Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 82 of 163
Found at i:22450353 original size:27 final size:27
Alignment explanation
Indices: 22450323--22450378 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
22450313 ATTCTATTTT
*
22450323 TTCTATTCCATTAGTATTAGATTATTA
1 TTCTATTCCATTAGTATTAGATTAGTA
*
22450350 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCCATTAGTATTAGATTAGTA
22450377 TT
1 TT
22450379 AGTTAGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (27 bp):
TTCTATTCCATTAGTATTAGATTAGTA
Found at i:22450355 original size:41 final size:36
Alignment explanation
Indices: 22450285--22450361 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 36
22450275 AAGACAGTTC
*
22450285 TTTTCATTCTATTATATTAGTATTTTCTATTCTATT
1 TTTTCATTCCATTATATTAGTATTTTCTATTCTATT
22450321 TTTTCTATTCCATTAGTATTAGATTATTATTCTATTCTATT
1 TTTTC-ATTCCATTA-TATTAG--TATT-TTCTATTCTATT
22450362 AGTATTAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 5 0.14
37 8 0.23
38 6 0.17
40 4 0.11
41 12 0.34
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.61
Consensus pattern (36 bp):
TTTTCATTCCATTATATTAGTATTTTCTATTCTATT
Found at i:22456497 original size:12 final size:11
Alignment explanation
Indices: 22456474--22456503 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
22456464 GAGATGAAGG
22456474 TTTTGGAGTGT
1 TTTTGGAGTGT
22456485 TTTTGGTAGTGT
1 TTTTGG-AGTGT
22456497 TTTTGGA
1 TTTTGGA
22456504 TGCACGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (11 bp):
TTTTGGAGTGT
Found at i:22474371 original size:18 final size:18
Alignment explanation
Indices: 22474314--22474372 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
22474304 CGGAAGGAGT
22474314 AGCATACTGGCTCGTTAG
1 AGCATACTGGCTCGTTAG
*
22474332 ACCATACTGGCTCGTTTA-
1 AGCATACTGGCTCG-TTAG
*
22474350 AGCATACTGGTTCGTTAG
1 AGCATACTGGCTCGTTAG
22474368 AGCAT
1 AGCAT
22474373 TTTTGGATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 3 0.08
18 30 0.83
19 3 0.08
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (18 bp):
AGCATACTGGCTCGTTAG
Found at i:22475099 original size:21 final size:21
Alignment explanation
Indices: 22475075--22475125 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22475065 AGAAGCATGA
*
22475075 CTTGTTTCGATAGAACTATCG
1 CTTGTATCGATAGAACTATCG
* *
22475096 CTTGTATCGGTAGAACTATCA
1 CTTGTATCGATAGAACTATCG
*
22475117 CTAGTATCG
1 CTTGTATCG
22475126 GTAAATGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (21 bp):
CTTGTATCGATAGAACTATCG
Found at i:22475126 original size:21 final size:21
Alignment explanation
Indices: 22475085--22475128 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22475075 CTTGTTTCGA
* *
22475085 TAGAACTATCGCTTGTATCGG
1 TAGAACTATCACTAGTATCGG
22475106 TAGAACTATCACTAGTATCGG
1 TAGAACTATCACTAGTATCGG
22475127 TA
1 TA
22475129 AATGCCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (21 bp):
TAGAACTATCACTAGTATCGG
Found at i:22482416 original size:21 final size:22
Alignment explanation
Indices: 22482369--22482416 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
22482359 GACTTGTTTC
*
22482369 GGTAGAACTATCACTCGTATCA
1 GGTAGAACTATCACTAGTATCA
* *
22482391 -ATAGAACTATTACTAGTAT-A
1 GGTAGAACTATCACTAGTATCA
22482411 GGTAGA
1 GGTAGA
22482417 TGTTTGTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (22 bp):
GGTAGAACTATCACTAGTATCA
Found at i:22485112 original size:18 final size:19
Alignment explanation
Indices: 22485076--22485113 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
22485066 GTAAAAAATT
* *
22485076 TTTATTTTCTAATTTTTAA
1 TTTATTTTCAAATTGTTAA
22485095 TTTATTTT-AAATTGTTAA
1 TTTATTTTCAAATTGTTAA
22485113 T
1 T
22485114 ATTTTATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATTTTCAAATTGTTAA
Found at i:22486021 original size:18 final size:18
Alignment explanation
Indices: 22485998--22486040 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22485988 CAAGCTAAAG
*
22485998 AAGAAGAAGAAGATCCTA
1 AAGAAGAAGAAAATCCTA
*
22486016 AAGAAGAAGAAAATCTTA
1 AAGAAGAAGAAAATCCTA
*
22486034 AGGAAGA
1 AAGAAGA
22486041 TCCTGTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.58, C:0.07, G:0.23, T:0.12
Consensus pattern (18 bp):
AAGAAGAAGAAAATCCTA
Found at i:22487372 original size:12 final size:12
Alignment explanation
Indices: 22487355--22487382 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22487345 CTCAGAAAAA
22487355 AAAGAAAAATAT
1 AAAGAAAAATAT
22487367 AAAGAAAAATAT
1 AAAGAAAAATAT
22487379 AAAG
1 AAAG
22487383 CATATGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (12 bp):
AAAGAAAAATAT
Found at i:22494621 original size:21 final size:20
Alignment explanation
Indices: 22494593--22494631 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
22494583 TTAGGTAGTG
* *
22494593 CTTTAATTGTTGGCCATTCA
1 CTTTAATTGGTGCCCATTCA
22494613 CTTTGAATTGGTGCCCATT
1 CTTT-AATTGGTGCCCATT
22494632 GTTCAAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (20 bp):
CTTTAATTGGTGCCCATTCA
Found at i:22506738 original size:17 final size:16
Alignment explanation
Indices: 22506729--22506770 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
22506719 TGCTAAAACA
22506729 AATAAAATGCAAAGAC
1 AATAAAATGCAAAGAC
*
22506745 AATAAAAATGCAATGAC
1 AAT-AAAATGCAAAGAC
22506762 AATTAAAAT
1 AA-TAAAAT
22506771 AAATGCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 19 0.83
18 1 0.04
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (16 bp):
AATAAAATGCAAAGAC
Found at i:22507198 original size:21 final size:21
Alignment explanation
Indices: 22507167--22507217 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
22507157 CAATGCTTTC
22507167 TTCATCTTCCTTATCTTCTTCCT
1 TTCA-CTTCCTTATCTTCTT-CT
* *
22507190 TTC-CTTCCTTCTTTTCTTCT
1 TTCACTTCCTTATCTTCTTCT
22507210 TTCACTTC
1 TTCACTTC
22507218 TTCTCTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 17 0.68
23 3 0.12
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (21 bp):
TTCACTTCCTTATCTTCTTCT
Found at i:22507233 original size:20 final size:19
Alignment explanation
Indices: 22507181--22507233 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 19
22507171 TCTTCCTTAT
22507181 CTTCTTC-CTT-TCCTTC-
1 CTTCTTCTCTTCTCCTTCA
*
22507197 CTTCTTTTCTTCT--TTCA
1 CTTCTTCTCTTCTCCTTCA
22507214 CTTCTTCTCTTGCTCCTTCA
1 CTTCTTCTCTT-CTCCTTCA
22507234 TCTCGTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 9 0.31
17 13 0.45
18 3 0.10
20 4 0.14
ACGTcount: A:0.04, C:0.38, G:0.02, T:0.57
Consensus pattern (19 bp):
CTTCTTCTCTTCTCCTTCA
Found at i:22517147 original size:22 final size:22
Alignment explanation
Indices: 22517119--22517162 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22517109 TATTATTACG
*
22517119 TAATTTTATTTTATTTTATTTT
1 TAATTTTATTTAATTTTATTTT
* *
22517141 TAATTTTGTTTAATTTTGTTTT
1 TAATTTTATTTAATTTTATTTT
22517163 ATTTCTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (22 bp):
TAATTTTATTTAATTTTATTTT
Found at i:22517173 original size:27 final size:26
Alignment explanation
Indices: 22517126--22517177 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22517116 ACGTAATTTT
*
22517126 ATTTTATTTTATTTTTAATTTTGTTTA
1 ATTTTATTTTATTTCTAA-TTTGTTTA
* *
22517153 ATTTTGTTTTATTTCTCATTTGTTT
1 ATTTTATTTTATTTCTAATTTGTTT
22517178 TTGTAGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (26 bp):
ATTTTATTTTATTTCTAATTTGTTTA
Found at i:22517180 original size:32 final size:31
Alignment explanation
Indices: 22517119--22517181 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
22517109 TATTATTACG
*
22517119 TAATTTTATTTTATTTTATTTTTAATTTTGTT
1 TAATTTTATTTTATTTTATTTGT-ATTTTGTT
*
22517151 TAATTTTGTTTTATTTCTCATTTGT-TTTTGT
1 TAATTTTATTTTATTT-T-ATTTGTATTTTGT
22517182 AGAATACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 21 0.78
33 1 0.04
34 5 0.19
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.73
Consensus pattern (31 bp):
TAATTTTATTTTATTTTATTTGTATTTTGTT
Found at i:22519254 original size:18 final size:17
Alignment explanation
Indices: 22519233--22519276 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22519223 TCCAAGGATA
22519233 AAAAGCACAGAAAGGAAG
1 AAAAGCACAG-AAGGAAG
* *
22519251 AAAAGAATAGAAGGAAG
1 AAAAGCACAGAAGGAAG
22519268 AACAAGCAC
1 AA-AAGCAC
22519277 CATGTAGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.61, C:0.11, G:0.25, T:0.02
Consensus pattern (17 bp):
AAAAGCACAGAAGGAAG
Found at i:22521641 original size:25 final size:25
Alignment explanation
Indices: 22521604--22521665 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
22521594 GCATTCTAAT
* *
22521604 TCTGGCTCATAAGAGCG-TATTTTTA
1 TCTGGCTCGTAAGAGCGATA-CTTTA
*
22521629 TCTGGCTCGTAAGAGCGATACTTTG
1 TCTGGCTCGTAAGAGCGATACTTTA
22521654 TCTGGCTCGTAA
1 TCTGGCTCGTAA
22521666 AATGGAAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (25 bp):
TCTGGCTCGTAAGAGCGATACTTTA
Found at i:22524400 original size:12 final size:12
Alignment explanation
Indices: 22524383--22524408 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22524373 TGTCATCATG
22524383 ATGAATGCTATT
1 ATGAATGCTATT
22524395 ATGAATGCTATT
1 ATGAATGCTATT
22524407 AT
1 AT
22524409 TTATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:22525529 original size:24 final size:24
Alignment explanation
Indices: 22525484--22525529 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22525474 TCAAAAGATA
*
22525484 TATTAAACACGAATTTTCATCAAC
1 TATTAAACACGAATTCTCATCAAC
*
22525508 TATTCAACACGAAATTCT-ATCA
1 TATTAAACACG-AATTCTCATCA
22525530 CAAAGTTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (24 bp):
TATTAAACACGAATTCTCATCAAC
Found at i:22530640 original size:22 final size:22
Alignment explanation
Indices: 22530607--22530663 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
22530597 TCTCGAAATA
22530607 TGAGATCTGTGATGCGATTTGTG
1 TGAG-TCTGTGATGCGATTTGTG
* *
22530630 TGATTCTGTGATTCGATTTGTG
1 TGAGTCTGTGATGCGATTTGTG
*
22530652 TGAGTATGTGAT
1 TGAGTCTGTGAT
22530664 CATGTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.18, C:0.07, G:0.32, T:0.44
Consensus pattern (22 bp):
TGAGTCTGTGATGCGATTTGTG
Found at i:22530876 original size:36 final size:36
Alignment explanation
Indices: 22530829--22530924 Score: 176
Period size: 36 Copynumber: 2.7 Consensus size: 36
22530819 ATATATGAGA
22530829 TCTGATTCGCATGTTAAGCATGCCATTATTTTTTAT
1 TCTGATTCGCATGTTAAGCATGCCATTATTTTTTAT
22530865 TCTGATTCGCATGTTAAGCATGCCATTATTTTTTAT
1 TCTGATTCGCATGTTAAGCATGCCATTATTTTTTAT
*
22530901 TCTGATTCGCATGTT-GGCATGCCA
1 TCTGATTCGCATGTTAAGCATGCCA
22530925 CTATGTTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
35 8 0.14
36 51 0.86
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.44
Consensus pattern (36 bp):
TCTGATTCGCATGTTAAGCATGCCATTATTTTTTAT
Found at i:22534442 original size:87 final size:87
Alignment explanation
Indices: 22534290--22534505 Score: 276
Period size: 87 Copynumber: 2.5 Consensus size: 87
22534280 GTGTCTTGTT
* *
22534290 CACAACCTACATGGCAGCTTGTCTACAAAATTGGTGGCTTCATCCACAACCTAACTGCCAGCTTG
1 CACAACCTACATGGCAGCTTGTCTACAATATTGGTGGCTTCATCCACAACCTAACTGACAGCTTG
*
22534355 TCTGCAAAATTAGG-GGTTTATC
66 TCTAC-AAATTAGGTGGTTTATC
* *
22534377 CACAACCTACATGGCAG-TTGTCTACGAATATTGGTGGCTTCATCCATAACCT-ACATGACATCT
1 CACAACCTACATGGCAGCTTGTCTAC-AATATTGGTGGCTTCATCCACAACCTAAC-TGACAGCT
* * * *
22534440 TGTTTACGATTTTGGTGGTTTATC
64 TGTCTACAAATTAGGTGGTTTATC
* *
22534464 CACAACCTACATGGAAGCTTGTCTGCAAATATTGGTGGCTTC
1 CACAACCTACATGGCAGCTTGTCTAC-AATATTGGTGGCTTC
22534506 GACCACATAT
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
86 15 0.13
87 76 0.67
88 22 0.19
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
CACAACCTACATGGCAGCTTGTCTACAATATTGGTGGCTTCATCCACAACCTAACTGACAGCTTG
TCTACAAATTAGGTGGTTTATC
Found at i:22534485 original size:43 final size:44
Alignment explanation
Indices: 22534290--22534505 Score: 235
Period size: 44 Copynumber: 4.9 Consensus size: 44
22534280 GTGTCTTGTT
22534290 CACAACCTACATGGCAGCTTGTCTACAAAATTGGTGGCTTCATC
1 CACAACCTACATGGCAGCTTGTCTACAAAATTGGTGGCTTCATC
* * *
22534334 CACAACCTA-ACTGCCAGCTTGTCTGCAAAATTAGG-GG-TTTATC
1 CACAACCTACA-TGGCAGCTTGTCTACAAAATT-GGTGGCTTCATC
*
22534377 CACAACCTACATGGCAG-TTGTCTACGAATATTGGTGGCTTCATC
1 CACAACCTACATGGCAGCTTGTCTAC-AAAATTGGTGGCTTCATC
* * * * * ** *
22534421 CATAACCTACATGACATCTTGTTTACGATTTTGGTGG-TTTATC
1 CACAACCTACATGGCAGCTTGTCTACAAAATTGGTGGCTTCATC
* *
22534464 CACAACCTACATGGAAGCTTGTCTGCAAATATTGGTGGCTTC
1 CACAACCTACATGGCAGCTTGTCTACAAA-ATTGGTGGCTTC
22534506 GACCACATAT
Statistics
Matches: 139, Mismatches: 24, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
42 9 0.06
43 53 0.38
44 66 0.47
45 11 0.08
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
CACAACCTACATGGCAGCTTGTCTACAAAATTGGTGGCTTCATC
Found at i:22546484 original size:15 final size:15
Alignment explanation
Indices: 22546459--22546499 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
22546449 TTCCGTTGAT
22546459 TCTTTCTCATCC-TC
1 TCTTTCTCATCCTTC
*
22546473 TTTTTCCTCATCCTTC
1 TCTTT-CTCATCCTTC
22546489 TCTTTCTCATC
1 TCTTTCTCATC
22546500 ATTATCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.07, C:0.39, G:0.00, T:0.54
Consensus pattern (15 bp):
TCTTTCTCATCCTTC
Found at i:22548339 original size:16 final size:16
Alignment explanation
Indices: 22548298--22548351 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
22548288 TAAACAAAAG
*
22548298 TAAAAATAAAATT-ACA
1 TAAAAATTAAATTCA-A
*
22548314 TAATAA-TAAATTCAA
1 TAAAAATTAAATTCAA
*
22548329 TAAAAATTAAAATCAA
1 TAAAAATTAAATTCAA
22548345 -AAAAATT
1 TAAAAATT
22548352 CAACCAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 18 0.56
16 14 0.44
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATTAAATTCAA
Found at i:22551761 original size:26 final size:26
Alignment explanation
Indices: 22551693--22551831 Score: 140
Period size: 25 Copynumber: 5.8 Consensus size: 26
22551683 TCAAGCTTCG
*
22551693 CCACAAAGGTTTTCTTTT-ATTTTTT
1 CCACAAAGGTTTTCTTTTCATATTTT
*
22551718 CCACAAAGGATTTCTTTTCATATTTT
1 CCACAAAGGTTTTCTTTTCATATTTT
22551744 -CACAAAGG----CTTTT--T-TTTT
1 CCACAAAGGTTTTCTTTTCATATTTT
* *
22551762 -CACAAAGGTTTTCTTTTCACATTGT
1 CCACAAAGGTTTTCTTTTCATATTTT
*
22551787 -CACAAAGGTTTTCTTTTCAT-TTTG
1 CCACAAAGGTTTTCTTTTCATATTTT
*
22551811 CCACAAAGGCTTTCTTTTCAT
1 CCACAAAGGTTTTCTTTTCAT
22551832 GTGTGTTTAC
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
18 12 0.12
19 1 0.01
21 5 0.05
22 5 0.05
24 2 0.02
25 66 0.68
26 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47
Consensus pattern (26 bp):
CCACAAAGGTTTTCTTTTCATATTTT
Found at i:22551773 original size:17 final size:18
Alignment explanation
Indices: 22551740--22551782 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
22551730 TCTTTTCATA
*
22551740 TTTTCACAAAGGCTTTTT
1 TTTTCACAAAGGCTTTTC
22551758 TTTTCACAAAGG-TTTTC
1 TTTTCACAAAGGCTTTTC
22551775 TTTTCACA
1 TTTTCACA
22551783 TTGTCACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (18 bp):
TTTTCACAAAGGCTTTTC
Found at i:22551775 original size:43 final size:42
Alignment explanation
Indices: 22551712--22551805 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 42
22551702 TTTTCTTTTA
* * *
22551712 TTTTTTCCACAAAGGATTTCTTTTCATATTTTCACAAAGGCTT
1 TTTTTTTCACAAAGGATTTCTTTTCACATTGTCACAAAGG-TT
*
22551755 TTTTTTTCACAAAGGTTTTCTTTTCACATTGTCACAAAGGTT
1 TTTTTTTCACAAAGGATTTCTTTTCACATTGTCACAAAGGTT
*
22551797 TTCTTTTCA
1 TTTTTTTCA
22551806 TTTTGCCACA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 10 0.22
43 36 0.78
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (42 bp):
TTTTTTTCACAAAGGATTTCTTTTCACATTGTCACAAAGGTT
Found at i:22551803 original size:68 final size:68
Alignment explanation
Indices: 22551694--22551828 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 68
22551684 CAAGCTTCGC
** * * *
22551694 CACAAAGGTTTTCTTTTATTTTTTCCACAAAGGATTTCTTTTCATATTT-TCACAAAGGCTTTTT
1 CACAAAGGTTTTCTTTTACATTGTCCACAAAGGATTTCTTTTCAT-TTTGCCACAAAGGCTTTCT
22551758 TTTT
65 TTTT
*
22551762 CACAAAGGTTTTCTTTTCACATTGT-CACAAAGGTTTTCTTTTCATTTTGCCACAAAGGCTTTCT
1 CACAAAGGTTTTCTTTT-ACATTGTCCACAAAGGATTTCTTTTCATTTTGCCACAAAGGCTTTCT
22551826 TTT
65 TTT
22551829 CATGTGTGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
67 3 0.05
68 52 0.88
69 4 0.07
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (68 bp):
CACAAAGGTTTTCTTTTACATTGTCCACAAAGGATTTCTTTTCATTTTGCCACAAAGGCTTTCTT
TTT
Found at i:22555274 original size:21 final size:21
Alignment explanation
Indices: 22555228--22555283 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
22555218 AATAGTGTAG
*
22555228 ACTTCTACCAATACAAGTGACT
1 ACTTCTACCGATACAAGT-ACT
22555250 -CTTCTACCGATACAAGT-CTT
1 ACTTCTACCGATACAAGTAC-T
22555270 ACTTCTACCGATAC
1 ACTTCTACCGATAC
22555284 TAAAAACTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 29 0.94
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTACT
Found at i:22556018 original size:24 final size:24
Alignment explanation
Indices: 22555981--22556031 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22555971 ACAAACAACA
22555981 TTAGCTCACATGAGCCCAGAATGG
1 TTAGCTCACATGAGCCCAGAATGG
** *
22556005 TTAGCTCATTTGAGCTCAGAATGG
1 TTAGCTCACATGAGCCCAGAATGG
22556029 TTA
1 TTA
22556032 ACCAGTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
TTAGCTCACATGAGCCCAGAATGG
Found at i:22558239 original size:18 final size:18
Alignment explanation
Indices: 22558216--22558258 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22558206 CCGACAAAAT
* * *
22558216 TGTCGATGCAATTGTCGC
1 TGTCGACGCAACTGTCGA
22558234 TGTCGACGCAACTGTCGA
1 TGTCGACGCAACTGTCGA
22558252 TGTCGAC
1 TGTCGAC
22558259 ACAGCTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (18 bp):
TGTCGACGCAACTGTCGA
Found at i:22559796 original size:20 final size:21
Alignment explanation
Indices: 22559771--22559809 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22559761 TGCATTTTTA
*
22559771 GCATTTT-TAACTTAGTGAAT
1 GCATTTTCTAACTCAGTGAAT
22559791 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
22559810 TGCTTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGAAT
Found at i:22565095 original size:21 final size:22
Alignment explanation
Indices: 22565065--22565105 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22565055 CCTGTGCTAG
*
22565065 TTCTATCGATACAAG-TATGAT
1 TTCTACCGATACAAGCTATGAT
22565086 TTCTACCGATACAAGCTATG
1 TTCTACCGATACAAGCTATG
22565106 CAACTACCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (22 bp):
TTCTACCGATACAAGCTATGAT
Found at i:22578430 original size:20 final size:21
Alignment explanation
Indices: 22578405--22578444 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22578395 TGCATTTTTA
*
22578405 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
22578425 GCATTTTCTAACTCAGTGAC
1 GCATTTTCTAACTCAGTGAC
22578445 GCTTGGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:22582542 original size:6 final size:6
Alignment explanation
Indices: 22582526--22582558 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
22582516 AAATATTATT
22582526 TTTTTC TTTTTTC TTTTTC -TTTTC TTTTTC TTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTT
22582559 CTTTTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:22582564 original size:10 final size:11
Alignment explanation
Indices: 22582534--22582564 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
22582524 TTTTTTTCTT
22582534 TTTTCTTTTTC
1 TTTTCTTTTTC
22582545 TTTTCTTTTTC
1 TTTTCTTTTTC
22582556 -TTTCTTTTT
1 TTTTCTTTTT
22582565 ATGTGACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:22583160 original size:17 final size:17
Alignment explanation
Indices: 22583115--22583172 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
22583105 ATATATATGG
**
22583115 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
22583132 AAATACAGTGACAATAA
1 AAATGCAATGACAATAA
*
22583149 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
*
22583166 TAATGCA
1 AAATGCA
22583173 GGGATGATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:22583747 original size:7 final size:7
Alignment explanation
Indices: 22583719--22583765 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
22583709 TCCTAGACAT
*
22583719 ATAATAA
1 ATAAAAA
22583726 ATAAATAA
1 ATAAA-AA
22583734 ATAGAAAA
1 ATA-AAAA
*
22583742 AT-GAAA
1 ATAAAAA
22583748 ATAAAAA
1 ATAAAAA
22583755 ATAAAAA
1 ATAAAAA
22583762 ATAA
1 ATAA
22583766 TTAAAAATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 5 0.15
7 18 0.53
8 9 0.26
9 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (7 bp):
ATAAAAA
Found at i:22588128 original size:23 final size:24
Alignment explanation
Indices: 22588097--22588145 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
22588087 AATGAGAATC
*
22588097 CACATAATCATATTAATATTTAAG
1 CACATAATCACATTAATATTTAAG
22588121 CACA-AATCACATTAATATTTAAG
1 CACATAATCACATTAATATTTAAG
22588144 CA
1 CA
22588146 TAGATATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (24 bp):
CACATAATCACATTAATATTTAAG
Found at i:22588945 original size:9 final size:9
Alignment explanation
Indices: 22588913--22588943 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22588903 AAAAACTGGG
22588913 GAAGATGAT
1 GAAGATGAT
22588922 GAAGATGAT
1 GAAGATGAT
*
22588931 GAAGGTGAT
1 GAAGATGAT
22588940 GAAG
1 GAAG
22588944 GTTTTGGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (9 bp):
GAAGATGAT
Found at i:22592545 original size:49 final size:50
Alignment explanation
Indices: 22592466--22592565 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 50
22592456 GGGGTAGCTT
22592466 ACACAAAGACTTGGGAACCCATGGACTTATTAGACTTTTTATATGAACAA
1 ACACAAAGACTTGGGAACCCATGGACTTATTAGACTTTTTATATGAACAA
*
22592516 ACACAAGGACTTGGG-ACCCATGGACTTATTAGACTTTTTATATGAACAA
1 ACACAAAGACTTGGGAACCCATGGACTTATTAGACTTTTTATATGAACAA
22592565 A
1 A
22592566 TGCTTGGACC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 35 0.71
50 14 0.29
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (50 bp):
ACACAAAGACTTGGGAACCCATGGACTTATTAGACTTTTTATATGAACAA
Found at i:22596625 original size:35 final size:33
Alignment explanation
Indices: 22596564--22596658 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 33
22596554 GAGCATGCTT
*
22596564 TGCTTTTCGCTAAAATTTTGGAAATAGCAAGTTAG
1 TGCTTTTCG-TAAAATTTTGG-AATAGAAAGTTAG
* *
22596599 TGCTCTTTCGTAAAAATTTGAGAATAGAAAGTTGG
1 TGCT-TTTCGTAAAATTTTG-GAATAGAAAGTTAG
* *
22596634 TGTTTTTTCCTAAAATTTTGGAATA
1 TG-CTTTTCGTAAAATTTTGGAATA
22596659 ACGGTTAGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.10
35 39 0.76
36 7 0.14
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (33 bp):
TGCTTTTCGTAAAATTTTGGAATAGAAAGTTAG
Found at i:22602444 original size:12 final size:12
Alignment explanation
Indices: 22602429--22602460 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
22602419 TTATAATCAG
22602429 AATTCTCAAGTA
1 AATTCTCAAGTA
22602441 AATTCTCAAGTA
1 AATTCTCAAGTA
22602453 AATTCTCA
1 AATTCTCA
22602461 TTCTGAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (12 bp):
AATTCTCAAGTA
Found at i:22619580 original size:38 final size:38
Alignment explanation
Indices: 22619536--22619611 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
22619526 ACTATTATTG
22619536 AATAATATTTATTTTGACTTGTTCCAAAGTGAGTTGTT
1 AATAATATTTATTTTGACTTGTTCCAAAGTGAGTTGTT
22619574 AATAATATTTATTTTGACTTGTTCCAAAGTGAGTTGTT
1 AATAATATTTATTTTGACTTGTTCCAAAGTGAGTTGTT
22619612 CTCAATGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (38 bp):
AATAATATTTATTTTGACTTGTTCCAAAGTGAGTTGTT
Found at i:22627884 original size:17 final size:17
Alignment explanation
Indices: 22627846--22627895 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
22627836 ACTGACATTA
* *
22627846 AAATACAATGACAAATGG
1 AAATGCAATGAC-AATGC
22627864 AAATGCAATGACAATGC
1 AAATGCAATGACAATGC
* *
22627881 AAATGTAGTGACAAT
1 AAATGCAATGACAAT
22627896 TAAAATGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (17 bp):
AAATGCAATGACAATGC
Found at i:22638955 original size:14 final size:16
Alignment explanation
Indices: 22638936--22638976 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
22638926 TGATAAAGTG
22638936 AAAAGAAAAATTT-T-
1 AAAAGAAAAATTTGTA
*
22638950 AAAAGAAAATTTTGTA
1 AAAAGAAAAATTTGTA
22638966 AAAAGAAAAAT
1 AAAAGAAAAAT
22638977 ATTTTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (16 bp):
AAAAGAAAAATTTGTA
Found at i:22643926 original size:16 final size:16
Alignment explanation
Indices: 22643901--22643942 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
22643891 GAGTGCTTAG
22643901 AAAG-AAAAAA-TGTTA
1 AAAGAAAAAAATTG-TA
22643916 AAAGAAAAAAATTGTA
1 AAAGAAAAAAATTGTA
22643932 AGAAGAAAAAA
1 A-AAGAAAAAA
22643943 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAGAAAAAAATTGTA
Found at i:22643943 original size:16 final size:16
Alignment explanation
Indices: 22643901--22643943 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
22643891 GAGTGCTTAG
22643901 AAAGAAAAAA-TGTTA
1 AAAGAAAAAATTGTTA
22643916 AAAGAAAAAAATTG-TA
1 AAAG-AAAAAATTGTTA
22643932 AGAAGAAAAAAT
1 A-AAGAAAAAAT
22643944 ATTTTTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (16 bp):
AAAGAAAAAATTGTTA
Found at i:22648135 original size:14 final size:13
Alignment explanation
Indices: 22648116--22648162 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
22648106 GTTTGAAAGC
*
22648116 ATAAAAGAATAAGA
1 ATAAAAAAATAA-A
22648130 ATAAAATAAA-AAA
1 ATAAAA-AAATAAA
22648143 GATAAAAAAATAAA
1 -ATAAAAAAATAAA
22648157 ATAAAA
1 ATAAAA
22648163 CTGAGTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 10 0.34
14 17 0.59
15 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:22653063 original size:21 final size:20
Alignment explanation
Indices: 22653038--22653077 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
22653028 AGCGAAAATG
22653038 AAAGAAATAGAAAGAAGAAAA
1 AAAGAAATAGAAAG-AGAAAA
*
22653059 AAAGAAATTGAAAGAGAAA
1 AAAGAAATAGAAAGAGAAA
22653078 GAGAGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAGAAATAGAAAGAGAAAA
Found at i:22653153 original size:16 final size:16
Alignment explanation
Indices: 22653097--22653193 Score: 65
Period size: 15 Copynumber: 6.0 Consensus size: 16
22653087 AGAGAAATGA
22653097 GAAAGAAAAAGAAAGT
1 GAAAGAAAAAGAAAGT
**
22653113 GCGAG-AAAAGAAATTGT
1 GAAAGAAAAAGAAA--GT
* *
22653130 GAATGAAAAAGAAAAT
1 GAAAGAAAAAGAAAGT
22653146 GAAAG-AAAAG-AAGTT
1 GAAAGAAAAAGAAAG-T
* *
22653161 GAAACAAAAAGAGAGT
1 GAAAGAAAAAGAAAGT
* *
22653177 GTGAGGAAAAAGAAAGT
1 G-AAAGAAAAAGAAAGT
22653194 AAGAGTGATG
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
14 2 0.03
15 18 0.30
16 15 0.25
17 17 0.28
18 8 0.13
ACGTcount: A:0.60, C:0.02, G:0.27, T:0.11
Consensus pattern (16 bp):
GAAAGAAAAAGAAAGT
Found at i:22655486 original size:15 final size:15
Alignment explanation
Indices: 22655417--22655514 Score: 54
Period size: 15 Copynumber: 6.5 Consensus size: 15
22655407 GCTTGGAAGA
**
22655417 TGCGAGCACTGGTGT
1 TGCGAGCACTCATGT
* *
22655432 CGCGAGAACTCATGT
1 TGCGAGCACTCATGT
* * *
22655447 TGCGAACACTGGA-GC
1 TGCGAGCACT-CATGT
* *
22655462 TACGAACACTCATGT
1 TGCGAGCACTCATGT
**
22655477 TGCGAGCACTCACAT
1 TGCGAGCACTCATGT
* * *
22655492 TGAGAACACTGATGT
1 TGCGAGCACTCATGT
22655507 TGCGAGCA
1 TGCGAGCA
22655515 TGGACGAAGG
Statistics
Matches: 58, Mismatches: 23, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
14 1 0.02
15 56 0.97
16 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (15 bp):
TGCGAGCACTCATGT
Found at i:22655668 original size:18 final size:18
Alignment explanation
Indices: 22655647--22655690 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22655637 TCATGCATTC
22655647 CGTGCATTTCATACAACT
1 CGTGCATTTCATACAACT
* * *
22655665 CGTGCACTTCTTGCAACT
1 CGTGCATTTCATACAACT
*
22655683 CATGCATT
1 CGTGCATT
22655691 CCATGCAATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (18 bp):
CGTGCATTTCATACAACT
Found at i:22670600 original size:21 final size:21
Alignment explanation
Indices: 22670554--22670600 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
22670544 CCTATTACAG
* *
22670554 TTCTAGCGATACAAGTGAGAC
1 TTCTAGCGAAACAAGTCAGAC
*
22670575 ATCTAGCGAAACAAGTCATGA-
1 TTCTAGCGAAACAAGTCA-GAC
22670596 TTCTA
1 TTCTA
22670601 CCAATGCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (21 bp):
TTCTAGCGAAACAAGTCAGAC
Found at i:22680086 original size:14 final size:13
Alignment explanation
Indices: 22680067--22680104 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
22680057 TTATTATTTT
22680067 ATAAATATAAATAA
1 ATAAATATAAA-AA
*
22680081 ATAAATATAAAAT
1 ATAAATATAAAAA
22680094 ATAAA-ATAAAA
1 ATAAATATAAAA
22680105 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
14 11 0.48
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAAATATAAAAA
Found at i:22681025 original size:30 final size:30
Alignment explanation
Indices: 22680991--22681217 Score: 196
Period size: 30 Copynumber: 7.6 Consensus size: 30
22680981 GTTTTATTTT
**
22680991 AAAATTATGTTTTAACCCCTAAATTTTCCA
1 AAAATTATAATTTAACCCCTAAATTTTCCA
*
22681021 AAAATTCA-AATTTTACCCCTAAATTTTCCA
1 AAAATT-ATAATTTAACCCCTAAATTTTCCA
* *
22681051 AAAATTCA-AATTTAACCCTTAAAATTTCCA
1 AAAATT-ATAATTTAACCCCTAAATTTTCCA
* *
22681081 AAAATT-TGAATATAACCCC-AAACTTTCCA
1 AAAATTAT-AATTTAACCCCTAAATTTTCCA
** * *
22681110 AAAATT-TGAATTTGGCCCTTAAATTTTTCA
1 AAAATTAT-AATTTAACCCCTAAATTTTCCA
* *
22681140 AAAATTCTAATTTAACCCCTAAAGTTTCCA
1 AAAATTATAATTTAACCCCTAAATTTTCCA
* * * * * *
22681170 AATACTCTATTTTGACCCCTAAAGTTTCCA
1 AAAATTATAATTTAACCCCTAAATTTTCCA
22681200 AAAATTCA-AATTTAACCC
1 AAAATT-ATAATTTAACCC
22681218 GGTTTTAATG
Statistics
Matches: 162, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.15
30 136 0.84
31 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTATAATTTAACCCCTAAATTTTCCA
Found at i:22681065 original size:60 final size:60
Alignment explanation
Indices: 22681001--22681217 Score: 238
Period size: 60 Copynumber: 3.6 Consensus size: 60
22680991 AAAATTATGT
* *
22681001 TTTAACCCCTAAATTTTCCAAAAATTCAAATTTTACCCCTAAATTTTCCAAAAATTCAAA
1 TTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCCAAAAATTCAAA
* * ** * **
22681061 TTTAACCCTTAAAATTTCCAAAAATTTGAATATAACCCC-AAACTTTCCAAAAATTTGAA
1 TTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCCAAAAATTCAAA
** * * * * * * * *
22681120 TTTGGCCCTTAAATTTTTCAAAAATTCTAATTTAACCCCTAAAGTTTCCAAATACTCTAT
1 TTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCCAAAAATTCAAA
* *
22681180 TTTGACCCCTAAAGTTTCCAAAAATTCAAATTTAACCC
1 TTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACCC
22681218 GGTTTTAATG
Statistics
Matches: 129, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
59 49 0.38
60 80 0.62
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (60 bp):
TTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCCAAAAATTCAAA
Found at i:22681110 original size:89 final size:90
Alignment explanation
Indices: 22681003--22681217 Score: 254
Period size: 89 Copynumber: 2.4 Consensus size: 90
22680993 AATTATGTTT
* *
22681003 TAACCCCTAAATTTTCCAAAAATTCAAATTTTACCCCTAAATTTTCCAAAAATTCAAATTTAACC
1 TAACCCCTAAACTTTCCAAAAATTCAAATTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACC
* *
22681068 CTTAAAATTTCCAAA-AATTTGAATA
66 CCTAAAATTTCCAAATAATCT-AATA
** ** * * *
22681093 TAACCCC-AAACTTTCCAAAAATTTGAATTTGGCCCTTAAATTTTTCAAAAATTCTAATTTAACC
1 TAACCCCTAAACTTTCCAAAAATTCAAATTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACC
* * * *
22681157 CCTAAAGTTTCCAAATACTCTATTT
66 CCTAAAATTTCCAAATAATCTAATA
* *
22681182 TGACCCCTAAAGTTTCCAAAAATTCAAATTTAACCC
1 TAACCCCTAAACTTTCCAAAAATTCAAATTTAACCC
22681218 GGTTTTAATG
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
89 70 0.68
90 33 0.32
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (90 bp):
TAACCCCTAAACTTTCCAAAAATTCAAATTTAACCCCTAAATTTTCCAAAAATTCAAATTTAACC
CCTAAAATTTCCAAATAATCTAATA
Found at i:22683050 original size:22 final size:19
Alignment explanation
Indices: 22683019--22683059 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
22683009 ATTTTATATG
22683019 TAATTTTGAATTGATAAATTT
1 TAATTTTGAATT-A-AAATTT
22683040 TAATTATTGAATTAAAATTT
1 TAATT-TTGAATTAAAATTT
22683060 AGTAAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
TAATTTTGAATTAAAATTT
Found at i:22684705 original size:23 final size:24
Alignment explanation
Indices: 22684659--22684747 Score: 144
Period size: 24 Copynumber: 3.8 Consensus size: 24
22684649 AAACTCTGTT
22684659 TGGGCTCGTAAGAGCTAACCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
22684683 TGGGCTCGTAAGAGC-AACCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
*
22684706 TAGGCTCGTAAGAGCTAACCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
**
22684730 TGGGCTCGTGTGAGCTAA
1 TGGGCTCGTAAGAGCTAA
22684748 AGTTGTCTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
23 22 0.37
24 38 0.63
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (24 bp):
TGGGCTCGTAAGAGCTAACCATTC
Found at i:22684770 original size:25 final size:23
Alignment explanation
Indices: 22684727--22684780 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
22684717 GAGCTAACCA
* * *
22684727 TTCTGGGCTCGTGTGAGCTAAAGT
1 TTCTGGGCTCATATAAGCTAAA-T
22684751 TGTCTGGGCTCATATAAGCTAAAT
1 T-TCTGGGCTCATATAAGCTAAAT
22684775 TTCTGG
1 TTCTGG
22684781 AAGACTCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 3 0.12
25 18 0.69
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (23 bp):
TTCTGGGCTCATATAAGCTAAAT
Found at i:22686189 original size:31 final size:31
Alignment explanation
Indices: 22686153--22686224 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
22686143 TGCATAGGCA
*
22686153 TTCATGCATTCATAAAATTTCGCATTGCATT
1 TTCATGCATTCATAAAATTTCGCATCGCATT
* *
22686184 TTCATGCATTCATAAAGTTTTGCATCGCATT
1 TTCATGCATTCATAAAATTTCGCATCGCATT
22686215 TTCATGCATT
1 TTCATGCATT
22686225 AAAATATCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.43
Consensus pattern (31 bp):
TTCATGCATTCATAAAATTTCGCATCGCATT
Found at i:22691146 original size:15 final size:15
Alignment explanation
Indices: 22691126--22691160 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
22691116 CGGTTCCAAC
22691126 CAATTTAGGCTTGCT
1 CAATTTAGGCTTGCT
22691141 CAATTTAGGCTTGCT
1 CAATTTAGGCTTGCT
22691156 CAATT
1 CAATT
22691161 CAGACTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (15 bp):
CAATTTAGGCTTGCT
Found at i:22694202 original size:30 final size:30
Alignment explanation
Indices: 22694166--22694229 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
22694156 TCGCAACATA
* * * *
22694166 AGTGTTCCTAACATCAGTTCTCACAGCTCC
1 AGTGTTCCGAACATCAGTGCTCACAACACC
* *
22694196 AGTGTTCGGAACATGAGTGCTCACAACACC
1 AGTGTTCCGAACATCAGTGCTCACAACACC
22694226 AGTG
1 AGTG
22694230 CTCGCATCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (30 bp):
AGTGTTCCGAACATCAGTGCTCACAACACC
Found at i:22698016 original size:25 final size:26
Alignment explanation
Indices: 22697972--22698025 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
22697962 AAATATTTCA
* *
22697972 TTAATAATTTGGGTTTATTTAATTAT
1 TTAATAATTTGGATTAATTTAATTAT
* *
22697998 TTAATAA-TTGGATTAATTTTATTCT
1 TTAATAATTTGGATTAATTTAATTAT
22698023 TTA
1 TTA
22698026 GTCCTTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAATAATTTGGATTAATTTAATTAT
Found at i:22700382 original size:4 final size:4
Alignment explanation
Indices: 22700357--22700398 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
22700347 ACAAAAACCA
22700357 ATTT AATTT A-TT A-TT A-TT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
22700399 TTATTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
3 9 0.25
4 23 0.64
5 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:22700392 original size:22 final size:22
Alignment explanation
Indices: 22700357--22700404 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
22700347 ACAAAAACCA
22700357 ATTTAATTTATTA-TTATTATTT
1 ATTTAATTTATTATTTATT-TTT
22700379 ATTT-ATTTATTTATTTATTTTT
1 ATTTAATTTA-TTATTTATTTTT
22700401 ATTT
1 ATTT
22700405 TATAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTAATTTATTATTTATTTTT
Found at i:22702571 original size:15 final size:15
Alignment explanation
Indices: 22702551--22702583 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22702541 TCATCCGTGC
22702551 TCGCAACA-CAAGTGT
1 TCGCAACATC-AGTGT
22702566 TCGCAACATCAGTGT
1 TCGCAACATCAGTGT
22702581 TCG
1 TCG
22702584 TGTCCTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (15 bp):
TCGCAACATCAGTGT
Found at i:22711439 original size:54 final size:54
Alignment explanation
Indices: 22711344--22711663 Score: 466
Period size: 54 Copynumber: 6.0 Consensus size: 54
22711334 CTGTTATTGG
* *
22711344 ACCTTTAATCCGTAATAGGA-TTCATATTACTCACGATGACATAGAGTCATCGA
1 ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGA
* * * *
22711397 ACCTTTAATCTGTAATAGGATTTCATATAACTCACGATGACATAGAGTCATTGG
1 ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGA
* *
22711451 ACCTTTAATCTGTAATAGGATTTCATATAATTCACGATGACACAGAGTCATCGA
1 ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGA
* *
22711505 ACTTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAAAGAGTCATC-A
1 ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGA
* * *
22711558 GACCTTTAATTCGTAATAGGATTTCACATAACTCACGATGACACAGAGTCATCGG
1 -ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGA
* * *
22711613 ACCTTTAATCCGTAATATGA-TTCATGTAACTCACGATGACACAAAGTCATC
1 ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATC
22711664 TGACCTATTT
Statistics
Matches: 242, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 48 0.20
54 194 0.80
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (54 bp):
ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGA
Found at i:22726162 original size:53 final size:54
Alignment explanation
Indices: 22726054--22726334 Score: 406
Period size: 53 Copynumber: 5.3 Consensus size: 54
22726044 CAGGAGCTCC
* * *
22726054 GTCACCGGACCTTTAATCCATAATAGGA-TTCATATGACTCACGATGACACAGA
1 GTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGA
* * *
22726107 GTCATTGTATCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAC-GA
1 GTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGA
** *
22726160 GTCATCACACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAAA
1 GTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGA
* * *
22726214 GTCATCGGACCTTTAATCCATAATAGGATTTCATATAACTAACAATGACACAGA
1 GTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGA
* *
22726268 GTCATCGGACCTTTAATCCGTAATAGGA-TTCATATAACTCACAATGACACAAA
1 GTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGA
*
22726321 GTCATCGGGCCTTT
1 GTCATCGGACCTTT
22726335 TTGCATTTAA
Statistics
Matches: 205, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 108 0.53
54 97 0.47
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (54 bp):
GTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGA
Found at i:22726205 original size:107 final size:107
Alignment explanation
Indices: 22726062--22726334 Score: 413
Period size: 107 Copynumber: 2.6 Consensus size: 107
22726052 CCGTCACCGG
* * * * * * *
22726062 ACCTTTAATCCATAATAGGATTCATATGACTCACGATGACACAGAGTCATTGTATCTTTAATCCG
1 ACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCA
* *
22726127 TAATAGGATTTCATATAACTCACGATGACAC-GAGTCATCAC
66 TAATAGGATTTCATATAACTAACAATGACACAGAGTCATCAC
22726168 ACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAAAGTCATCGGACCTTTAATCC
1 ACCTTTAATCCGTAATAGGA-TTCATATAACTCACGATGACACAAAGTCATCGGACCTTTAATCC
**
22726233 ATAATAGGATTTCATATAACTAACAATGACACAGAGTCATCGG
65 ATAATAGGATTTCATATAACTAACAATGACACAGAGTCATCAC
* *
22726276 ACCTTTAATCCGTAATAGGATTCATATAACTCACAATGACACAAAGTCATCGGGCCTTT
1 ACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAAAGTCATCGGACCTTT
22726335 TTGCATTTAA
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
106 19 0.12
107 105 0.69
108 28 0.18
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (107 bp):
ACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCA
TAATAGGATTTCATATAACTAACAATGACACAGAGTCATCAC
Found at i:22730061 original size:19 final size:19
Alignment explanation
Indices: 22730037--22730093 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
22730027 TTCATGCAAT
**
22730037 CCAATAATGCTCTTACGAG
1 CCAATAATGCTCAAACGAG
*
22730056 CCAATATTGCTCAAACGAG
1 CCAATAATGCTCAAACGAG
* *
22730075 CCAGT-ATGCTCAAATGAG
1 CCAATAATGCTCAAACGAG
22730093 C
1 C
22730094 AAGTATGTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 12 0.38
19 20 0.62
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (19 bp):
CCAATAATGCTCAAACGAG
Found at i:22730086 original size:18 final size:18
Alignment explanation
Indices: 22730051--22730100 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
22730041 TAATGCTCTT
*
22730051 ACGAGCCAATATTGCTCAA
1 ACGAGCCAGTA-TGCTCAA
22730070 ACGAGCCAGTATGCTCAA
1 ACGAGCCAGTATGCTCAA
* *
22730088 ATGAGCAAGTATG
1 ACGAGCCAGTATG
22730101 TTATTCCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (18 bp):
ACGAGCCAGTATGCTCAA
Found at i:22732305 original size:25 final size:25
Alignment explanation
Indices: 22732271--22732321 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
22732261 TTGAATTTAA
*
22732271 TTTTTTTTAATTTAGTA-TCTAAAT
1 TTTTTTTTAATTTAGTACTCAAAAT
22732295 TTTTTATTTAATTTAGTACTCAAAAT
1 TTTTT-TTTAATTTAGTACTCAAAAT
22732321 T
1 T
22732322 GATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.21
25 12 0.50
26 7 0.29
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTTTTTTAATTTAGTACTCAAAAT
Found at i:22732327 original size:25 final size:25
Alignment explanation
Indices: 22732276--22732328 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
22732266 TTTAATTTTT
* **
22732276 TTTAATTTAGTATCTAAATTTTTTA
1 TTTAATTTAGTATCTAAAATTGATA
22732301 TTTAATTTAGTA-CTCAAAATTGATA
1 TTTAATTTAGTATCT-AAAATTGATA
22732326 TTT
1 TTT
22732329 TTTTCTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTAATTTAGTATCTAAAATTGATA
Found at i:22734215 original size:25 final size:27
Alignment explanation
Indices: 22734176--22734230 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
22734166 TAAAAGTTGA
*
22734176 TAAAAAAAATTTTGAACC-CTTAAAAGT
1 TAAAAAAAA-TTTGAACCTCTGAAAAGT
22734203 TAAAAAAAA-TTGAACCTCTGAAAAGT
1 TAAAAAAAATTTGAACCTCTGAAAAGT
22734229 TA
1 TA
22734231 GTAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
27 9 0.35
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (27 bp):
TAAAAAAAATTTGAACCTCTGAAAAGT
Found at i:22736089 original size:23 final size:23
Alignment explanation
Indices: 22736061--22736104 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
22736051 TAGTCATATC
22736061 ATTTTTATTTTTAAAATTTTAGT
1 ATTTTTATTTTTAAAATTTTAGT
*
22736084 ATTTTTATTTTTTAAATTTTA
1 ATTTTTATTTTTAAAATTTTA
22736105 AAATTTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTTATTTTTAAAATTTTAGT
Found at i:22736110 original size:23 final size:23
Alignment explanation
Indices: 22736061--22736110 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
22736051 TAGTCATATC
**
22736061 ATTTTTATTTTTAAAATTTTAGT
1 ATTTTTATTTTTAAAATTTTAAA
*
22736084 ATTTTTATTTTTTAAATTTTAAA
1 ATTTTTATTTTTAAAATTTTAAA
22736107 ATTT
1 ATTT
22736111 AAGTTTTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
ATTTTTATTTTTAAAATTTTAAA
Found at i:22745081 original size:12 final size:11
Alignment explanation
Indices: 22745060--22745089 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
22745050 GAGATAAAGG
22745060 TTTTGGAGTGT
1 TTTTGGAGTGT
22745071 TTTTAGGAGTGT
1 TTTT-GGAGTGT
22745083 TTTTGGA
1 TTTTGGA
22745090 TGCACAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (11 bp):
TTTTGGAGTGT
Found at i:22754479 original size:19 final size:19
Alignment explanation
Indices: 22754457--22754501 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22754447 TTTTAGTAGG
22754457 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
22754476 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
22754495 ATTTAAT
1 ATTTAAT
22754502 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:22782442 original size:31 final size:31
Alignment explanation
Indices: 22782407--22782478 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
22782397 TGCATATGCA
22782407 TTCATGCATTCATAAAATTTCACATCGCATT
1 TTCATGCATTCATAAAATTTCACATCGCATT
* **
22782438 TTCATGCATTCATAAAGTTTTTCATCGCATT
1 TTCATGCATTCATAAAATTTCACATCGCATT
22782469 TTCATGCATT
1 TTCATGCATT
22782479 AAAATATAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (31 bp):
TTCATGCATTCATAAAATTTCACATCGCATT
Found at i:22787253 original size:50 final size:49
Alignment explanation
Indices: 22787170--22787335 Score: 174
Period size: 50 Copynumber: 3.3 Consensus size: 49
22787160 CGATGAGTCC
* *
22787170 CATAC-CCATAAAGCTGTAGAGGAACAGATTGAAGCCGTAATGGAAAATCT
1 CATACACC-TAAAGCTGTAGAGG-GCAGATTGAAGCCGCAATGGAAAATCT
* * * *
22787220 CGTACACCTAAAGCTGTAGAGAGGTAGATTGAAGCTGCAATGGTAAATCT
1 CATACACCTAAAGCTGTAGAG-GGCAGATTGAAGCCGCAATGGAAAATCT
* *
22787270 CATTCACCTAAAGCTGTAGAGGGGCAGATTGAAGTCGCAA-GGACAAATCT
1 CATACACCTAAAGCTGTAGA-GGGCAGATTGAAGCCGCAATGGA-AAATCT
* * *
22787320 TATACTCCTGAAGCTG
1 CATACACCTAAAGCTG
22787336 AAATGGAGTG
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 90 0.94
51 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (49 bp):
CATACACCTAAAGCTGTAGAGGGCAGATTGAAGCCGCAATGGAAAATCT
Found at i:22787415 original size:39 final size:39
Alignment explanation
Indices: 22787361--22787572 Score: 160
Period size: 39 Copynumber: 5.4 Consensus size: 39
22787351 ATAACCTCTG
22787361 ATCTTTTACCCTAACCATGGGGCAGATTGAAACAATCCA
1 ATCTTTTACCCTAACCATGGGGCAGATTGAAACAATCCA
* ** * * *
22787400 ATCTTTTACACTAACCAAAGGGAAGATTGAAGACCATCCG
1 ATCTTTTACCCTAACCATGGGGCAGATTGAA-ACAATCCA
* * ** ** *
22787440 ATCTCTTAACCC-GACCATAAGGCAGATTGAAGTAATTCA
1 ATCT-TTTACCCTAACCATGGGGCAGATTGAAACAATCCA
* * *
22787479 ATCTATTACCCTAACTA-GAGGGCAGATTGAAGACCAT-CA
1 ATCTTTTACCCTAACCATG-GGGCAGATTGAA-ACAATCCA
* ** * *
22787518 GATCTCTTACCCCGACCATGGGGCAGATTGAAATAATTCA
1 -ATCTTTTACCCTAACCATGGGGCAGATTGAAACAATCCA
22787558 ATCTTTTACCTCTAA
1 ATCTTTTACC-CTAA
22787573 AGCTATAGAG
Statistics
Matches: 129, Mismatches: 35, Indels: 17
0.71 0.19 0.09
Matches are distributed among these distances:
38 5 0.04
39 62 0.48
40 56 0.43
41 6 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (39 bp):
ATCTTTTACCCTAACCATGGGGCAGATTGAAACAATCCA
Found at i:22787542 original size:40 final size:40
Alignment explanation
Indices: 22787360--22787549 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
22787350 TATAACCTCT
* *
22787360 GATCTTTTACCCTAACCATGGGGCAGATTGAA-ACAATCCA
1 GATCTCTTACCCTAACCATGGGGCAGATTGAAGACCAT-CA
* * ** * *
22787400 -ATCTTTTACACTAACCAAAGGGAAGATTGAAGACCATCC
1 GATCTCTTACCCTAACCATGGGGCAGATTGAAGACCATCA
* **
22787439 GATCTCTTAACCC-GACCATAAGGCAGATTGAAGTA--ATTCA
1 GATCTCTT-ACCCTAACCATGGGGCAGATTGAAG-ACCA-TCA
* *
22787479 -ATCTATTACCCTAACTA-GAGGGCAGATTGAAGACCATCA
1 GATCTCTTACCCTAACCATG-GGGCAGATTGAAGACCATCA
**
22787518 GATCTCTTACCCCGACCATGGGGCAGATTGAA
1 GATCTCTTACCCTAACCATGGGGCAGATTGAA
22787550 ATAATTCAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 22
0.73 0.14 0.14
Matches are distributed among these distances:
38 5 0.04
39 53 0.45
40 54 0.46
41 5 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
GATCTCTTACCCTAACCATGGGGCAGATTGAAGACCATCA
Found at i:22787567 original size:79 final size:79
Alignment explanation
Indices: 22787360--22787572 Score: 282
Period size: 79 Copynumber: 2.7 Consensus size: 79
22787350 TATAACCTCT
* ** * * *
22787360 GATCTTTTACCCTAACCATGGGGCAGATTGAAACAATCCAATCTTTTACACTAACCAAAGGGAAG
1 GATCTCTTACCCCGACCATGGGGCAGATTGAAATAATTCAATCTTTTACCCTAACCAAAGGGAAG
*
22787425 ATTGAAGACCATCC
66 ATTGAAGACCATCA
* ** * * * * *
22787439 GATCTCTTAACCCGACCATAAGGCAGATTGAAGTAATTCAATCTATTACCCTAACTAGAGGGCAG
1 GATCTCTTACCCCGACCATGGGGCAGATTGAAATAATTCAATCTTTTACCCTAACCAAAGGGAAG
22787504 ATTGAAGACCATCA
66 ATTGAAGACCATCA
22787518 GATCTCTTACCCCGACCATGGGGCAGATTGAAATAATTCAATCTTTTACCTCTAA
1 GATCTCTTACCCCGACCATGGGGCAGATTGAAATAATTCAATCTTTTACC-CTAA
22787573 AGCTATAGAG
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 109 0.96
80 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (79 bp):
GATCTCTTACCCCGACCATGGGGCAGATTGAAATAATTCAATCTTTTACCCTAACCAAAGGGAAG
ATTGAAGACCATCA
Found at i:22794536 original size:28 final size:28
Alignment explanation
Indices: 22794496--22794551 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22794486 GTGCCACCTG
22794496 GACAGGTAATGGGTTCCATAACTACACT
1 GACAGGTAATGGGTTCCATAACTACACT
22794524 GACAGGTAATGGGTTCCATAACTACACT
1 GACAGGTAATGGGTTCCATAACTACACT
22794552 ATGTATAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
GACAGGTAATGGGTTCCATAACTACACT
Found at i:22815048 original size:15 final size:15
Alignment explanation
Indices: 22815030--22815092 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
22815020 CGCATTGTGT
*
22815030 GTGTTCACAACACGA
1 GTGTTCACAACACCA
* * *
22815045 GTGTTCGCAGCTCCA
1 GTGTTCACAACACCA
* **
22815060 GTGTTCGCAACATGA
1 GTGTTCACAACACCA
*
22815075 GTGCTCACAACACCA
1 GTGTTCACAACACCA
22815090 GTG
1 GTG
22815093 CTCGCAAGGT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (15 bp):
GTGTTCACAACACCA
Found at i:22815091 original size:30 final size:30
Alignment explanation
Indices: 22815030--22815099 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
22815020 CGCATTGTGT
* * * * *
22815030 GTGTTCACAACACGAGTGTTCGCAGCTCCA
1 GTGTTCGCAACACGAGTGCTCACAACACCA
*
22815060 GTGTTCGCAACATGAGTGCTCACAACACCA
1 GTGTTCGCAACACGAGTGCTCACAACACCA
*
22815090 GTGCTCGCAA
1 GTGTTCGCAA
22815100 GGTCCATGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (30 bp):
GTGTTCGCAACACGAGTGCTCACAACACCA
Found at i:22817293 original size:21 final size:21
Alignment explanation
Indices: 22817269--22817315 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
22817259 TCACTCATAC
*
22817269 TTTCATCACTCTCACTTTCTT-
1 TTTCATCACGCTCACTTT-TTG
* *
22817290 TTTCCTCACGCTCTCTTTTTG
1 TTTCATCACGCTCACTTTTTG
22817311 TTTCA
1 TTTCA
22817316 ACTTCTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.11, C:0.32, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTCATCACGCTCACTTTTTG
Found at i:22822195 original size:437 final size:437
Alignment explanation
Indices: 22821381--22822260 Score: 1751
Period size: 437 Copynumber: 2.0 Consensus size: 437
22821371 TACTCTATCC
22821381 AAATTGTGTAGGTGTCCTTTTATCAGAATCAAGCTATCGTTGGTCGTACAAGTTGGTTATACCAG
1 AAATTGTGTAGGTGTCCTTTTATCAGAATCAAGCTATCGTTGGTCGTACAAGTTGGTTATACCAG
22821446 ATTGGACAACTCACACATTTCTTTTCTTATTCAGACATTTGTCGGATGCGACGATAATCCTAGAC
66 ATTGGACAACTCACACATTTCTTTTCTTATTCAGACATTTGTCGGATGCGACGATAATCCTAGAC
22821511 ACAATCTGAAAATGCTCATACAGTGACATTAGTACCAGATAATGTCAAAATTAAGGGTAAGTAGG
131 ACAATCTGAAAATGCTCATACAGTGACATTAGTACCAGATAATGTCAAAATTAAGGGTAAGTAGG
22821576 CTAAGGTCCATTGAGTCATAAAATGCAATTAACTAAACTAAAAAAATGCTAAAATATGTGCTAAA
196 CTAAGGTCCATTGAGTCATAAAATGCAATTAACTAAACTAAAAAAATGCTAAAATATGTGCTAAA
22821641 GATAACTAAATGGGAACAACTTAACCAATAAGTAGGGAGAAAACATATGTTCTTTCTAGCACTAT
261 GATAACTAAATGGGAACAACTTAACCAATAAGTAGGGAGAAAACATATGTTCTTTCTAGCACTAT
22821706 CAGATAGTTAATTAATCACTCAAACACTTGACCAATTATTCCCTTGTGTCCAAACTTACACACTT
326 CAGATAGTTAATTAATCACTCAAACACTTGACCAATTATTCCCTTGTGTCCAAACTTACACACTT
22821771 AATTTAAAACATAGGAGCTAGCAGTTTCGCTATTTCTTGATAAAGTA
391 AATTTAAAACATAGGAGCTAGCAGTTTCGCTATTTCTTGATAAAGTA
22821818 AAATTGTGTAGGTGTCCTTTTATCAGAATCAAGCTATCGTTGGTCGTACAAGTTGGTTATACCAG
1 AAATTGTGTAGGTGTCCTTTTATCAGAATCAAGCTATCGTTGGTCGTACAAGTTGGTTATACCAG
22821883 ATTGGACAACTCACACATTTCTTTTCTTATTCAGACATTTGTCGGATGCGACGATAATCCTAGAC
66 ATTGGACAACTCACACATTTCTTTTCTTATTCAGACATTTGTCGGATGCGACGATAATCCTAGAC
22821948 ACAATCTGAAAATGCTCATACAGTGACATTAGTACCAGATAATGTCAAAATTAAGGGTAAGTAGG
131 ACAATCTGAAAATGCTCATACAGTGACATTAGTACCAGATAATGTCAAAATTAAGGGTAAGTAGG
22822013 CTAAGGTCCATTGAGTCATAAAATGCAATTAACTAAACTAAAAAAATGCTAAAATATGTGCTAAA
196 CTAAGGTCCATTGAGTCATAAAATGCAATTAACTAAACTAAAAAAATGCTAAAATATGTGCTAAA
22822078 GATAACTAAATGGGAACAACTTAACCAATAAGTAGGGAGAAAACATATGTTCTTTCTAGCACTAT
261 GATAACTAAATGGGAACAACTTAACCAATAAGTAGGGAGAAAACATATGTTCTTTCTAGCACTAT
*
22822143 CAGATAGTTAATTAATCACTCAAACACTTGACCAATTATTCCCTTGTGTCCAAACTTGCACACTT
326 CAGATAGTTAATTAATCACTCAAACACTTGACCAATTATTCCCTTGTGTCCAAACTTACACACTT
22822208 AATTTAAAACATAGGAGCTAGCAGTTTCGCTATTTCTTGATAAAGTA
391 AATTTAAAACATAGGAGCTAGCAGTTTCGCTATTTCTTGATAAAGTA
22822255 AAATTG
1 AAATTG
22822261 GGGCGTGACA
Statistics
Matches: 442, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
437 442 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (437 bp):
AAATTGTGTAGGTGTCCTTTTATCAGAATCAAGCTATCGTTGGTCGTACAAGTTGGTTATACCAG
ATTGGACAACTCACACATTTCTTTTCTTATTCAGACATTTGTCGGATGCGACGATAATCCTAGAC
ACAATCTGAAAATGCTCATACAGTGACATTAGTACCAGATAATGTCAAAATTAAGGGTAAGTAGG
CTAAGGTCCATTGAGTCATAAAATGCAATTAACTAAACTAAAAAAATGCTAAAATATGTGCTAAA
GATAACTAAATGGGAACAACTTAACCAATAAGTAGGGAGAAAACATATGTTCTTTCTAGCACTAT
CAGATAGTTAATTAATCACTCAAACACTTGACCAATTATTCCCTTGTGTCCAAACTTACACACTT
AATTTAAAACATAGGAGCTAGCAGTTTCGCTATTTCTTGATAAAGTA
Found at i:22824151 original size:54 final size:54
Alignment explanation
Indices: 22824043--22824373 Score: 409
Period size: 54 Copynumber: 6.2 Consensus size: 54
22824033 GAGCTCCGTT
* * *
22824043 ATCGGACCTTTAATCCGTAATAGGA-TTCATATTACTCACAATAACACAA-AGTC
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACA-AAGAGTC
* ** * *
22824096 ATCGAACCTTTAATCTATAATAGGATTTCATATAACTCATGATGACATATG-GTC
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACA-AAGAGTC
* * * *
22824150 ATTGGACCTTTAATCCGTAATAGGATTTCATATAATTCACGATGACACAGACTC
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAAAGAGTC
* * * *
22824204 GTCGGACTTTTAATCTGTAATAGGATTTCATATAACTCATGATGACAAAGAGTC
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAAAGAGTC
* * *
22824258 ATCAGACCTTTAATCCGTAATAGGATTTCATATAACTCATGATGACAAAGAGTT
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAAAGAGTC
** * *
22824312 ATCGGACCTTTAATCCACAATAGGA-TTCATGTAACTCACGATGACATAGAGTC
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAAAGAGTC
22824365 ATCGGACCT
1 ATCGGACCT
22824374 ATTTGCATTT
Statistics
Matches: 237, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
53 56 0.24
54 181 0.76
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (54 bp):
ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACAAAGAGTC
Found at i:22824234 original size:108 final size:108
Alignment explanation
Indices: 22824043--22824373 Score: 452
Period size: 108 Copynumber: 3.1 Consensus size: 108
22824033 GAGCTCCGTT
* * * * *
22824043 ATCGGACCTTTAATCCGTAATAGGA-TTCATATTACTCACAATAACACAAAGTCATCGAACCTTT
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGACCTTT
22824107 AATCTATAATAGGATTTCATATAACTCATGATGACATATG-GTC
66 AATCTATAATAGGATTTCATATAACTCATGATGACATA-GAGTC
* * * * *
22824150 ATTGGACCTTTAATCCGTAATAGGATTTCATATAATTCACGATGACACAGACTCGTCGGACTTTT
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGACCTTT
* *
22824215 AATCTGTAATAGGATTTCATATAACTCATGATGACAAAGAGTC
66 AATCTATAATAGGATTTCATATAACTCATGATGACATAGAGTC
* * * *
22824258 ATCAGACCTTTAATCCGTAATAGGATTTCATATAACTCATGATGACAAAGAGTTATCGGACCTTT
1 ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGACCTTT
* * * *
22824323 AATCCACAATAGGA-TTCATGTAACTCACGATGACATAGAGTC
66 AATCTATAATAGGATTTCATATAACTCATGATGACATAGAGTC
22824365 ATCGGACCT
1 ATCGGACCT
22824374 ATTTGCATTT
Statistics
Matches: 194, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
107 58 0.30
108 136 0.70
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (108 bp):
ATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGACCTTT
AATCTATAATAGGATTTCATATAACTCATGATGACATAGAGTC
Found at i:22826390 original size:47 final size:48
Alignment explanation
Indices: 22826320--22826418 Score: 191
Period size: 47 Copynumber: 2.1 Consensus size: 48
22826310 ATGATTTAAG
22826320 TTTAGGGATGTGTAAGCTGAAAAATATATAGGTTTTTTTCCTATGTAA
1 TTTAGGGATGTGTAAGCTGAAAAATATATAGGTTTTTTTCCTATGTAA
22826368 TTTAGGG-TGTGTAAGCTGAAAAATATATAGGTTTTTTTCCTATGTAA
1 TTTAGGGATGTGTAAGCTGAAAAATATATAGGTTTTTTTCCTATGTAA
22826415 TTTA
1 TTTA
22826419 TCACCTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 44 0.86
48 7 0.14
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (48 bp):
TTTAGGGATGTGTAAGCTGAAAAATATATAGGTTTTTTTCCTATGTAA
Found at i:22838956 original size:17 final size:17
Alignment explanation
Indices: 22838936--22838979 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
22838926 TAAGCATTTG
22838936 CATTGCA-TTCTCATTGT
1 CATTGCATTTC-CATTGT
22838953 CATTGCATTTCCATTGT
1 CATTGCATTTCCATTGT
22838970 CATTGCATTT
1 CATTGCATTT
22838980 TAATGCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (17 bp):
CATTGCATTTCCATTGT
Found at i:22844493 original size:21 final size:21
Alignment explanation
Indices: 22844469--22844515 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
22844459 TCACTCATAC
*
22844469 TTTCATCACTCTCACTTTATT-
1 TTTCATCACGCTCACTTT-TTG
* *
22844490 TTTCCTCACGCTCTCTTTTTG
1 TTTCATCACGCTCACTTTTTG
22844511 TTTCA
1 TTTCA
22844516 ACTTCTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.13, C:0.30, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTCATCACGCTCACTTTTTG
Found at i:22847286 original size:11 final size:11
Alignment explanation
Indices: 22847270--22847320 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
22847260 GGAGCCCTCC
22847270 TCTCTTCTTTT
1 TCTCTTCTTTT
22847281 TCTCTTCTCTTT
1 TCTCTTCT-TTT
*
22847293 T-TCTCCTTTT
1 TCTCTTCTTTT
22847303 T-TCTTCTTTT
1 TCTCTTCTTTT
*
22847313 TCCCTTCT
1 TCTCTTCT
22847321 CCTCTCCCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 13 0.37
11 18 0.51
12 4 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
TCTCTTCTTTT
Found at i:22848673 original size:16 final size:16
Alignment explanation
Indices: 22848652--22848690 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
22848642 ATTGATGATA
22848652 TATGTGATCCTAAAGT
1 TATGTGATCCTAAAGT
22848668 TATGTGATCCTAAAGT
1 TATGTGATCCTAAAGT
22848684 TATGTGA
1 TATGTGA
22848691 AATTGATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (16 bp):
TATGTGATCCTAAAGT
Found at i:22853633 original size:54 final size:54
Alignment explanation
Indices: 22853517--22853847 Score: 441
Period size: 54 Copynumber: 6.2 Consensus size: 54
22853507 GAGCTCCGTT
* * *
22853517 ATCGGACCTTTAATCCATAATAGGA-TTCATATTACTCACGATGACACAAAGTA
1 ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
* ** * * * *
22853570 ATCGAACCTTTAATCTGTAATAGGATTTCATATAACTCATGATGACATATAATC
1 ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
* *
22853624 ATTGGACCTTTAATCCATAATAGGATTTCATATAATTCACGATGACACAGAGTC
1 ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
* * * *
22853678 ATCGGACTTTTAATCCATAATAAGATTTCATATAACTCATGATGACAAAGAGTC
1 ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
* * *
22853732 ATCAGACCTTTAATCCGTAATAGGATTTTATATAACTCACGATGACACAGAGTC
1 ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
* * *
22853786 ATCGGACCTTTAATCCGTAATAGGA-TTCATGTAACTCACGATGACATAGAGTC
1 ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
*
22853839 ATCAGACCT
1 ATCGGACCT
22853848 ATTTGCATTT
Statistics
Matches: 241, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 55 0.23
54 186 0.77
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (54 bp):
ATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGAGTC
Found at i:22858641 original size:53 final size:54
Alignment explanation
Indices: 22858561--22858788 Score: 298
Period size: 54 Copynumber: 4.3 Consensus size: 54
22858551 CAGGAGCTCC
* * * * * *
22858561 GTCATCAGACCTTTAATTCGTAATAGGA-TTCATATGACTCATGATGACATAGA
1 GTCATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGA
* * *
22858614 GTCATCGGATCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACGGA
1 GTCATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGA
* * *
22858668 GTTATCTGACCTTTAATCCATAATAAGATTTCATATAACTCACGATGACACAGA
1 GTCATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGA
* * *
22858722 GTCATCGAACCTTTAATCCATAATAGGA-TTCATATAATTCACGATGACACAAA
1 GTCATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGA
*
22858775 ATCATCGGACCTTT
1 GTCATCGGACCTTT
22858789 TTGCATTTAC
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 60 0.39
54 93 0.61
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (54 bp):
GTCATCGGACCTTTAATCCATAATAGGATTTCATATAACTCACGATGACACAGA
Found at i:22862503 original size:18 final size:19
Alignment explanation
Indices: 22862468--22862510 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
22862458 TAATGCTCTC
22862468 ACGAGCCAATATTGCTCAA
1 ACGAGCCAATATTGCTCAA
22862487 ACGAGCCAATA-TGCTCAA
1 ACGAGCCAATATTGCTCAA
22862505 ACGAGC
1 ACGAGC
22862511 AAGTATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (19 bp):
ACGAGCCAATATTGCTCAA
Found at i:22880489 original size:127 final size:126
Alignment explanation
Indices: 22880264--22880519 Score: 467
Period size: 127 Copynumber: 2.0 Consensus size: 126
22880254 GGGCCTGTAC
*
22880264 ATTGAAAAATATATAGGTTTTTTTCCTATGTAATTTATCATCTTTTTACTTAAATTCATTGTTAA
1 ATTGAAAAATATATAGGTTTTTTTCCTATGTAATTTATCACCTTTTTACTTAAATTCATTGTTAA
22880329 AACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAATTTAGAACATAGAA
66 AACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAATTTAGAACATAGAA
* * *
22880390 ATTGAAAAATGTATAGGTTTTTTTTCCTATGTAATTTATCGCCTTTTTACTTAAATTTATTGTTA
1 ATTGAAAAATATATAGG-TTTTTTTCCTATGTAATTTATCACCTTTTTACTTAAATTCATTGTTA
22880455 AAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAATTTAGAACATAGAA
65 AAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAATTTAGAACATAGAA
22880517 ATT
1 ATT
22880520 ATCAAAATGT
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 16 0.13
127 109 0.87
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (126 bp):
ATTGAAAAATATATAGGTTTTTTTCCTATGTAATTTATCACCTTTTTACTTAAATTCATTGTTAA
AACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAATTTAGAACATAGAA
Found at i:22880576 original size:127 final size:126
Alignment explanation
Indices: 22880311--22880546 Score: 325
Period size: 127 Copynumber: 1.9 Consensus size: 126
22880301 TCATCTTTTT
*
22880311 ACTTAAATTCATTGTTAAAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAA
1 ACTTAAATTTATTGTTAAAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAA
** * * * * ** *
22880376 TTTAGAACATAGAAATTGAAAAATGTATAGGTTTTTTTTCCTATGTAATTTATCGCCTTTTT
66 TTTAGAACATAGAAATTGAAAAATGTATACCTTTATTATCATATGT-ATTTATCGCATAATG
22880438 ACTTAAATTTATTGTTAAAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAA
1 ACTTAAATTTATTGTTAAAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAA
22880503 TTTAGAACATAGAAATT-ATCAAAATGTGAT-CCTTTATTAT-ATAT
66 TTTAGAACATAGAAATTGA--AAAATGT-ATACCTTTATTATCATAT
22880547 AGTTTTCATG
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
126 1 0.01
127 84 0.84
128 13 0.13
129 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (126 bp):
ACTTAAATTTATTGTTAAAACCAAGTAAATGTTTAATAAATTGATGAAATATGTGAAAATATGAA
TTTAGAACATAGAAATTGAAAAATGTATACCTTTATTATCATATGTATTTATCGCATAATG
Found at i:22884131 original size:30 final size:30
Alignment explanation
Indices: 22884117--22884293 Score: 137
Period size: 30 Copynumber: 5.9 Consensus size: 30
22884107 TTTGACCCTC
22884117 AAATTTTCTAAAAATTCAAATTTAACCCTTA
1 AAATTTTC-AAAAATTCAAATTTAACCCTTA
*
22884148 AAATTTTCAAAAATTCAAATTTAACTCC-CA
1 AAATTTTCAAAAATTCAAATTTAAC-CCTTA
** * * *
22884178 ACCTTTTCAAAAACTT-GAATTTGACCCCT-
1 AAATTTTCAAAAA-TTCAAATTTAACCCTTA
* *
22884207 AAATTTTCAAAAATTCCAATTTGACCCTTA
1 AAATTTTCAAAAATTCAAATTTAACCCTTA
* * ** * * *
22884237 AACTTTCCAAATAA-TCTGATTTGACCCCTG
1 AAATTTTCAAA-AATTCAAATTTAACCCTTA
* *
22884267 AAGTTTCCAAAAATTCAAATTTAACCC
1 AAATTTTCAAAAATTCAAATTTAACCC
22884294 AGTTTTAATG
Statistics
Matches: 119, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
28 2 0.02
29 26 0.22
30 77 0.65
31 14 0.12
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (30 bp):
AAATTTTCAAAAATTCAAATTTAACCCTTA
Found at i:22884222 original size:59 final size:60
Alignment explanation
Indices: 22884148--22884293 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 60
22884138 TTAACCCTTA
* *
22884148 AAATTTTCAAAAATTCAAATTTAACTCC-CAACCTTTTCAAA-AA-CTTGAATTTGACCCCT-
1 AAATTTTCAAAAATTCAAATTTAAC-CCTCAAACTTTCCAAATAATC-TG-ATTTGACCCCTG
* * *
22884207 AAATTTTCAAAAATTCCAATTTGACCCTTAAACTTTCCAAATAATCTGATTTGACCCCTG
1 AAATTTTCAAAAATTCAAATTTAACCCTCAAACTTTCCAAATAATCTGATTTGACCCCTG
* *
22884267 AAGTTTCCAAAAATTCAAATTTAACCC
1 AAATTTTCAAAAATTCAAATTTAACCC
22884294 AGTTTTAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.03
59 44 0.59
60 27 0.36
61 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (60 bp):
AAATTTTCAAAAATTCAAATTTAACCCTCAAACTTTCCAAATAATCTGATTTGACCCCTG
Found at i:22884372 original size:18 final size:18
Alignment explanation
Indices: 22884323--22884380 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
22884313 TCTTTATTTC
22884323 TTTTATCCTATATATAT-TA
1 TTTTAT-CTATATAT-TGTA
22884342 TTTTAT-T-TA-ATTGTA
1 TTTTATCTATATATTGTA
*
22884357 TTTTATCTATATATTGTT
1 TTTTATCTATATATTGTA
22884375 TTTTAT
1 TTTTAT
22884381 TATGTATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 3 0.09
17 3 0.09
18 11 0.32
19 6 0.18
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATCTATATATTGTA
Found at i:22886364 original size:31 final size:31
Alignment explanation
Indices: 22886329--22886400 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
22886319 TGCATATGCA
22886329 TTCATGCATTCATAAAATTTCGCATCGCATT
1 TTCATGCATTCATAAAATTTCGCATCGCATT
* * *
22886360 TTCATTCATTCATAAAGTTTTGCATCGCATT
1 TTCATGCATTCATAAAATTTCGCATCGCATT
22886391 TTCATGCATT
1 TTCATGCATT
22886401 AAAATATCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (31 bp):
TTCATGCATTCATAAAATTTCGCATCGCATT
Found at i:22891206 original size:49 final size:49
Alignment explanation
Indices: 22891129--22891258 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 49
22891119 GATGAGTCCT
* * *
22891129 ATACCCCTAAAGTTGTAGAGGAACAGATTGAAGCCGCAATGGCAAATCTC
1 ATACACCTAAAGCTGTAGAGG-GCAGATTGAAGCCGCAATGGCAAATCTC
* * *
22891179 A-ACGCCTAAAGCTGTAGAGAGGCAGATTGAAGCTGCAATGGCGAATCTC
1 ATACACCTAAAGCTGTAGAG-GGCAGATTGAAGCCGCAATGGCAAATCTC
* * *
22891228 ATTCACCTAAAGCTATAGAGGGGCAAATTGA
1 ATACACCTAAAGCTGTAGA-GGGCAGATTGA
22891259 TGTTGCAAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
49 42 0.62
50 25 0.37
51 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (49 bp):
ATACACCTAAAGCTGTAGAGGGCAGATTGAAGCCGCAATGGCAAATCTC
Found at i:22891275 original size:50 final size:50
Alignment explanation
Indices: 22891155--22891291 Score: 143
Period size: 50 Copynumber: 2.8 Consensus size: 50
22891145 AGAGGAACAG
* * * * *
22891155 ATTGAAGCCGCAATGGCAAATCTCA-ACGCCTAAAGCTGTAGAGAGGCAG
1 ATTGAAGCTGCAATGGCGAATCTCATACACCTAAAGCTATAGAGAGGCAA
* *
22891204 ATTGAAGCTGCAATGGCGAATCTCATTCACCTAAAGCTATAGAGGGGCAA
1 ATTGAAGCTGCAATGGCGAATCTCATACACCTAAAGCTATAGAGAGGCAA
* * * * *
22891254 ATTGATGTTGCAA-GGATGAATCTTATACTCCTAAAGCT
1 ATTGAAGCTGCAATGG-CGAATCTCATACACCTAAAGCT
22891292 GAAATGGAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 25 0.34
50 48 0.66
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (50 bp):
ATTGAAGCTGCAATGGCGAATCTCATACACCTAAAGCTATAGAGAGGCAA
Found at i:22891380 original size:39 final size:39
Alignment explanation
Indices: 22891318--22891463 Score: 143
Period size: 39 Copynumber: 3.7 Consensus size: 39
22891308 ATAATCTATG
* **
22891318 ATCTTTTACCCCGACCATGGGGCAGATTGAAACAATCCA
1 ATCTTTTACCCCAACCAAAGGGCAGATTGAAACAATCCA
*
22891357 ATCTTTTACCCTAACCAAAGGGCAGATTGAAGAGC-ATCCA
1 ATCTTTTACCCCAACCAAAGGGCAGATTGAA-A-CAATCCA
* * * * *
22891397 ATCTCTTACCCCGACC-ATGGGACAGATTGAAGCAATTCA
1 ATCTTTTACCCCAACCAAAGGG-CAGATTGAAACAATCCA
* * *
22891436 ATCTTTTACCCTAACTAGAGGGCAGATT
1 ATCTTTTACCCCAACCAAAGGGCAGATT
22891464 CAAGACCATC
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 53 0.62
40 31 0.36
41 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (39 bp):
ATCTTTTACCCCAACCAAAGGGCAGATTGAAACAATCCA
Found at i:22891413 original size:79 final size:79
Alignment explanation
Indices: 22891317--22891527 Score: 284
Period size: 79 Copynumber: 2.7 Consensus size: 79
22891307 TATAATCTAT
* *
22891317 GATCTTTTACCCCGACCATGGGGCAGATTGAAACAATCCAATCTTTTACCCTAACCAAAGGGCAG
1 GATCTCTTACCCCGACCATGGGGCAGATTGAAACAATTCAATCTTTTACCCTAACCAAAGGGCAG
* *
22891382 ATTGAAGAGCATCCA
66 ATTCAAGACCAT-CA
* * * *
22891397 -ATCTCTTACCCCGACCATGGGACAGATTGAAGCAATTCAATCTTTTACCCTAACTAGAGGGCAG
1 GATCTCTTACCCCGACCATGGGGCAGATTGAAACAATTCAATCTTTTACCCTAACCAAAGGGCAG
22891461 ATTCAAGACCATCA
66 ATTCAAGACCATCA
* * *
22891475 GATCTCTTACCCCGACTATGAGGTA-A-TGAAACAATTCAATCTTTTACCTCTAA
1 GATCTCTTACCCCGACCATGGGGCAGATTGAAACAATTCAATCTTTTACC-CTAA
22891528 AGCTATAGAG
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
77 21 0.18
78 7 0.06
79 88 0.76
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (79 bp):
GATCTCTTACCCCGACCATGGGGCAGATTGAAACAATTCAATCTTTTACCCTAACCAAAGGGCAG
ATTCAAGACCATCA
Found at i:22891486 original size:40 final size:39
Alignment explanation
Indices: 22891337--22891486 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 39
22891327 CCCGACCATG
* * *
22891337 GGGCAGATTGAA-ACAATCCAATCTTTTACCCTAACCAAA
1 GGGCAGATTGAAGACCAT-CAATCTCTTACCCTAACCAGA
* **
22891376 GGGCAGATTGAAGAGCATCCAATCTCTTACCCCGACCATG-
1 GGGCAGATTGAAGACCAT-CAATCTCTTACCCTAACCA-GA
* * * *
22891416 GGACAGATTGAAG-CAATTCAATCTTTTACCCTAACTAGA
1 GGGCAGATTGAAGACCA-TCAATCTCTTACCCTAACCAGA
*
22891455 GGGCAGATTCAAGACCATCAGATCTCTTACCC
1 GGGCAGATTGAAGACCATCA-ATCTCTTACCC
22891487 CGACTATGAG
Statistics
Matches: 88, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 42 0.48
40 45 0.51
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (39 bp):
GGGCAGATTGAAGACCATCAATCTCTTACCCTAACCAGA
Found at i:22902239 original size:5 final size:5
Alignment explanation
Indices: 22902220--22902249 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
22902210 AATGATGAGA
22902220 AAAAG AAAGAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAA-AG AAAAG AAAAG AAAAG AAAA
22902250 TTTATTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22904169 original size:17 final size:17
Alignment explanation
Indices: 22904128--22904173 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
22904118 AAAACCCAAT
* *
22904128 TTAATTTTTTTTAGTAT
1 TTAATTTTTTATAGTAA
* *
22904145 TTATTTTTTTATATTAA
1 TTAATTTTTTATAGTAA
22904162 TTAATTTTTTAT
1 TTAATTTTTTAT
22904174 TTTATAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTAATTTTTTATAGTAA
Found at i:22910301 original size:6 final size:6
Alignment explanation
Indices: 22910290--22910314 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22910280 CAGGAAAACT
22910290 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
22910315 TTATGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:22912703 original size:30 final size:29
Alignment explanation
Indices: 22912621--22912703 Score: 69
Period size: 30 Copynumber: 2.8 Consensus size: 29
22912611 CCTTCACCCA
*
22912621 TGCTCGCAACACGAGTGTT-CATAACATCAG
1 TGCTCGCAACACCAGTGTTGC--AACATCAG
* * * *
22912651 TGCTCGTATCTCCAGTGTTTGCAACATGAG
1 TGCTCGCAACACCAGTG-TTGCAACATCAG
*
22912681 TGCTCGCAACACTAGTGCTTGCA
1 TGCTCGCAACACCAGTG-TTGCA
22912704 TCTTTCAAGC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 38 0.93
31 2 0.05
32 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (29 bp):
TGCTCGCAACACCAGTGTTGCAACATCAG
Found at i:22916485 original size:25 final size:26
Alignment explanation
Indices: 22916432--22916485 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
22916422 AAATATTTCA
* *
22916432 TTAATAATTTGGGTTTATTTAATTAT
1 TTAATAATTTGAGTTAATTTAATTAT
* *
22916458 TTAATAA-TTGAGTTAATTTTATTCT
1 TTAATAATTTGAGTTAATTTAATTAT
22916483 TTA
1 TTA
22916486 GTCCTTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAATAATTTGAGTTAATTTAATTAT
Found at i:22918734 original size:24 final size:24
Alignment explanation
Indices: 22918707--22918753 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22918697 AAAGCCCAAT
*
22918707 TTAATT-ATTTATTATTTATTTTAA
1 TTAATTAATTAATTA-TTATTTTAA
22918731 TTAATTAATTAATTATTATTTTA
1 TTAATTAATTAATTATTATTTTA
22918754 TAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTAATTAATTAATTATTATTTTAA
Done.