 ATCATGATTG
Statistics
Matches: 324, Mismatches: 70, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
267 4 0.01
268 317 0.98
269 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (266 bp):
TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTTTGATCGTAAATTGACGAACTATTTAGAAATG
ATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
TGTGATCATAAATAAGCTAACTGTTTAAGTGAAGTCACAACCGTAAATCGATGAACTCTTTATGA
AGTGTTCATGATCATAAATCAATGAACCAAAACCGTAAACATAAATCAACGAGCTTTAAAAATAA
CAGTCA
Found at i:26619185 original size:134 final size:133
Alignment explanation
Indices: 26618523--26619215 Score: 569
Period size: 134 Copynumber: 5.2 Consensus size: 133
26618513 TAGAAGGTCG
* * * **** * * * * *
26618523 TGATCGTAAATCAGGGAATTGTTTAATTGGAGTTGTGATTGTAAATTGACGAACTGTTTAAGAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTCTTT-AGAAA
** * * ** *
26618588 TGATCATGATCATAAATCGATGAACT-AAAGCTGTGATCGTAAATCAGTGAGCTTTAAAAATTAC
65 TGATCATGATCATAAATTAATGAACTGAAA-CTGTAATTGTAAATCAACGAGCTTTAAAAATGAC
**
26618652 AGTTG
129 AGTCA
* * ** * * * * * *
26618657 TGATCATAAATAAGCTTACTGTTTAGGTGAAGTCACGACCGTAAATCGATGAACTCTTTTTGAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTC-TTTAGAAA
* ** * * * * *
26618722 TGTTTGTGATCATAAATCAATGAACCGAAACTGTTATTATAAATCAACGAGCTTTAAAAATAACA
65 TGATCATGATCATAAATTAATGAACTGAAACTGTAATTGTAAATCAACGAGCTTTAAAAATGACA
*
26618787 GTCG
130 GTCA
* * *
26618791 TGATCGTAAATCAGCTAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTATTTAAAAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTCTTTAGAAA-
* * ** * *
26618856 TGATCATGATCGTAAGTGGATGAACTGAAGCTATAATTGTAAATCAACGAGCTTTAAAAATGACA
65 TGATCATGATCATAAATTAATGAACTGAAACTGTAATTGTAAATCAACGAGCTTTAAAAATGACA
**
26618921 GTTG
130 GTCA
* * * * *
26618925 TGATCATAAATTAGTGAACTGTTTAAGTGGAGTCACAATCGTAAATCGGTGAACTCTTTATGAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTCTTTA-GAAA
* * * * ** * * *
26618990 TGTTCATGATCGTAAATTAATGAACTAAAACCGTAAACGTAAATCAGCGAGTTTTAAAAATGGCA
65 TGATCATGATCATAAATTAATGAACTGAAACTGTAATTGTAAATCAACGAGCTTTAAAAATGACA
26619055 GTCA
130 GTCA
* ***** * * *
26619059 TGATCGTAAATCAGCGAACTGTTTAAGTGGGGTGTTGGTCGTTAATTGACGAACTCTTTACGAAA
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTCTTTA-GAAA
* * * * * * *
26619124 TGGTCATAATCATAAATTAATGAACTGAAGCTGTGATTGTAAATTAGCAAGCTTTAAAAATGACA
65 TGATCATGATCATAAATTAATGAACTGAAACTGTAATTGTAAATCAACGAGCTTTAAAAATGACA
*
26619189 ATCA
130 GTCA
* *
26619193 TGATTGTAAATCAACGAACTGTT
1 TGATCGTAAATCAGCGAACTGTT
26619216 AGAAAATCGA
Statistics
Matches: 446, Mismatches: 109, Indels: 8
0.79 0.19 0.01
Matches are distributed among these distances:
133 5 0.01
134 433 0.97
135 8 0.02
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (133 bp):
TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTCTTTAGAAAT
GATCATGATCATAAATTAATGAACTGAAACTGTAATTGTAAATCAACGAGCTTTAAAAATGACAG
TCA
Found at i:26622694 original size:30 final size:30
Alignment explanation
Indices: 26622658--26622717 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
26622648 TAGCAAAAAA
26622658 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
*
26622688 CTCTTAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
26622718 TTCTCTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (30 bp):
CTCTTAAATTTCTCCCTAAATTTCTCAAAG
Found at i:26623142 original size:4 final size:4
Alignment explanation
Indices: 26623121--26623164 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
26623111 GAGTTTACGA
* * *
26623121 ATTT TTTT ATTT -TTT ATTT ATTT GTTT ATTT ATTT ATTT TTTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
26623165 GGAAAACTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (4 bp):
ATTT
Found at i:26623243 original size:14 final size:14
Alignment explanation
Indices: 26623224--26623253 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26623214 TTATATCGAG
26623224 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
26623238 ACCAATCCAATTCA
1 ACCAATCCAAATCA
26623252 AC
1 AC
26623254 ATATTTTCAA
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:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:26629350 original size:98 final size:97
Alignment explanation
Indices: 26629235--26629424 Score: 238
Period size: 98 Copynumber: 1.9 Consensus size: 97
26629225 GGAAGTACTA
* * * * ** * **
26629235 TAGAAAAAGAGCGTCCACGTGGGAGC-TTTCTTCATCAATTTTGTTGACAGTACATCTTGCTTGA
1 TAGAAAAAGAACATCCACATGAGAGCATTT-TTCATCAATTTTACTGACAGTACATCCTAATTGA
*
26629299 AGCATTTTTAACACTATTTTTTCAAGAACTATTG
65 AGCATTTTTAACACTATTTGTTC-AGAACTATTG
*
26629333 TAGAAAAAGAACATCCACATGAGAGCATTTTTCATCAATTTTACTGACAGTGCATCCTAATTGAA
1 TAGAAAAAGAACATCCACATGAGAGCATTTTTCATCAATTTTACTGACAGTACATCCTAATTGAA
**
26629398 GTGTTTTTAACACTATTTGTTCAGAAC
66 GCATTTTTAACACTATTTGTTCAGAAC
26629425 CGTCTTTTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
97 5 0.06
98 70 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (97 bp):
TAGAAAAAGAACATCCACATGAGAGCATTTTTCATCAATTTTACTGACAGTACATCCTAATTGAA
GCATTTTTAACACTATTTGTTCAGAACTATTG
Found at i:26629592 original size:126 final size:126
Alignment explanation
Indices: 26629316--26629591 Score: 367
Period size: 126 Copynumber: 2.2 Consensus size: 126
26629306 TTAACACTAT
* *
26629316 TTTTTCAAGAACTATTGTAGAAAAAGAACATCCACATGAGAGCATTTTTCATCAATTTTACTGAC
1 TTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGAGAACATTTTTCATCAATTTTACTGAC
* * * *
26629381 AGTGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAACCGTCTTTTCAAATTTAT
66 AATGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAATTAG
* * * * * * *
26629442 TTTTTCAAGACCTACTGTAGAAAAAGAGCATCCACGTGGGAACTTTTTTTAGT-AATTTTGCTGA
1 TTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGAGAACATTTTTCA-TCAATTTTACTGA
** * * *
26629506 CAATGCATCCTGCTTGAAGT-TTTTTGACATTATTTGTTCAGAATCGTCTTCTCAAAATTAG
65 CAATGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAATTAG
26629567 TTTTTCAAGAACTACTGTAGAAAAA
1 TTTTTCAAGAACTACTGTAGAAAAA
26629592 AACCAAAGTC
Statistics
Matches: 130, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
125 59 0.45
126 70 0.54
127 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (126 bp):
TTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGAGAACATTTTTCATCAATTTTACTGAC
AATGCATCCTAATTGAAGTGTTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAATTAG
Found at i:26629708 original size:34 final size:33
Alignment explanation
Indices: 26629664--26629760 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 33
26629654 TTAAAAAAAC
*
26629664 TAAACCCAAATTTAATTAATTTTCTTAAAAAT-AA
1 TAAAACCAAATTTAATTAATTTT-TT-AAAATCAA
* * * *
26629698 TAAAATCAAATTTTATTTATTTATTTAAAATCCA
1 TAAAACCAAATTTAATTAATTT-TTTAAAATCAA
* * *
26629732 TAAACCCTAATTTAATTAATTTTTAAAAA
1 TAAAACCAAATTTAATTAATTTTTTAAAA
26629761 AGAACACTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
33 11 0.22
34 38 0.76
35 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (33 bp):
TAAAACCAAATTTAATTAATTTTTTAAAATCAA
Found at i:26639843 original size:22 final size:22
Alignment explanation
Indices: 26639816--26639857 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26639806 AACATTTTCA
26639816 AATATAATTTTATTTAATCTGC
1 AATATAATTTTATTTAATCTGC
*
26639838 AATATAATTTTATTTTATCT
1 AATATAATTTTATTTAATCT
26639858 AATTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
AATATAATTTTATTTAATCTGC
Found at i:26639989 original size:15 final size:16
Alignment explanation
Indices: 26639953--26640007 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 16
26639943 TAAAATTAAT
26639953 ATAACTTTTCTTAAATA
1 ATAA-TTTTCTTAAATA
*
26639970 A-AATTTT-TTAACTA
1 ATAATTTTCTTAAATA
*
26639984 ATAATTGTCATTTAAATA
1 ATAATTTTC--TTAAATA
26640002 ATAATT
1 ATAATT
26640008 ATCACAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.29
16 2 0.06
17 1 0.03
18 12 0.39
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (16 bp):
ATAATTTTCTTAAATA
Found at i:26640617 original size:21 final size:19
Alignment explanation
Indices: 26640583--26640627 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
26640573 TAAATAATCC
*
26640583 AAAAAATTTAAAAATTTAA
1 AAAAAATTTAAAAATATAA
*
26640602 ATAAAAATCTTGAAAATATAA
1 A-AAAAAT-TTAAAAATATAA
26640623 AAAAA
1 AAAAA
26640628 TCTATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 10 0.45
21 11 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATTTAAAAATATAA
Found at i:26640623 original size:29 final size:30
Alignment explanation
Indices: 26640567--26640625 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
26640557 ATAGAATTTT
*
26640567 TTTAAATAAATAATCCAAAAAATTTAAAAA
1 TTTAAATAAATAATCCAAAAAATATAAAAA
***
26640597 TTTAAATAAA-AATCTTGAAAATATAAAAA
1 TTTAAATAAATAATCCAAAAAATATAAAAA
26640626 AATCTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (30 bp):
TTTAAATAAATAATCCAAAAAATATAAAAA
Found at i:26640776 original size:20 final size:21
Alignment explanation
Indices: 26640723--26640777 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
26640713 CTTTGTGATT
* *
26640723 TGATGTGGTGGGATTACATGG
1 TGATGTGATGGGGTTACATGG
*
26640744 T-ATGTTAAT-GGGTTA-ATGG
1 TGATG-TGATGGGGTTACATGG
26640763 TGATGTGATGGGGTT
1 TGATGTGATGGGGTT
26640778 GTCCTAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 3 0.11
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (21 bp):
TGATGTGATGGGGTTACATGG
Found at i:26642792 original size:23 final size:23
Alignment explanation
Indices: 26642766--26642840 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
26642756 ATAAGTGCAA
*
26642766 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
26642789 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
26642812 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
26642835 CACTGA
1 CACTGA
26642841 TCAATAACAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:26643100 original size:17 final size:17
Alignment explanation
Indices: 26643067--26643104 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26643057 ATTTTCCTTC
*
26643067 CACATTCAATATTAATT
1 CACATTCAATATAAATT
26643084 CACATATCAA-ATAAATT
1 CACAT-TCAATATAAATT
26643101 CACA
1 CACA
26643105 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (17 bp):
CACATTCAATATAAATT
Found at i:26650182 original size:23 final size:23
Alignment explanation
Indices: 26650156--26650231 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
26650146 ATAAGTGCAA
26650156 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26650179 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
26650202 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26650225 CACTGAT
1 CACTGAT
26650232 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:26654455 original size:46 final size:47
Alignment explanation
Indices: 26654388--26654510 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 47
26654378 TATATGCGCT
*
26654388 AGTGTAAGACATGTTTGGGACACGCATCAGCAAC-AG-TA-TGAGAGCC
1 AGTGTAAGACATG-TTGGGACATGCATCAGCAACGAGATATTGA-AGCC
* ** *
26654434 AGTGTAAGACATGCTTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATG-TTGGGACATGCATCAGCAACGAGATATTGAAGCC
26654482 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGT-TGGGACATGCATCA
26654511 ACATTGATAC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
46 29 0.44
47 3 0.05
48 32 0.48
49 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTTGGGACATGCATCAGCAACGAGATATTGAAGCC
Found at i:26658258 original size:16 final size:17
Alignment explanation
Indices: 26658232--26658266 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26658222 TAGAATTGGG
*
26658232 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
26658249 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
26658265 TT
1 TT
26658267 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:26664773 original size:24 final size:23
Alignment explanation
Indices: 26664746--26664804 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
26664736 TCTACTACAA
* *
26664746 GTAGGAGGAGTTGTGTTACTCTTT
1 GTAGGAGCA-TTGTCTTACTCTTT
*
26664770 GTAGGGAGCATTGTCTTACTGTTT
1 GTA-GGAGCATTGTCTTACTCTTT
26664794 GTAGAGAGCAT
1 GTAG-GAGCAT
26664805 CAAAAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 24 0.80
25 5 0.17
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.37
Consensus pattern (23 bp):
GTAGGAGCATTGTCTTACTCTTT
Found at i:26678528 original size:11 final size:10
Alignment explanation
Indices: 26678482--26678529 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
26678472 CCAAACGACC
26678482 AAGAAAGAAA
1 AAGAAAGAAA
*
26678492 AAGAAGGAAA
1 AAGAAAGAAA
*
26678502 AA-AGAGAAA
1 AAGAAAGAAA
26678511 AAG-AAGAAA
1 AAGAAAGAAA
26678520 AAGGAAAGAA
1 AA-GAAAGAA
26678530 GGGCCCAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 14 0.45
10 12 0.39
11 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:26682658 original size:19 final size:19
Alignment explanation
Indices: 26682634--26682678 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
26682624 CAACTTTTGG
26682634 AATTTTTATAAATATTTTA
1 AATTTTTATAAATATTTTA
* ** *
26682653 AATTTTAATATTTATTTTG
1 AATTTTTATAAATATTTTA
26682672 AATTTTT
1 AATTTTT
26682679 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTATAAATATTTTA
Found at i:26684002 original size:24 final size:24
Alignment explanation
Indices: 26683975--26684032 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
26683965 GGTGATATCT
* *
26683975 TTAAAAATAATAT-ATTTTAAATAA
1 TTAAAAATAACATAATTTCAAAT-A
26683999 TTAAAAA-AACATAATTTCAAATA
1 TTAAAAATAACATAATTTCAAATA
26684022 TTATAAAATAA
1 TTA-AAAATAA
26684033 ATTAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 8 0.28
24 19 0.66
25 2 0.07
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (24 bp):
TTAAAAATAACATAATTTCAAATA
Found at i:26684136 original size:18 final size:17
Alignment explanation
Indices: 26684103--26684158 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
26684093 TTGAAAGATC
26684103 ATATATTTAAAATATTTAA
1 ATATATTT--AATATTTAA
*
26684122 ATAT-TTTATATTATTAAAA
1 ATATATTTA-A-TATT-TAA
26684141 ATATATTTAATATTTAA
1 ATATATTTAATATTTAA
26684158 A
1 A
26684159 AAGTAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 11 0.35
19 11 0.35
20 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATTTAATATTTAA
Found at i:26684167 original size:21 final size:21
Alignment explanation
Indices: 26684121--26684187 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
26684111 AAAATATTTA
*
26684121 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TTAAAAAT
26684143 -ATATTTAATA-TTTAAAAAGT
1 AATATTTAATATTTTAAAAA-T
*
26684163 AATATTTAAAATTTTAAAAAAT
1 AATATTTAATATTTT-AAAAAT
26684185 AAT
1 AAT
26684188 TTCAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.18
20 2 0.05
21 18 0.46
22 7 0.18
23 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (21 bp):
AATATTTAATATTTTAAAAAT
Found at i:26684194 original size:21 final size:19
Alignment explanation
Indices: 26684137--26684194 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
26684127 TTATATTATT
*
26684137 AAAAATATATTTAATATTTA
1 AAAAATA-ATTTAAAATTTA
*
26684157 AAAAGTAATATTTAAAATTTTA
1 AAAAAT-A-ATTTAAAA-TTTA
26684179 AAAAATAATTTCAAAA
1 AAAAATAATTT-AAAA
26684195 ATATATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATAATTTAAAATTTA
Found at i:26684195 original size:35 final size:34
Alignment explanation
Indices: 26684152--26684218 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 34
26684142 TATATTTAAT
26684152 ATTTAAAAAGTA-ATATTTAAAATTTTAAAAAATA
1 ATTTAAAAA-TATATATTTAAAATTTTAAAAAATA
*
26684186 ATTTCAAAAATATATATTTAGAATTTTAAAAAA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAA
26684219 ATATATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 6 0.20
35 24 0.80
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTTAAAAAATA
Found at i:26685427 original size:19 final size:18
Alignment explanation
Indices: 26685399--26685434 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
26685389 ATTTCAGAAA
26685399 TTTTTAAATTTTTTTAAC
1 TTTTTAAATTTTTTTAAC
26685417 TTTTTAGAATTTTTTTAA
1 TTTTTA-AATTTTTTTAA
26685435 AAAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTAAATTTTTTTAAC
Found at i:26685510 original size:27 final size:27
Alignment explanation
Indices: 26685459--26685512 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
26685449 TTAAAATATA
26685459 AATTTTAAAATTTTTATGAATATTTTG
1 AATTTTAAAATTTTTATGAATATTTTG
26685486 AATTTTAAAAATTATTT-TGAA-ATTTTG
1 AATTTT-AAAATT-TTTATGAATATTTTG
26685513 GAAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 12 0.48
28 10 0.40
29 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (27 bp):
AATTTTAAAATTTTTATGAATATTTTG
Found at i:26685511 original size:20 final size:20
Alignment explanation
Indices: 26685479--26685528 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
26685469 TTTTTATGAA
26685479 TATTTTG-AATTTTAAAAAT
1 TATTTTGAAATTTTAAAAAT
**
26685498 TATTTTGAAATTTTGGAAAT
1 TATTTTGAAATTTTAAAAAT
26685518 TATTTT-AAATT
1 TATTTTGAAATT
26685529 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
TATTTTGAAATTTTAAAAAT
Found at i:26686581 original size:9 final size:9
Alignment explanation
Indices: 26686564--26686600 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26686554 TATAGTTTGA
*
26686564 TATTTGAAT
1 TATTCGAAT
26686573 TATTCGAAT
1 TATTCGAAT
*
26686582 TATTCGAGT
1 TATTCGAAT
26686591 TATTCGAAT
1 TATTCGAAT
26686600 T
1 T
26686601 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26686659 original size:9 final size:9
Alignment explanation
Indices: 26686642--26686681 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
26686632 CGAAAAAAAT
*
26686642 TCGATTAAC
1 TCGAATAAC
26686651 TCGAATAAC
1 TCGAATAAC
*
26686660 TCGATTAAC
1 TCGAATAAC
*
26686669 TCAAATAAC
1 TCGAATAAC
26686678 TCGA
1 TCGA
26686682 TTCATTTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26686663 original size:18 final size:18
Alignment explanation
Indices: 26686642--26686683 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
26686632 CGAAAAAAAT
*
26686642 TCGATTAACTCGAATAAC
1 TCGATTAACTCAAATAAC
26686660 TCGATTAACTCAAATAAC
1 TCGATTAACTCAAATAAC
26686678 TCGATT
1 TCGATT
26686684 CATTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (18 bp):
TCGATTAACTCAAATAAC
Found at i:26693424 original size:29 final size:30
Alignment explanation
Indices: 26693356--26693425 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
26693346 GGTTTTTGAG
*
26693356 TTTGAGGATTTAGAGTTTTAGGTTGTCGAA
1 TTTGAGGATTTAGAGTTTAAGGTTGTCGAA
*
26693386 TTTG-GAGATTTTGA-TTTAAGGTTGTCGAA
1 TTTGAG-GATTTAGAGTTTAAGGTTGTCGAA
26693415 TTTGAGGATTT
1 TTTGAGGATTT
26693426 GGGTTAGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (30 bp):
TTTGAGGATTTAGAGTTTAAGGTTGTCGAA
Found at i:26693474 original size:29 final size:28
Alignment explanation
Indices: 26693386--26693517 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 28
26693376 GGTTGTCGAA
* *
26693386 TTTGGAGATTTTGATTTAAGGTTGTCGAA-
1 TTTGG-GATTTTG-TTTAAGGTTTTTGAAT
* * * * *
26693415 TTTGAGGATTTGGGTTAGGGGTTCT-AAT
1 TTTG-GGATTTTGTTTAAGGTTTTTGAAT
* **
26693443 TTTAGGGATTTTGTTTAGGGTTTTTTTAT
1 TTT-GGGATTTTGTTTAAGGTTTTTGAAT
* *
26693472 TTTCGAATTTTCGTTTAAGGTTTTTGAAT
1 TTTGGGATTTT-GTTTAAGGTTTTTGAAT
26693501 TTTGGGATTTCTGTTTA
1 TTTGGGATTT-TGTTTA
26693518 TTATTTTCAA
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
27 2 0.03
28 31 0.40
29 43 0.55
30 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.52
Consensus pattern (28 bp):
TTTGGGATTTTGTTTAAGGTTTTTGAAT
Found at i:26694421 original size:22 final size:23
Alignment explanation
Indices: 26694396--26694441 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
26694386 CAACCAAACC
26694396 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
26694418 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
26694441 A
1 A
26694442 CGTCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:26694447 original size:23 final size:24
Alignment explanation
Indices: 26694402--26694453 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
26694392 AACCAATTCA
*
26694402 ACATATTTTCAAGATAAATTCAT-
1 ACATATTTTCAAGATAAAGTCATC
*
26694425 ACATATTTAT-AAGATAACGTCATC
1 ACATATTT-TCAAGATAAAGTCATC
26694449 ACATA
1 ACATA
26694454 CCCAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (24 bp):
ACATATTTTCAAGATAAAGTCATC
Found at i:26697995 original size:24 final size:24
Alignment explanation
Indices: 26697963--26698011 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26697953 ACTAAGGGAG
26697963 ACACAAAGAAAGCTAGCTTCAGAA
1 ACACAAAGAAAGCTAGCTTCAGAA
26697987 ACACAAAGAAAGCTAGCTTCAGAA
1 ACACAAAGAAAGCTAGCTTCAGAA
26698011 A
1 A
26698012 TGCATGTAAA
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:0.51, C:0.20, G:0.16, T:0.12
Consensus pattern (24 bp):
ACACAAAGAAAGCTAGCTTCAGAA
Found at i:26704913 original size:158 final size:158
Alignment explanation
Indices: 26704601--26704913 Score: 396
Period size: 158 Copynumber: 2.0 Consensus size: 158
26704591 GGTGAGAGTC
* * *
26704601 ACAATAGAAGATCATGCATTCAACCTAACAGAAATAGATCATAGATATATCATTAACACTTTTTC
1 ACAACAGAAGATCATGCAATCAACCTAACAGAAATAGATCATAGATATATCATAAACACTTTTTC
* ** * **
26704666 ACTATCAAGTTCTTAAATATTTAAGTCTAATTTGGGGTTTTACATTTTTTTCTTAGTCTAGTGCC
66 ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAGTCTAGAACC
*
26704731 ATTACAAGAACTAAAAGCCAAAAAAAGA
131 AGTACAAGAACTAAAAGCCAAAAAAAGA
* * * * * * *
26704759 ACAACAGAAGATCATGCAATCAACCTACCATAACTGGATCATAGGTATATCGTAAACACTTTTTT
1 ACAACAGAAGATCATGCAATCAACCTAACAGAAATAGATCATAGATATATCATAAACACTTTTTC
* *
26704824 ACTGTCAAGTT-TTAAAATATTTAAATCTAATAGGGGGTTGTGA-TTTTTTTGTCTTAGTCTAGA
66 ACTATCAAGTTCTT-AAATATTTAAATCTAATAGGGGGTT-TGACATTTTTT-TCTTAGTCTAGA
* *
26704887 ACGAGTACAAGAACTAGAAGCCAAAAA
128 ACCAGTACAAGAACTAAAAGCCAAAAA
26704914 GGATGGTATA
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
157 2 0.02
158 93 0.71
159 36 0.27
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (158 bp):
ACAACAGAAGATCATGCAATCAACCTAACAGAAATAGATCATAGATATATCATAAACACTTTTTC
ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAGTCTAGAACC
AGTACAAGAACTAAAAGCCAAAAAAAGA
Found at i:26707878 original size:29 final size:30
Alignment explanation
Indices: 26707822--26707879 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
26707812 TTAGCCTTAT
* * *
26707822 TTGATCCTTTTTAATAATACATGAACTAAA
1 TTGATCCTATTTAATAACAAATGAACTAAA
*
26707852 TTGATCC-ATTTAATAACAAATGGACTAA
1 TTGATCCTATTTAATAACAAATGAACTAA
26707880 TTTAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (30 bp):
TTGATCCTATTTAATAACAAATGAACTAAA
Found at i:26725598 original size:35 final size:36
Alignment explanation
Indices: 26725558--26725633 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
26725548 ACACATTTAT
*
26725558 ATTACACCATACAACCGAATTCAAGCCTTAATCAAG
1 ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
* *
26725594 -TTACACCATACAACCAAATTCGAGCCTTAATGAAG
1 ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
26725629 ATTAC
1 ATTAC
26725634 GAAAGCTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (36 bp):
ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
Found at i:26730584 original size:15 final size:14
Alignment explanation
Indices: 26730555--26730591 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
26730545 ATTATATTTT
*
26730555 TAAAAAAAATTATA
1 TAAAAAAAATAATA
26730569 TAAAAAATAATAATA
1 TAAAAAA-AATAATA
26730584 TAAAAAAA
1 TAAAAAAA
26730592 GTCATACGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAAAAAATAATA
Found at i:26736207 original size:25 final size:25
Alignment explanation
Indices: 26736178--26736234 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
26736168 TTTGGGCTGA
*
26736178 ATTGAATAGAATGTATACTAAATGG
1 ATTGAATAGAATATATACTAAATGG
* *
26736203 ATTGAAATTGATTATATACTAAATGG
1 ATTG-AATAGAATATATACTAAATGG
26736229 ATTGAA
1 ATTGAA
26736235 ATTGATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (25 bp):
ATTGAATAGAATATATACTAAATGG
Found at i:26736222 original size:26 final size:26
Alignment explanation
Indices: 26736191--26736243 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26736181 GAATAGAATG
26736191 TATACTAAATGGATTGAAATTGATTA
1 TATACTAAATGGATTGAAATTGATTA
26736217 TATACTAAATGGATTGAAATTGATTA
1 TATACTAAATGGATTGAAATTGATTA
26736243 T
1 T
26736244 TTAGACCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (26 bp):
TATACTAAATGGATTGAAATTGATTA
Found at i:26741972 original size:20 final size:20
Alignment explanation
Indices: 26741934--26741981 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
26741924 TAAATTCTAA
* **
26741934 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
26741954 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
26741974 AAA-ATAAA
1 AAAGATAAA
26741982 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:26742006 original size:27 final size:26
Alignment explanation
Indices: 26741976--26742038 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
26741966 AGATAATTAA
26741976 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * *
26742003 AATAATAATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
26742030 AATATAAAT
1 AATA-AAAT
26742039 AAAATGGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:26742798 original size:96 final size:96
Alignment explanation
Indices: 26742674--26742927 Score: 404
Period size: 96 Copynumber: 2.6 Consensus size: 96
26742664 CTTAGGAAAA
* * *
26742674 ATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCGGTTACTCAGCCCCA
1 ATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCTACCCCGGTTACTCAGCCCAA
* *
26742739 CACATTCCTAATTTTTATTTTTCGTAAGAAC
66 AACATTCCTAATTTTTATTTTTCCTAAGAAC
*
26742770 ATATCGAATCTTTTGACGCGAAGAGAGATGACAACCAAGCA-CCTCACCCCGGTTACTCAGCCCA
1 ATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCT-ACCCCGGTTACTCAGCCCA
26742834 AAACATTCCTAATTTTTATTTTTCCTAAGAAC
65 AAACATTCCTAATTTTTATTTTTCCTAAGAAC
*
26742866 ATATCGAACCTTTTGACGCGAA-ATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGC
1 ATATCGAACCTTTTGACGCGAAGAGA-GATGACAA-CCAAGCACCCTACCCCGGTTACTCAGC
26742928 TAGTCACGTC
Statistics
Matches: 146, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
95 5 0.03
96 115 0.79
97 23 0.16
98 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (96 bp):
ATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCTACCCCGGTTACTCAGCCCAA
AACATTCCTAATTTTTATTTTTCCTAAGAAC
Found at i:26743910 original size:26 final size:26
Alignment explanation
Indices: 26743881--26743988 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
26743871 TGGTACAAAT
26743881 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
26743907 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
26743933 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
26743959 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26743985 TGAT
1 TGAT
26743989 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:26746702 original size:5 final size:5
Alignment explanation
Indices: 26746692--26746748 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
26746682 TTAATATCTG
*
26746692 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAAA AATAA AATGAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AAT-AA AAT-AA
26746742 AATAA AA
1 AATAA AA
26746749 ATTGGGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
3 3 0.07
4 4 0.09
5 23 0.52
6 14 0.32
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:26746720 original size:23 final size:23
Alignment explanation
Indices: 26746692--26746749 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
26746682 TTAATATCTG
*
26746692 AATAAAATAAAATAATAAGAT-AA
1 AATAAAATAAAA-AATAAAATGAA
26746715 AAT-AAATAAAA-ATAAAATGAA
1 AATAAAATAAAAAATAAAATGAA
26746736 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
26746750 TTGGGTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.20
21 5 0.17
22 8 0.27
23 11 0.37
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (23 bp):
AATAAAATAAAAAATAAAATGAA
Found at i:26746729 original size:6 final size:6
Alignment explanation
Indices: 26746718--26746750 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
26746708 AAGATAAAAT
*
26746718 AAATAA AAAT-A AAATGA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
26746751 TGGGTTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:26746738 original size:17 final size:16
Alignment explanation
Indices: 26746692--26746748 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 16
26746682 TTAATATCTG
26746692 AATAAAATAAAATAATA
1 AATAAAATAAAATAA-A
26746709 AGATAAAAT-AAATAAA
1 A-ATAAAATAAAATAAA
26746725 AATAAAATGAAAATAAA
1 AATAAAAT-AAAATAAA
26746742 AATAAAA
1 AATAAAA
26746749 ATTGGGTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.19
16 2 0.05
17 21 0.57
18 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:26753131 original size:10 final size:10
Alignment explanation
Indices: 26753116--26753143 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
26753106 TAAATACATT
26753116 TAATTAAAGA
1 TAATTAAAGA
26753126 TAATTAAAGA
1 TAATTAAAGA
26753136 TAATTAAA
1 TAATTAAA
26753144 ATTAAATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:26764429 original size:39 final size:42
Alignment explanation
Indices: 26764386--26764509 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 42
26764376 ATAAGATTAA
26764386 CTTTG-TAACAGTG-AT-ATATCAGGCATATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAGGCATATTGCCTAGCAGG
** * *
26764425 CTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAGGCATATTGCCTAGCAGG
** * ** *
26764467 CTTT-ATGCCGGTGTATTGA-ATCAGGTTTATTACCTAGCAGG
1 CTTTGATAACAGTGTA-TGATATCAGGCATATTGCCTAGCAGG
26764508 CT
1 CT
26764510 CTGTGCCGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
39 5 0.07
40 5 0.07
41 35 0.47
42 30 0.40
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
CTTTGATAACAGTGTATGATATCAGGCATATTGCCTAGCAGG
Found at i:26764448 original size:42 final size:43
Alignment explanation
Indices: 26764401--26764521 Score: 178
Period size: 41 Copynumber: 2.9 Consensus size: 43
26764391 TAACAGTGAT
*
26764401 ATATCAGGCATATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
26764443 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCCGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
* * *
26764485 A-ATCAGGTTTATTACCTAGCAGGCTCTG-TGCCGGTGT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGT
26764522 TTTATTCAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
41 43 0.59
42 30 0.41
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (43 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
Found at i:26776465 original size:44 final size:44
Alignment explanation
Indices: 26776339--26776470 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
26776329 GCAAGGAAGT
* * *
26776339 AGACTGAAGATTGAAGACCTTATTTCCCTGAAGTTGCAGTGGAGC
1 AGACTGAAGATAG-AGATCTTATTTCCCTGAAGTTGCAGTGGAAC
** * * *
26776384 AGGTTGAAG-TAGTGAGTCTTATCTCCAT-AATGTTGCAGTGGAAC
1 AGACTGAAGATAGAGA-TCTTATTTCCCTGAA-GTTGCAGTGGAAC
* *
26776428 AGACTGAAGATAGCGATCTTATTTCCCTGAAGATGCAGTGGAA
1 AGACTGAAGATAGAGATCTTATTTCCCTGAAGTTGCAGTGGAA
26776471 TGGATTGAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.06
44 51 0.74
45 14 0.20
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
AGACTGAAGATAGAGATCTTATTTCCCTGAAGTTGCAGTGGAAC
Found at i:26776597 original size:44 final size:45
Alignment explanation
Indices: 26776538--26776656 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
26776528 CATAACAAAC
* * *
26776538 CTTATCCCCCTGAAGTTGCAGTAGG-GCA-AGTTGAAGTTA-CA-AGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGA-CTGAAGATAGCAGA-T
26776582 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
* * *
26776627 CTTATCTCCTTGAAGTTGCAATGAAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
26776657 TCAAGCTACA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 2 0.03
44 31 0.48
45 31 0.48
46 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
Found at i:26776815 original size:45 final size:46
Alignment explanation
Indices: 26776761--26776854 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 46
26776751 AGGGCAGCAA
*
26776761 GGAAGCAGACTGAAGATTGA-AGGCCTTATCTCCCTAAAGTTGCAGT
1 GGAAGCAGACTGAAGA-TGACAGACCTTATCTCCCTAAAGTTGCAGT
*
26776807 GGAA-CAGACTGAAGATGACAGATCTTATCTCCCTAAAGTTGCAGT
1 GGAAGCAGACTGAAGATGACAGACCTTATCTCCCTAAAGTTGCAGT
26776852 GGA
1 GGA
26776855 GTAGATCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 3 0.07
45 38 0.84
46 4 0.09
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (46 bp):
GGAAGCAGACTGAAGATGACAGACCTTATCTCCCTAAAGTTGCAGT
Found at i:26776965 original size:44 final size:44
Alignment explanation
Indices: 26776911--26777080 Score: 151
Period size: 44 Copynumber: 3.8 Consensus size: 44
26776901 AAGTTGAAGT
* * * * * *
26776911 TACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTAAAAA
1 TACAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGACTGAAAA
* * ** *
26776955 TACCAATCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAAC
1 TACAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGACTGAAAA
* * * * * * *
26776999 TACGAGTTTTATCTCCCTGAAGTTACAGTAGAGTAGACTGAAGA
1 TACAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGACTGAAAA
**
26777043 TAGCAAATCTTATCTCTTTGAAATTGCAGTAGAGCAGA
1 TA-CAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGA
26777081 TCAAAGCTAT
Statistics
Matches: 97, Mismatches: 28, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
44 70 0.72
45 27 0.28
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGACTGAAAA
Found at i:26776973 original size:88 final size:89
Alignment explanation
Indices: 26776881--26777078 Score: 220
Period size: 88 Copynumber: 2.2 Consensus size: 89
26776871 AACCTTGTCC
* ** * ** *
26776881 CCCTGAAGTTGCAGTGG-GACAAGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGC
1 CCCTGAAATTGCAGTGGAG-CAAGTTGAAACTACAAGTCTTATCTCCCTGAAGTTACAGTAGAGC
*
26776945 AGACTAAAAATA-CCAATCTTATCT
65 AGACTAAAAATAGCAAATCTTATCT
* * * *
26776969 CCCTGAAATTGCAGTGGAGCAGGTTGAAACTACGAGTTTTATCTCCCTGAAGTTACAGTAGAGTA
1 CCCTGAAATTGCAGTGGAGCAAGTTGAAACTACAAGTCTTATCTCCCTGAAGTTACAGTAGAGCA
* *
26777034 GACTGAAGATAGCAAATCTTATCT
66 GACTAAAAATAGCAAATCTTATCT
** *
26777058 CTTTGAAATTGCAGTAGAGCA
1 CCCTGAAATTGCAGTGGAGCA
26777079 GATCAAAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 61 0.67
89 30 0.33
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (89 bp):
CCCTGAAATTGCAGTGGAGCAAGTTGAAACTACAAGTCTTATCTCCCTGAAGTTACAGTAGAGCA
GACTAAAAATAGCAAATCTTATCT
Found at i:26777267 original size:44 final size:44
Alignment explanation
Indices: 26777145--26777268 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 44
26777135 CATGGTGAAT
* * ** *
26777145 CTTATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGTCACAAAC
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAAC
* **
26777189 CTTATCCCCCTGAAGTTGCAGTAGG-GCAGGTTGAAGTTGCAAAC
1 CTTATCCCCCTGAAGTTGCAGT-GGAGCAGATTGAAGTCACAAAC
* *
26777233 CTTA-CCTCTCTGAAGTTGCAGTGGAGCACATTGAAG
1 CTTATCC-CCCTGAAGTTGCAGTGGAGCAGATTGAAG
26777269 ATACTTGAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 4 0.06
44 60 0.91
45 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAAC
Found at i:26780255 original size:15 final size:15
Alignment explanation
Indices: 26780235--26780264 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26780225 ATTATGAAAG
26780235 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
26780250 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
26780265 GAGTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:26783088 original size:15 final size:15
Alignment explanation
Indices: 26783068--26783097 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26783058 TTCACTGTTA
26783068 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26783083 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26783098 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:26786067 original size:37 final size:35
Alignment explanation
Indices: 26786016--26786123 Score: 100
Period size: 37 Copynumber: 3.1 Consensus size: 35
26786006 ATTTTAAAAA
*
26786016 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATATTAATA-TTTAATATTAAATTTAATT
*
26786052 TAATACTTATATTAATA-TT-AT-TT-TA-TTAATT
1 TAATA-TTATATTAATATTTAATATTAAATTTAATT
* * *
26786083 TAATATTAAAGTGATTATCTTAATATTAAATTTAATT
1 TAATATTATA-TTAATAT-TTAATATTAAATTTAATT
26786120 TAAT
1 TAAT
26786124 GTTTATCTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
30 4 0.07
31 15 0.26
32 1 0.02
33 4 0.07
34 4 0.07
35 4 0.07
36 6 0.10
37 20 0.34
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATATTAATATTTAATATTAAATTTAATT
Found at i:26787261 original size:22 final size:22
Alignment explanation
Indices: 26787229--26787270 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26787219 GGTTAGGGTT
26787229 TTTTAAAGTTT-GTGGTTTTAAG
1 TTTTAAAGTTTAG-GGTTTTAAG
*
26787251 TTTTAATGTTTAGGGTTTTA
1 TTTTAAAGTTTAGGGTTTTA
26787271 GGGATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (22 bp):
TTTTAAAGTTTAGGGTTTTAAG
Found at i:26788767 original size:42 final size:43
Alignment explanation
Indices: 26788706--26788869 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 43
26788696 CTTCGTTTTC
**
26788706 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAA
* *
26788749 T-GATGCCGTAGCCCAACTATGGTCTTACACATATT--CATACA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATA-A
*
26788790 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACAT-A
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATAA
*
26788839 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
26788870 GAATCACATA
Statistics
Matches: 103, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
40 4 0.04
41 2 0.02
42 57 0.55
43 1 0.01
45 2 0.02
48 1 0.01
49 33 0.32
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (43 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAA
Found at i:26788849 original size:49 final size:48
Alignment explanation
Indices: 26788789--26788959 Score: 206
Period size: 47 Copynumber: 3.6 Consensus size: 48
26788779 ATATTCATAC
*
26788789 ATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
26788837 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
26788885 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* *
26788931 ACCGATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
26788960 TACGGAAATC
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
46 26 0.24
47 37 0.34
48 13 0.12
49 33 0.30
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:26788860 original size:91 final size:94
Alignment explanation
Indices: 26788741--26788959 Score: 231
Period size: 95 Copynumber: 2.4 Consensus size: 94
26788731 TTACACATCT
* * *
26788741 TCACATAAT-GATGCCGTAGCCCAACTATGGTCTTACAC-ATAT-TCATA-C-A-TCGATGCCAT
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCTACT-GATGCCAT
* *
26788800 AGCCCAGCTATGGTCTTACAC-GTAATCACATA
63 AGCCCAGATATGGTCTTACACAGT-AGCACATA
*
26788832 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCT-ACTGATGCCATAG
* *
26788897 CCCAGATATGGTCTTATACAGTAGCATATA
65 CCCAGATATGGTCTTACACAGTAGCACATA
* * *
26788927 TCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTA
26788960 TACGGAAATC
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
90 2 0.02
91 35 0.32
92 5 0.05
93 27 0.25
95 37 0.34
96 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (94 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTACTGATGCCATAGC
CCAGATATGGTCTTACACAGTAGCACATA
Found at i:26788980 original size:7 final size:7
Alignment explanation
Indices: 26788968--26788996 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
26788958 TATACGGAAA
26788968 TCACTTG
1 TCACTTG
26788975 TCACTTG
1 TCACTTG
26788982 TCACTTG
1 TCACTTG
26788989 TCACTTG
1 TCACTTG
26788996 T
1 T
26788997 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:26789030 original size:31 final size:31
Alignment explanation
Indices: 26788995--26789174 Score: 263
Period size: 31 Copynumber: 5.8 Consensus size: 31
26788985 CTTGTCACTT
* *
26788995 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
26789026 GTAGCCGGTGCTACCA-TTCTTCACTAATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
*
26789057 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26789088 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26789119 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26789150 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
26789175 TGTCATTTGC
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.01
31 135 0.98
32 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:26789252 original size:50 final size:51
Alignment explanation
Indices: 26789150--26789278 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
26789140 CACTGATCAG
* * *
26789150 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
*
26789201 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTG-CCATTGATCAGATAAGT
26789251 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
26789279 TGTCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 46 0.64
51 26 0.36
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
Found at i:26796435 original size:35 final size:35
Alignment explanation
Indices: 26796385--26796576 Score: 249
Period size: 35 Copynumber: 5.5 Consensus size: 35
26796375 ACAGTGTTAC
* *
26796385 CTGGTGTGCTAGATGGTACTGACTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26796420 CTGGTGTGTTGGATGGTACTGGCTTTTAGGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26796455 CTAGTGTGCTGAATGGTACTGGCTCTTATGAGTAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26796490 ATGGTGTGTTGGATGGTACTGGCTCTTAGGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
*
26796525 CTAGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26796560 ATGCTGTGTTGGATGGT
1 CTGGTGTGCTGGATGGT
26796577 TAACCGTGTA
Statistics
Matches: 132, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 132 1.00
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
Found at i:26796501 original size:70 final size:70
Alignment explanation
Indices: 26796388--26796576 Score: 308
Period size: 70 Copynumber: 2.7 Consensus size: 70
26796378 GTGTTACCTG
* * *
26796388 GTGTGCT-AGATGGTACTGACTCTTATGAGCATCTGGTGTGTTGGATGGTACTGGCTTTTAGGAG
1 GTGTGCTGA-ATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGTACTGGCTCTTAGGAG
26796452 CATCTA
65 CATCTA
*
26796458 GTGTGCTGAATGGTACTGGCTCTTATGAGTATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGC
1 GTGTGCTGAATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGC
26796523 ATCTA
66 ATCTA
* *
26796528 GTGTGCTGGATGGTACTGGCTCTTATGAGCATATGCTGTGTTGGATGGT
1 GTGTGCTGAATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGT
26796577 TAACCGTGTA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
70 110 0.99
71 1 0.01
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.36
Consensus pattern (70 bp):
GTGTGCTGAATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGC
ATCTA
Found at i:26801177 original size:17 final size:17
Alignment explanation
Indices: 26801143--26801199 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
26801133 ACTTAAATTT
* *
26801143 TTTTTAATATGTTCAAA
1 TTTTTAATATATTAAAA
26801160 TTTTTAATATATTTAAATA
1 TTTTTAATATA-TTAAA-A
* *
26801179 TATTAAATATATTAAAA
1 TTTTTAATATATTAAAA
26801196 TTTT
1 TTTT
26801200 AAATTTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 14 0.42
18 9 0.27
19 10 0.30
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTTTAATATATTAAAA
Found at i:26801180 original size:10 final size:10
Alignment explanation
Indices: 26801165--26801270 Score: 55
Period size: 9 Copynumber: 10.8 Consensus size: 10
26801155 TCAAATTTTT
26801165 AATATATTTA
1 AATATATTTA
26801175 AATATA-TTA
1 AATATATTTA
26801184 AATATA-TTA
1 AATATATTTA
26801193 AA-AT-TTTA
1 AATATATTTA
* *
26801201 AATTTGGTTATA
1 AATAT-ATT-TA
* *
26801213 CTTAATATTTTTT
1 ---AATATATTTA
26801226 AATATATTTA
1 AATATATTTA
* *
26801236 AATTTTTTTA
1 AATATATTTA
*
26801246 AA-ATTTTTA
1 AATATATTTA
26801255 AA-AT-TTTA
1 AATATATTTA
26801263 AATATATT
1 AATATATT
26801271 AAGAAAATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
8 13 0.17
9 27 0.35
10 26 0.34
11 2 0.03
12 2 0.03
13 1 0.01
14 2 0.03
15 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (10 bp):
AATATATTTA
Found at i:26801187 original size:79 final size:79
Alignment explanation
Indices: 26801098--26801272 Score: 255
Period size: 79 Copynumber: 2.2 Consensus size: 79
26801088 ATTTAAAAAT
* *
26801098 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAAATTTTTTTTAATATGTTCAAA-TT
1 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTT-AATATTTTTTAATATATTCAAATTT
*
26801162 TTTAATATATTTAAA
65 TTTAAAATATTTAAA
* *
26801177 TATATTAAATATATTAAAATTTTAAATTTGGTTATACTTAATATTTTTTAATATATTTAAATTTT
1 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATATATTCAAA-TTT
*
26801242 TTTAAAATTTTTAAA
65 TTTAAAATATTTAAA
*
26801257 -ATTTTAAATATATTAA
1 TATATTAAATATATTAA
26801273 GAAAATATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 19 0.22
79 53 0.61
80 15 0.17
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (79 bp):
TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATATATTCAAATTTT
TTAAAATATTTAAA
Found at i:26801236 original size:19 final size:18
Alignment explanation
Indices: 26801209--26801270 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
26801199 TAAATTTGGT
*
26801209 TATACTTAATATTTTTTAA
1 TATATTTAA-ATTTTTTAA
26801228 TATATTTAAATTTTTTTAA
1 TATATTTAAA-TTTTTTAA
* * * *
26801247 AATTTTTAAAATTTTAAA
1 TATATTTAAATTTTTTAA
26801265 TATATT
1 TATATT
26801271 AAGAAAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 11 0.31
19 24 0.69
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTTAAATTTTTTAA
Found at i:26802099 original size:14 final size:14
Alignment explanation
Indices: 26802072--26802128 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
26802062 GATTTTATAG
26802072 TAATATATAATATTA
1 TAATATA-AATATTA
26802087 TAATATAAATATTAA
1 TAATATAAATATT-A
* *
26802102 AAAAATTAAATTATTA
1 TAATA-TAAA-TATTA
26802118 -AATATAAATAT
1 TAATATAAATAT
26802129 AGTAGGAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.08
14 10 0.28
15 14 0.39
16 5 0.14
17 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATAAATATTA
Found at i:26805965 original size:21 final size:17
Alignment explanation
Indices: 26805926--26805964 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
26805916 TAGGTTTTGC
26805926 TTCTTTTTTTTTTCTTT
1 TTCTTTTTTTTTTCTTT
26805943 TTCTTTCTTTATTTCTCTTT
1 TTCTTT-TTT-TTT-TCTTT
26805963 TT
1 TT
26805965 TTACTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 3 0.16
20 7 0.37
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTCTTTTTTTTTTCTTT
Found at i:26807619 original size:29 final size:28
Alignment explanation
Indices: 26807533--26807619 Score: 70
Period size: 31 Copynumber: 2.9 Consensus size: 28
26807523 ATACATTTGA
*
26807533 ACCACAATCAAAGTTTCATGTGTATAATTGC
1 ACCAAAATCAAAG-TTCA--TGTATAATTGC
* *
26807564 ACCAAAGT-AAAGTTCATATATCAAATTGC
1 ACCAAAATCAAAGTTCATGTAT--AATTGC
26807593 A-CATTAAATCAAAGTTCATGTATAATT
1 ACCA--AAATCAAAGTTCATGTATAATT
26807620 TTAAAATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
27 4 0.09
28 2 0.04
29 15 0.33
30 7 0.15
31 18 0.39
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (28 bp):
ACCAAAATCAAAGTTCATGTATAATTGC
Found at i:26814559 original size:22 final size:21
Alignment explanation
Indices: 26814530--26814575 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
26814520 CATAACAGTG
*
26814530 AAAAAAAATAATAAGAAAATAAC
1 AAAAAAAGTAAT-AGAAAA-AAC
26814553 AAAAAAAGTAATAGAAAAAAC
1 AAAAAAAGTAATAGAAAAAAC
26814574 AA
1 AA
26814576 CAAGAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAAAAAGTAATAGAAAAAAC
Found at i:26814577 original size:24 final size:23
Alignment explanation
Indices: 26814530--26814587 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
26814520 CATAACAGTG
* *
26814530 AAAAAAAATAATAAGAAAATAAC
1 AAAAAAAATAATAAAAAAACAAC
*
26814553 AAAAAAAGTAATAGAAAAAACAAC
1 AAAAAAAATAATA-AAAAAACAAC
* *
26814577 AAGAACAATAA
1 AAAAAAAATAA
26814588 AAATAGTAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (23 bp):
AAAAAAAATAATAAAAAAACAAC
Found at i:26815020 original size:21 final size:22
Alignment explanation
Indices: 26814996--26815046 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
26814986 CCGTATACAG
*
26814996 GTCAAAATGGGAT-AAATATGA
1 GTCAAAATGGGATAAAATAGGA
* *
26815017 GTCAAAATGGGTTAAAATAGGG
1 GTCAAAATGGGATAAAATAGGA
26815039 GTCAAAAT
1 GTCAAAAT
26815047 ACGAAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.24
Consensus pattern (22 bp):
GTCAAAATGGGATAAAATAGGA
Found at i:26815317 original size:3 final size:3
Alignment explanation
Indices: 26815311--26815336 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26815301 AGTTTAAAAA
26815311 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
26815337 AGCAATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26815639 original size:17 final size:17
Alignment explanation
Indices: 26815614--26815650 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
26815604 ATTTGTTTAG
*
26815614 TTTATTGTTTATTGTGA
1 TTTAGTGTTTATTGTGA
26815631 TTTAGTGTTTATTGTGA
1 TTTAGTGTTTATTGTGA
26815648 TTT
1 TTT
26815651 GTTCAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (17 bp):
TTTAGTGTTTATTGTGA
Found at i:26817899 original size:22 final size:24
Alignment explanation
Indices: 26817875--26817928 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
26817865 TCATTATATT
26817875 AATATAATATAAT-TTTTAAT-AT
1 AATATAATATAATATTTTAATGAT
26817897 AATAT-A-ATAATATTTTAATGAT
1 AATATAATATAATATTTTAATGAT
*
26817919 AAAATAATAT
1 AATATAATAT
26817929 TTATTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 11 0.41
23 1 0.04
24 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATAATATAATATTTTAATGAT
Found at i:26818507 original size:14 final size:13
Alignment explanation
Indices: 26818485--26818541 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
26818475 AACTGTTTAG
*
26818485 TATTTTTGTAATGA
1 TATTATTGTAAT-A
*
26818499 TATTATTGTATTA
1 TATTATTGTAATA
*
26818512 CATTTATTGTAATA
1 TA-TTATTGTAATA
*
26818526 T-TTATTGTATTA
1 TATTATTGTAATA
26818538 TATT
1 TATT
26818542 TATGTGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 11 0.31
13 4 0.11
14 20 0.57
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (13 bp):
TATTATTGTAATA
Found at i:26818533 original size:26 final size:28
Alignment explanation
Indices: 26818486--26818544 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
26818476 ACTGTTTAGT
26818486 ATTT-TTGTAATGATATTATTGTATTAC
1 ATTTATTGTAATGATATTATTGTATTAC
*
26818513 ATTTATTGTAAT-AT-TTATTGTATTAT
1 ATTTATTGTAATGATATTATTGTATTAC
26818539 ATTTAT
1 ATTTAT
26818545 GTGTTTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 17 0.57
27 6 0.20
28 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (28 bp):
ATTTATTGTAATGATATTATTGTATTAC
Found at i:26818542 original size:14 final size:14
Alignment explanation
Indices: 26818501--26818544 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
26818491 TGTAATGATA
*
26818501 TTATTGTATTACAT
1 TTATTGTATTATAT
26818515 TTATTGTA--ATAT
1 TTATTGTATTATAT
26818527 TTATTGTATTATAT
1 TTATTGTATTATAT
26818541 TTAT
1 TTAT
26818545 GTGTTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (14 bp):
TTATTGTATTATAT
Found at i:26820908 original size:44 final size:44
Alignment explanation
Indices: 26820855--26820966 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
26820845 ATCCATGCAA
* *
26820855 AAATTAGATGCATTGGAAAAAATTTGGAACAAACTTTATAATTT
1 AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
* ** *
26820899 AAATAAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTT
1 AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
*
26820943 AAATTAGATACATTG-AAACAAACT
1 AAATTAGATGCATTGCAAA-AAACT
26820967 CTGTAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (44 bp):
AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
Found at i:26821693 original size:429 final size:429
Alignment explanation
Indices: 26820893--26821748 Score: 1225
Period size: 429 Copynumber: 2.0 Consensus size: 429
26820883 ACAAACTTTA
*
26820893 TAATTTAAATAAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTTAAATTAGATACATTG
1 TAATTTAAATAAGATGCATTGCACCAAACTTGAAACAAACTTTGTAATTTAAATTAGATACATTG
* * * *
26820958 AAACAAACTCTGTAAAATACATATCCATATTTAACATGGAGTACATTAGCATAATTCCCACCCGA
66 AAACAAAATCTGTAAAATACATATCCAAATTCAACATGGAGTACATTAGCACAATTCCCACCCGA
*
26821023 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCTGATTATACCCAGCTAATC
131 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATACCCAGCTAATC
* * ** * * * *
26821088 TGCACACGCCACAAAGCTTTTCGTCGGTTTTCTCCCTAATGTCTATTTCATTATGGATTCTGGCC
196 TACACAAGCCACAAAGCTTCCCATCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
* * *
26821153 ACTTGCGAATGACCTTTCGGATTCCTCAACAACCCTTTTTCCAAGACAAGTTCGAAAGTCATCGG
261 ACTTGCGAATGACCTTTCAGATTCCTCAACAACCCTTTGTCCAAGACAACTTCGAAAGTCATCGG
* * * * * * *
26821218 AGACACCTCCCATGTAGATAAATCACGTAGGACGGGGAACTCA-TTTTCCTAGACACGCAATGTG
326 AGACACATCCAATGTAGACAAATCACGCAGGACAGGGAACTCATTTTTCC-AGACACACAATATG
* *
26821282 CGCTTGAGAGTGTACACTTAAGCAATAAACTATTCAGCTG
390 CACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGCTG
* * * *
26821322 TAATTTAAATGAGATGCATTGCACTAAACTTGAAACAAATTTTGTAATTTAAATTAGATGCATTG
1 TAATTTAAATAAGATGCATTGCACCAAACTTGAAACAAACTTTGTAATTTAAATTAGATACATTG
* * *
26821387 GAACAAAATCTGTAAAATACATATCCAAATTCCACATGGAGTACATTAGCACAATTCTCACCCGA
66 AAACAAAATCTGTAAAATACATATCCAAATTCAACATGGAGTACATTAGCACAATTCCCACCCGA
* * * *
26821452 TCACGACAATTGTCCAATATGGTAGGTTCGTTGTGGGTATTTACTCCGATTATGCCTAGCTAATC
131 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATACCCAGCTAATC
* **
26821517 TACACAAGCCACAAAGCTTCCCATTGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGTT
196 TACACAAGCCACAAAGCTTCCCATCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
* * *
26821582 ACTTGCGGATGACCTTTCAGATTCCT-ACGCAA-CCTTTAGTCCAGGACAAACTT-GAAAGTCAT
261 ACTTGCGAATGACCTTTCAGATTCCTCA-ACAACCCTTT-GTCCAAGAC-AACTTCGAAAGTCAT
* * * *
26821644 CGGAGACACATCTAATGTAGGCAGATCACGCAGGACAGGGAATTCATTTTTCCAGACACACAATA
323 CGGAGACACATCCAATGTAGACAAATCACGCAGGACAGGGAACTCATTTTTCCAGACACACAATA
26821709 TGCACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGC
388 TGCACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGC
26821749 ATTGATCGAG
Statistics
Matches: 376, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
428 6 0.02
429 360 0.96
430 10 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (429 bp):
TAATTTAAATAAGATGCATTGCACCAAACTTGAAACAAACTTTGTAATTTAAATTAGATACATTG
AAACAAAATCTGTAAAATACATATCCAAATTCAACATGGAGTACATTAGCACAATTCCCACCCGA
TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATACCCAGCTAATC
TACACAAGCCACAAAGCTTCCCATCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
ACTTGCGAATGACCTTTCAGATTCCTCAACAACCCTTTGTCCAAGACAACTTCGAAAGTCATCGG
AGACACATCCAATGTAGACAAATCACGCAGGACAGGGAACTCATTTTTCCAGACACACAATATGC
ACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGCTG
Found at i:26822729 original size:27 final size:27
Alignment explanation
Indices: 26822691--26822742 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
26822681 CAATAAGTAG
26822691 GATCTACGTATATTTCCTGTATAGCTA
1 GATCTACGTATATTTCCTGTATAGCTA
26822718 GATCTACGTATATTTCCTGTATAGC
1 GATCTACGTATATTTCCTGTATAGC
26822743 CAGGTTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (27 bp):
GATCTACGTATATTTCCTGTATAGCTA
Done.