Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008888.1 Hibiscus syriacus cultivar Beakdansim tig00112153_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1025554
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:2376 original size:45 final size:46
Alignment explanation
Indices: 2327--2417 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
2317 GAACATCGAA
* *
2327 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
*
2372 TGCATTTGATGCATCGATGCACAAGACTATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
2418 GCTTTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:3289 original size:54 final size:54
Alignment explanation
Indices: 3182--3567 Score: 490
Period size: 54 Copynumber: 7.2 Consensus size: 54
3172 TAACTCAACA
* * * * ** *
3182 TAGTGTCGATATGGTCGTTCATATATATATTATGAATTTCATGAGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
* * * * *
3236 TAGTACCGGTACAGTCGTTCATAAACATATTATGAATTATGTGGGTTGAACACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
* * *
3290 TAGTGCTGATACGGTCGTTCATAAACATATTATGAATTCTGAGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
* * * * *
3344 AAATGTCGATACGGTCGTTCATAAACATATAATGAATTTTGTGGGTTGCATACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
*
3398 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGAACACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
* * * * * *
3452 TAATGCCAAT-TGGTCATTCATAAACATATTATAAATTTTGTGGGTTGTACACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
* *
3505 TAGTGCCGATACGATCGTTCATAAACATATTATGAA--TTGTTGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
3557 TAGTGCCGATA
1 TAGTGCCGATA
3568 GTACACGTAG
Statistics
Matches: 284, Mismatches: 47, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
52 25 0.09
53 47 0.17
54 212 0.75
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (54 bp):
TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACT
Found at i:18288 original size:37 final size:37
Alignment explanation
Indices: 18238--18315 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
18228 CGAGGTTGCG
*
18238 TCAACTCTCTCATTTTTCACCGTTACATTTACAAAGC
1 TCAACTCTCTCATTTTTCACCATTACATTTACAAAGC
*
18275 TCAACTCTCTCATTTTTCACCATTACATTTACGAAGC
1 TCAACTCTCTCATTTTTCACCATTACATTTACAAAGC
18312 TCAA
1 TCAA
18316 TGTTTCCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.37
Consensus pattern (37 bp):
TCAACTCTCTCATTTTTCACCATTACATTTACAAAGC
Found at i:19964 original size:31 final size:30
Alignment explanation
Indices: 19929--19993 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
19919 GAGACCTAAA
*
19929 TATAAAATTTTAAAAG-TT-AAGGATCTAAGTC
1 TATAAAATCTT-AAAGTTTAAAGGAT-TAA-TC
19960 TAT-AAATCTTAAAGTTTAAAGGATTAATC
1 TATAAAATCTTAAAGTTTAAAGGATTAATC
19989 TATAA
1 TATAA
19994 CTCAAAGCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
29 9 0.30
30 12 0.40
31 9 0.30
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (30 bp):
TATAAAATCTTAAAGTTTAAAGGATTAATC
Found at i:20258 original size:8 final size:8
Alignment explanation
Indices: 20231--20286 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
20221 CTATGAAACG
20231 AAATAATT
1 AAATAATT
20239 AAACTGAATT
1 AAA-T-AATT
20249 AAATAATT
1 AAATAATT
20257 AAAATAA-T
1 -AAATAATT
* *
20265 GAATAAAT
1 AAATAATT
*
20273 AAATAAAT
1 AAATAATT
20281 AAATAA
1 AAATAA
20287 AAATTAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 5 0.12
8 22 0.52
9 8 0.19
10 7 0.17
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (8 bp):
AAATAATT
Found at i:20414 original size:22 final size:23
Alignment explanation
Indices: 20384--20443 Score: 59
Period size: 26 Copynumber: 2.5 Consensus size: 23
20374 GGGAACACAT
* *
20384 TTAACATAAAAT-AAGGGCTCAA
1 TTAAAATAAAATCAAGGGCTAAA
20406 TTAAAATAAATAATGCAAGGGCTAAA
1 TTAAAAT-AA-AAT-CAAGGGCTAAA
*
20432 TTGAAATAAAAT
1 TTAAAATAAAAT
20444 TCTAAAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.19
23 2 0.06
24 6 0.19
25 2 0.06
26 15 0.48
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.25
Consensus pattern (23 bp):
TTAAAATAAAATCAAGGGCTAAA
Found at i:20418 original size:26 final size:26
Alignment explanation
Indices: 20389--20441 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
20379 CACATTTAAC
* *
20389 ATAAAATAAGGGCTCAATTAAAATAA
1 ATAAAACAAGGGCTAAATTAAAATAA
** *
20415 ATAATGCAAGGGCTAAATTGAAATAA
1 ATAAAACAAGGGCTAAATTAAAATAA
20441 A
1 A
20442 ATTCTAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.23
Consensus pattern (26 bp):
ATAAAACAAGGGCTAAATTAAAATAA
Found at i:21287 original size:2 final size:2
Alignment explanation
Indices: 21276--21353 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
21266 TATTATAATA
21276 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21354 CTTGTATTTC
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22551 original size:6 final size:6
Alignment explanation
Indices: 22540--22567 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22530 TACACTTTAT
22540 GAATGA GAATGA GAATGA GAATGA GAAT
1 GAATGA GAATGA GAATGA GAATGA GAAT
22568 TTTGGAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (6 bp):
GAATGA
Found at i:24415 original size:20 final size:20
Alignment explanation
Indices: 24392--24441 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24382 TTTGAGTTAA
24392 TTAAAATATGTTTAAAGTGT
1 TTAAAATATGTTTAAAGTGT
* * *
24412 TTAAAATGTCTTTAAAGTTT
1 TTAAAATATGTTTAAAGTGT
*
24432 TTTAAATATG
1 TTAAAATATG
24442 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (20 bp):
TTAAAATATGTTTAAAGTGT
Found at i:24557 original size:40 final size:38
Alignment explanation
Indices: 24508--24599 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 38
24498 TTGTTCATAG
*
24508 TTTGTAAACTTTGTAAT-AGTTTTGAAACTTTTATTAAGAGT
1 TTTG-AAACTTT-TAATAAGTTTTGAAA-TTTTA-TAAAAGT
24549 TTTGAAACTTTTAATAAGAGTTTTGAAATTTTATAAAAGT
1 TTTGAAACTTTTAAT-A-AGTTTTGAAATTTTATAAAAGT
*
24589 TTCGAAACTTT
1 TTTGAAACTTT
24600 CCACCCAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
39 4 0.09
40 23 0.50
41 9 0.20
42 10 0.22
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (38 bp):
TTTGAAACTTTTAATAAGTTTTGAAATTTTATAAAAGT
Found at i:24589 original size:19 final size:20
Alignment explanation
Indices: 24525--24599 Score: 107
Period size: 21 Copynumber: 3.7 Consensus size: 20
24515 ACTTTGTAAT
24525 AGTTTTGAAACTTTTATTAAG
1 AGTTTTGAAACTTTTA-TAAG
24546 AGTTTTGAAACTTTTAATAAG
1 AGTTTTGAAACTTTT-ATAAG
*
24567 AGTTTTGAAA-TTTTATAAA
1 AGTTTTGAAACTTTTATAAG
*
24586 AGTTTCGAAACTTT
1 AGTTTTGAAACTTT
24600 CCACCCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 13 0.26
20 7 0.14
21 29 0.58
22 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (20 bp):
AGTTTTGAAACTTTTATAAG
Found at i:29197 original size:19 final size:20
Alignment explanation
Indices: 29162--29200 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
29152 CCCTCTTGAA
*
29162 AATTTCAATTTTTTTTATAT
1 AATTTCAATTATTTTTATAT
29182 AATTTCAA-TATTTTTATAT
1 AATTTCAATTATTTTTATAT
29201 TTTATATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTTCAATTATTTTTATAT
Found at i:30150 original size:31 final size:31
Alignment explanation
Indices: 30112--30172 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
30102 ATAGTCACCC
30112 AACTATTACTTTGATT-CTGTTTTGGTCATCA
1 AACTATTACTTTGATTAC-GTTTTGGTCATCA
30143 AACTATTACTTTGATTACGTTTTGGTCATC
1 AACTATTACTTTGATTACGTTTTGGTCATC
30173 TATCTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (31 bp):
AACTATTACTTTGATTACGTTTTGGTCATCA
Found at i:32986 original size:35 final size:36
Alignment explanation
Indices: 32918--32992 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 36
32908 AAATACTTCG
32918 ATTTAGGATTTAGAATGGAACTTGAAGTATTTTGGA
1 ATTTAGGATTTAGAATGGAACTTGAAGTATTTTGGA
* * *
32954 ATTTAGGGTTTAGAATGTAA-TTGAAGTGTTTTGGA
1 ATTTAGGATTTAGAATGGAACTTGAAGTATTTTGGA
32989 ATTT
1 ATTT
32993 TGAACATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 18 0.50
36 18 0.50
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.43
Consensus pattern (36 bp):
ATTTAGGATTTAGAATGGAACTTGAAGTATTTTGGA
Found at i:34931 original size:35 final size:35
Alignment explanation
Indices: 34885--34959 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
34875 TTCATGTTCA
34885 AAATTCCAAAATACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCC
*
34920 AAATTCCAAAATACTTCAATTACATTCTAAACCCT
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCC
34955 AAATT
1 AAATT
34960 GAAGTATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATTCCAAAATACTTCAATTACATTCTAAACCCC
Found at i:35030 original size:35 final size:35
Alignment explanation
Indices: 34955--35031 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
34945 TCTAAACCCT
*
34955 AAATTGAAGTATTTTAGAATTTGAGGTTTAAAATG
1 AAATTGAAGTATTTTAGAATTTGAGGTTTAAAATA
* * * *
34990 TAATTGAATTATTTTGGAATTTGGGGTTTAAAATA
1 AAATTGAAGTATTTTAGAATTTGAGGTTTAAAATA
35025 AAATTGA
1 AAATTGA
35032 GGATTGTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (35 bp):
AAATTGAAGTATTTTAGAATTTGAGGTTTAAAATA
Found at i:51554 original size:19 final size:19
Alignment explanation
Indices: 51532--51571 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
51522 AAAATCATCT
*
51532 AGGG-GTTTTGAAACCAATA
1 AGGGTGTTTCGAAACC-ATA
51551 AGGGTGTTTCGAAACCATA
1 AGGGTGTTTCGAAACCATA
51570 AG
1 AG
51572 AGAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (19 bp):
AGGGTGTTTCGAAACCATA
Found at i:55189 original size:9 final size:10
Alignment explanation
Indices: 55166--55192 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
55156 CTTTCATAGG
55166 AAAAATCCAC
1 AAAAATCCAC
55176 AAAAATCCAC
1 AAAAATCCAC
55186 AAAAATC
1 AAAAATC
55193 TACTTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.26, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAATCCAC
Found at i:61333 original size:54 final size:54
Alignment explanation
Indices: 61247--61563 Score: 334
Period size: 54 Copynumber: 5.8 Consensus size: 54
61237 TACATCTCTC
* * *
61247 AAACTTATTATGAATTCTGTGAGTTGCACACTTAGTGTCGAAACGGTCG-TCAAT
1 AAACTTATTATGAATTCGGTGGGTTGCACACTTAGTGTCGATACGGTCGTTC-AT
* *
61301 AAATTTATTATGAATTAC-GTGGGTTGCACACTTAGTGTCGATACAGTCGTTCAT
1 AAACTTATTATGAATT-CGGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCAT
** * * *
61355 AAACTTATTATGAATTCTTTGTGTTGCACACTTTGTGTCGATACGGTCATTCAT
1 AAACTTATTATGAATTCGGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCAT
* * * * *
61409 AAAGTTATTATGAATTTCGTGGGTGGGTTGCACACATAGTGCCGATATGATCGTTCAT
1 AAACTTATTATGAA-TTC---GGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCAT
** * * * * *
61467 AAACTTATTATGAATTCCATAGGTTACGCACTT-TTGCCGATACGGTCGTTCAT
1 AAACTTATTATGAATTCGGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCAT
** *
61520 AAACTTATTATGAATTCCTTGGGTTGCACACATAGTGTCGATAC
1 AAACTTATTATGAATTCGGTGGGTTGCACACTTAGTGTCGATAC
61564 ATAAAAATGC
Statistics
Matches: 218, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
53 46 0.21
54 122 0.56
55 6 0.03
57 3 0.01
58 41 0.19
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
AAACTTATTATGAATTCGGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCAT
Found at i:61483 original size:112 final size:107
Alignment explanation
Indices: 61247--61564 Score: 374
Period size: 108 Copynumber: 2.9 Consensus size: 107
61237 TACATCTCTC
* * * * *
61247 AAACTTATTATGAATTCTGTGAGTTGCACACTTAGTGTCGAAACGGTCGTCAATAAATTTATTAT
1 AAACTTATTATGAATTCTTTG-GTTGCACACTTTGTGTCGATACGGTCTTC-ATAAACTTATTAT
* *
61312 GAATTAC-GTGGGTTGCACACTTAGTGTCGATACAGTCGTTCAT
64 GAATTTCTGTGGGTTGCACACATAGTGTCGATACAGTCGTTCAT
*
61355 AAACTTATTATGAATTCTTTGTGTTGCACACTTTGTGTCGATACGGTCATTCATAAAGTTATTAT
1 AAACTTATTATGAATTCTTTG-GTTGCACACTTTGTGTCGATACGGTC-TTCATAAACTTATTAT
* *
61420 GAATTTCGTGGGTGGGTTGCACACATAGTGCCGATA-TGATCGTTCAT
64 GAATTTC-T--GTGGGTTGCACACATAGTGTCGATACAG-TCGTTCAT
* * * * *
61467 AAACTTATTATGAATTCCATAGGTTACGCACTTT-TGCCGATACGGTCGTTCATAAACTTATTAT
1 AAACTTATTATGAATT-CTTTGGTTGCACACTTTGTGTCGATACGGTC-TTCATAAACTTATTAT
*
61531 GAATTCCT-TGGGTTGCACACATAGTGTCGATACA
64 GAATTTCTGTGGGTTGCACACATAGTGTCGATACA
61565 TAAAAATGCA
Statistics
Matches: 182, Mismatches: 20, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
107 23 0.13
108 62 0.34
109 2 0.01
110 1 0.01
111 34 0.19
112 57 0.31
113 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (107 bp):
AAACTTATTATGAATTCTTTGGTTGCACACTTTGTGTCGATACGGTCTTCATAAACTTATTATGA
ATTTCTGTGGGTTGCACACATAGTGTCGATACAGTCGTTCAT
Found at i:65488 original size:21 final size:21
Alignment explanation
Indices: 65458--65507 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
65448 TACGGATGAT
*
65458 CACTTATGTTTTTATTTTGTA
1 CACTTTTGTTTTTATTTTGTA
65479 CACTTTTGTTTTTATTTTGTA
1 CACTTTTGTTTTTATTTTGTA
65500 CACTTTTG
1 CACTTTTG
65508 GTTACCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.62
Consensus pattern (21 bp):
CACTTTTGTTTTTATTTTGTA
Found at i:66837 original size:3 final size:3
Alignment explanation
Indices: 66829--66880 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
66819 AATTAACATA
66829 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66877 AAT A
1 AAT A
66881 CACTCAGTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:67274 original size:29 final size:28
Alignment explanation
Indices: 67235--67309 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 28
67225 TCCAAATAAA
*
67235 ATTTAAATTCAGATTAAAGAAAAAATTAT
1 ATTTAATTTCAGATTAAAGAAAAAA-TAT
67264 ATTTAATTTCAGATTAAAGAAAAAATAT
1 ATTTAATTTCAGATTAAAGAAAAAATAT
67292 ATTTAATTTCAGATTAAA
1 ATTTAATTTCAGATTAAA
67310 TTGAGATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 21 0.47
29 24 0.53
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (28 bp):
ATTTAATTTCAGATTAAAGAAAAAATAT
Found at i:67287 original size:28 final size:29
Alignment explanation
Indices: 67235--67309 Score: 125
Period size: 28 Copynumber: 2.6 Consensus size: 29
67225 TCCAAATAAA
* *
67235 ATTTAAATTCAGATTAAAGAAAAAATTAT
1 ATTTAATTTCAGATTAAAGAAAAAAATAT
67264 ATTTAATTTCAGATTAAAG-AAAAAATAT
1 ATTTAATTTCAGATTAAAGAAAAAAATAT
67292 ATTTAATTTCAGATTAAA
1 ATTTAATTTCAGATTAAA
67310 TTGAGATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 26 0.59
29 18 0.41
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (29 bp):
ATTTAATTTCAGATTAAAGAAAAAAATAT
Found at i:70003 original size:45 final size:45
Alignment explanation
Indices: 69938--70089 Score: 205
Period size: 45 Copynumber: 3.4 Consensus size: 45
69928 AATACACCAT
* * *
69938 TATGCACTTTAAACTATAGTATACTTATCTGTTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGTATACTTTTCTGTTGAAAATGCACCCA
*
69984 TATGCATTTCAACTATAGTATACTTTTCTGTTGAAAATGTACCCA
1 TATGCATTTCAACTATAGTATACTTTTCTGTTGAAAATGCACCCA
* * * * *
70029 TATACATTTCAATTATAGTATACTTTTCTATTGAAAATGTATCCA
1 TATGCATTTCAACTATAGTATACTTTTCTGTTGAAAATGCACCCA
*
70074 TATACATTTCAACTAT
1 TATGCATTTCAACTAT
70090 GGCATCCTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 91 0.94
46 6 0.06
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.41
Consensus pattern (45 bp):
TATGCATTTCAACTATAGTATACTTTTCTGTTGAAAATGCACCCA
Found at i:70118 original size:90 final size:90
Alignment explanation
Indices: 69952--70126 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
69942 CACTTTAAAC
* * * * * **
69952 TATAGTATACTTATCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTG
1 TATAGTATACTTATCTATTGAAAATGCACCCATATACATTTCAACTATAGCATACCTTTCTGTCC
*
70017 AAAATGTACCCATATACATTTCAAT
66 AAAATGCACCCATATACATTTCAAT
* * * *
70042 TATAGTATACTTTTCTATTGAAAATGTATCCATATACATTTCAACTATGGCAT-CCTTTCATG-C
1 TATAGTATACTTATCTATTGAAAATGCACCCATATACATTTCAACTATAGCATACCTTTC-TGTC
*
70105 CAATAATGCACCCATATGCATT
65 CAA-AATGCACCCATATACATT
70127 ATTATTTTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 7 0.10
90 63 0.90
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (90 bp):
TATAGTATACTTATCTATTGAAAATGCACCCATATACATTTCAACTATAGCATACCTTTCTGTCC
AAAATGCACCCATATACATTTCAAT
Found at i:70120 original size:45 final size:43
Alignment explanation
Indices: 69949--70126 Score: 151
Period size: 45 Copynumber: 4.0 Consensus size: 43
69939 ATGCACTTTA
** * *
69949 AACTATAGTATACTTATCTGTTGATAATGCACCCATATGCATTTC
1 AACTATAGTATACTT-T-TCATGAAAATGCACCCATATACATTTC
* *
69994 AACTATAGTATACTTTTCTGTTGAAAATGTACCCATATACATTTC
1 AACTATAGTATACTTTTC--ATGAAAATGCACCCATATACATTTC
* * *
70039 AATTATAGTATACTTTTCTATTGAAAATGTATCCATATACATTTC
1 AACTATAGTATACTTTTC-A-TGAAAATGCACCCATATACATTTC
* * * *
70084 AACTATGGCAT-CCTTTCATGCCAATAATGCACCCATATGCATT
1 AACTATAGTATACTTTTCATG--AA-AATGCACCCATATACATT
70127 ATTATTTTCA
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 8 0.07
45 100 0.89
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (43 bp):
AACTATAGTATACTTTTCATGAAAATGCACCCATATACATTTC
Found at i:72089 original size:103 final size:102
Alignment explanation
Indices: 71908--72128 Score: 408
Period size: 103 Copynumber: 2.2 Consensus size: 102
71898 GTCGAGGGTC
71908 TATGTGGTCCTTCGGG-ATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACT
1 TATGTGGTCCTTCGGGAATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACT
71972 TGATCCCTACTATATGTATATGATTCTTAAGGAGTGA
66 TGATCCCTACTATATGTATATGATTCTTAAGGAGTGA
*
72009 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGA-ATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
*
72074 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
65 TTGATCCCTACTATATGTATATGATTCTTAAGGAGTGA
72112 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
72129 CATTATTATA
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
101 16 0.14
103 100 0.86
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (102 bp):
TATGTGGTCCTTCGGGAATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACT
TGATCCCTACTATATGTATATGATTCTTAAGGAGTGA
Found at i:72173 original size:23 final size:23
Alignment explanation
Indices: 72140--72202 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
72130 ATTATTATAT
72140 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
72163 GGCACTGCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
72186 GGCACTTCGATGCAATT
1 GGCACTACGGTGCAATT
72203 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:73314 original size:19 final size:20
Alignment explanation
Indices: 73290--73343 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
73280 TAGCCCTTTA
73290 GTATCGATACCCCTACCAT-
1 GTATCGATACCCCTACCATG
**
73309 GTATCGATACTACCCTACTTTG
1 GTATCGATAC--CCCTACCATG
73331 GTATCGATACCCC
1 GTATCGATACCCC
73344 CTTCCAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 10 0.33
20 3 0.10
21 7 0.23
22 10 0.33
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:79524 original size:45 final size:45
Alignment explanation
Indices: 79455--79642 Score: 164
Period size: 45 Copynumber: 4.2 Consensus size: 45
79445 AATACACCAT
* * *
79455 TATGCACTTTAAACTATACCATACTTTTATGTTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGCATACTTTTATGTTGAAAATGCACCCA
* * *
79501 TATGCATTTCAACTATAGTATACTTTTCTGTTGAAAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTATGTTGAAAATGCACCCA
** * * * * * *
79546 TATATATTTCCATTTTAGTATACTTTTATGTTGAAAATGTATCCA
1 TATGCATTTCAACTATAGCATACTTTTATGTTGAAAATGCACCCA
* * * * **
79591 TATACATTTCAACTATGGCAT-CCTTCATG-CCAATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTATGTTGAA-AATGCACCCA
79635 TATGCATT
1 TATGCATT
79643 ATTATTTTCA
Statistics
Matches: 115, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
43 2 0.02
44 21 0.18
45 86 0.75
46 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (45 bp):
TATGCATTTCAACTATAGCATACTTTTATGTTGAAAATGCACCCA
Found at i:80094 original size:22 final size:20
Alignment explanation
Indices: 80046--80103 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
80036 ATTTATGGCC
*
80046 CTTTAGTATCGATACCCCTA
1 CTTTGGTATCGATACCCCTA
**
80066 CCATGGTATCGATACTACCCTA
1 CTTTGGTATCGATAC--CCCTA
*
80088 CTTTGGTAGCGATACC
1 CTTTGGTATCGATACC
80104 TCCTTCCAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (20 bp):
CTTTGGTATCGATACCCCTA
Found at i:80163 original size:95 final size:95
Alignment explanation
Indices: 80050--80270 Score: 273
Period size: 95 Copynumber: 2.3 Consensus size: 95
80040 ATGGCCCTTT
* * ** * *
80050 AGTATCGATACCCCTACCATGGTATCGATACTACCCTACTTTGGTAGCGATACCTCCT-TCCAGT
1 AGTATCGATACCCTTACCATGGTATCGATACTACCATACAATGGTACCGATACC-CCTATACAGT
80114 ATCAATACCAAAATTAGATTCAATGTGGCCC
65 ATCAATACCAAAATTAGATTCAATGTGGCCC
** **
80145 AGTATCGATACCCTTACCATGGTATCGATACTATTATACAATGGTACCGATACCCCTATATGGTA
1 AGTATCGATACCCTTACCATGGTATCGATACTACCATACAATGGTACCGATACCCCTATACAGTA
* * * *
80210 TCGATACCAAAATTAGGTTCGATGTTGCCC
66 TCAATACCAAAATTAGATTCAATGTGGCCC
* * *
80240 GGTATCAATACCCTTACCATGGTATCAATAC
1 AGTATCGATACCCTTACCATGGTATCGATAC
80271 CACTTCGTTC
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 3 0.03
95 105 0.97
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (95 bp):
AGTATCGATACCCTTACCATGGTATCGATACTACCATACAATGGTACCGATACCCCTATACAGTA
TCAATACCAAAATTAGATTCAATGTGGCCC
Found at i:81037 original size:21 final size:19
Alignment explanation
Indices: 81009--81054 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
80999 TCTTTGAATC
81009 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
81029 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
81048 ACTTAGT
1 A-TTAGT
81055 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:82074 original size:46 final size:46
Alignment explanation
Indices: 82021--82114 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
82011 CAACTTGAAT
*
82021 GATGCTAGATGCCTCAGCAAATGGCACCCTACTAGACAAATCACCC
1 GATGCTAGATGCCTCAACAAATGGCACCCTACTAGACAAATCACCC
82067 GATGCTAGATGCCTCAACAAATGGCACCCTACTAGACAAATCACCC
1 GATGCTAGATGCCTCAACAAATGGCACCCTACTAGACAAATCACCC
82113 GA
1 GA
82115 GGAAGCTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (46 bp):
GATGCTAGATGCCTCAACAAATGGCACCCTACTAGACAAATCACCC
Found at i:87812 original size:17 final size:17
Alignment explanation
Indices: 87782--87824 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
87772 AAAATCGGTT
*
87782 GTTGTGGCTAGAATGGCC
1 GTTGTGG-TAGAATGACC
87800 GTTGTGGTAGAATGACC
1 GTTGTGGTAGAATGACC
87817 GTTGTGGT
1 GTTGTGGT
87825 CAGCGTGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.16, C:0.12, G:0.40, T:0.33
Consensus pattern (17 bp):
GTTGTGGTAGAATGACC
Found at i:99290 original size:30 final size:31
Alignment explanation
Indices: 99253--99328 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
99243 TAAGGTGACC
99253 CTTGGGTAGGCTCTGCGGCCCCAAGATA-TTT
1 CTTGGGTAGGCTCTGCGGCCCCAAGA-ACTTT
* *
99284 -TTGGGTAGGCCTCTGTGGCCCCGAGAACTTT
1 CTTGGGTAGG-CTCTGCGGCCCCAAGAACTTT
99315 CTTGGGTAGGCTCT
1 CTTGGGTAGGCTCT
99329 CAGCCACAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 10 0.25
31 21 0.52
32 9 0.22
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCCCAAGAACTTT
Found at i:103571 original size:31 final size:31
Alignment explanation
Indices: 103533--103618 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
103523 AAAGGTGACC
* *
103533 CTTGGGTAGGCTCTGCGGCCCCGAGATCTTT
1 CTTGGGTAGGCTCTGCGGCCCCAAGAACTTT
* *
103564 CTTGGGTAGGCCTTTGTGGCCCCAAGAACTTT
1 CTTGGGTAGG-CTCTGCGGCCCCAAGAACTTT
*
103596 CTTAGGTAGGCTCT-CAGGCCCCA
1 CTTGGGTAGGCTCTGC-GGCCCCA
103619 TGGTTCCCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 20 0.43
32 26 0.57
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.28
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCCCAAGAACTTT
Found at i:105370 original size:30 final size:30
Alignment explanation
Indices: 105334--105408 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
105324 GAAAACGAAT
*
105334 TAAACGGGGATGGGGAAAAACCGTTTATGC
1 TAAACGGGGATGGGGAAAAACCATTTATGC
*
105364 TAAACGGGGATGGGG-AAATCCATTTATGC
1 TAAACGGGGATGGGGAAAAACCATTTATGC
* *
105393 TAAACGGTGACGGGGA
1 TAAACGGGGATGGGGA
105409 CGGGTTTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (30 bp):
TAAACGGGGATGGGGAAAAACCATTTATGC
Found at i:105699 original size:25 final size:25
Alignment explanation
Indices: 105665--105716 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
105655 AAATCCCCAC
* *
105665 GGTTGTTTAAGCGGGGAC-GGGTATG
1 GGTTGTTTAAACGGAGACAGGG-ATG
*
105690 GGTTTTTTAAACGGAGACAGGGATG
1 GGTTGTTTAAACGGAGACAGGGATG
105715 GG
1 GG
105717 GGGACCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.21, C:0.08, G:0.44, T:0.27
Consensus pattern (25 bp):
GGTTGTTTAAACGGAGACAGGGATG
Found at i:106870 original size:43 final size:42
Alignment explanation
Indices: 106697--107072 Score: 187
Period size: 43 Copynumber: 8.5 Consensus size: 42
106687 AAAAATGATT
* * * * * *
106697 AAATTAGGGGCTTAAATTATAAAAATAAAAAGT-ATGATTCAAA
1 AAATTAAGGGCCTCAATTAT-AAAGTAAAAAATGA-GATTGAAA
* * *
106740 AAATTAAGGACCTC-ATGTATAAAACTAAAAAAAATGTGATTAGAAAA
1 AAATTAAGGGCCTCAAT-TAT-AAAGT--AAAAAATGAGATT-G-AAA
* * * *
106787 AAATTAAGGGCCTCAATT-TAAAGTAAAAAGTAATACTGAAA
1 AAATTAAGGGCCTCAATTATAAAGTAAAAAATGAGATTGAAA
** *
106828 AAATTAAGGGAATAAATTATATAAGTAAAAAATGAGATTGAAAA
1 AAATTAAGGGCCTCAATTATA-AAGTAAAAAATGAGATTG-AAA
* * * *
106872 AAATTAGGGGCTTCAATTATAAAAG-AAAAAATGATATTAAAA
1 AAATTAAGGGCCTCAATTAT-AAAGTAAAAAATGAGATTGAAA
* *
106914 AAAGTT-AGAGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAA
1 AAA-TTAAG-GGCCTCAATTATAAA-GTAAAAAATGAGATTGAAA
** *
106958 AAATT-AGGAACTCAATTATAAACGTAAAGAAAAAAAGTGGGATTGAAAA
1 AAATTAAGGGCCTCAATTATAAA-GT-----AAAAAA-TGAGATTG-AAA
* * *
107007 AAATTAAAGGCGTCAACTATAAATGT--AAAATGTAGGATT-ACAA
1 AAATTAAGGGCCTCAATTATAAA-GTAAAAAATG-A-GATTGA-AA
107050 AAATT-AGAGGCCTCAATTATAAA
1 AAATTAAG-GGCCTCAATTATAAA
107073 AATAAAAACG
Statistics
Matches: 256, Mismatches: 50, Indels: 54
0.71 0.14 0.15
Matches are distributed among these distances:
41 18 0.07
42 34 0.13
43 94 0.37
44 42 0.16
45 15 0.06
46 1 0.00
47 21 0.08
48 9 0.04
49 8 0.03
50 14 0.05
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.24
Consensus pattern (42 bp):
AAATTAAGGGCCTCAATTATAAAGTAAAAAATGAGATTGAAA
Found at i:106875 original size:44 final size:43
Alignment explanation
Indices: 106737--107072 Score: 201
Period size: 43 Copynumber: 7.6 Consensus size: 43
106727 AGTATGATTC
* * *
106737 AAAAAATTAAGGACCTC-ATGTATAAAACTAAAAAAAATGTGATTAGA
1 AAAAAATTAAGGGCCTCAAT-TAT-AAAGT--AAAAAATGAGATT-GA
* * * *
106784 AAAAAATTAAGGGCCTCAATT-TAAAGTAAAAAGTAATACTG-
1 AAAAAATTAAGGGCCTCAATTATAAAGTAAAAAATGAGATTGA
** *
106825 AAAAAATTAAGGGAATAAATTATATAAGTAAAAAATGAGATTGA
1 AAAAAATTAAGGGCCTCAATTATA-AAGTAAAAAATGAGATTGA
* * *
106869 AAAAAATTAGGGGCTTCAATTATAAAAG-AAAAAATGATATT-A
1 AAAAAATTAAGGGCCTCAATTAT-AAAGTAAAAAATGAGATTGA
* *
106911 AAAAAAGTT-AGAGGCCTCAATTATAAAGGTAGAAAGTGAGATTG-
1 AAAAAA-TTAAG-GGCCTCAATTATAAA-GTAAAAAATGAGATTGA
** *
106955 AAAAAATT-AGGAACTCAATTATAAACGTAAAGAAAAAAAGTGGGATTGA
1 AAAAAATTAAGGGCCTCAATTATAAA-GT-----AAAAAA-TGAGATTGA
* * *
107004 AAAAAATTAAAGGCGTCAACTATAAATGT--AAAATGTAGGATT-A
1 AAAAAATTAAGGGCCTCAATTATAAA-GTAAAAAATG-A-GATTGA
*
107047 CAAAAATT-AGAGGCCTCAATTATAAA
1 AAAAAATTAAG-GGCCTCAATTATAAA
107073 AATAAAAACG
Statistics
Matches: 227, Mismatches: 41, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
41 18 0.08
42 32 0.14
43 77 0.34
44 42 0.19
45 5 0.02
46 1 0.00
47 21 0.09
48 9 0.04
49 8 0.04
50 14 0.06
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.24
Consensus pattern (43 bp):
AAAAAATTAAGGGCCTCAATTATAAAGTAAAAAATGAGATTGA
Found at i:114791 original size:2 final size:2
Alignment explanation
Indices: 114784--114830 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
114774 ATCCAAATAC
114784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114825 AT AT AT
1 AT AT AT
114831 CTATCAACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:116665 original size:46 final size:46
Alignment explanation
Indices: 116587--116890 Score: 473
Period size: 46 Copynumber: 6.6 Consensus size: 46
116577 TTTATGTCGT
* * *
116587 TAATACACCGGTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* *
116633 TAATGCATCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCCA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * *
116679 TAATGCACCATTATGCATTTTCATTTATGGCATCCTTTCATGTCGC
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * * * *
116725 TAATGCACCATTATGAATTTTCATTTATGACATCTTTTCATGTCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
*
116771 TAATGCACCGTTATGCAGTTTCATTTATGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
*
116817 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
116863 TAATGCACCGTTATGCATTTTCATTTAT
1 TAATGCACCGTTATGCATTTTCATTTAT
116891 TCATTTATTT
Statistics
Matches: 236, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 236 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
Found at i:124365 original size:21 final size:22
Alignment explanation
Indices: 124340--124385 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
124330 GGTTTTGGTA
* *
124340 AAAAGATATTTAAA-TAATAAT
1 AAAAGAGATTTAAAGTAAAAAT
*
124361 AAAAGCGATTTAAAGTAAAAAT
1 AAAAGAGATTTAAAGTAAAAAT
124383 AAA
1 AAA
124386 GAAAAGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAAGAGATTTAAAGTAAAAAT
Found at i:129341 original size:48 final size:48
Alignment explanation
Indices: 129289--129438 Score: 112
Period size: 48 Copynumber: 3.2 Consensus size: 48
129279 TTAAACCGAA
129289 TATCTTTCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACC
1 TATCTTTCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACC
* ** * * * * ** **
129337 TATCTTTTTATA-TATTTTTC-CAATTATTCTTTA-TTTTCCT-ATGTATG
1 TATC-TTTCATACTA-TGATCAAAATTAATC-TTAGTATGCCTAACATACC
***
129384 T-TAAATCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACC
1 TATCTTTCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACC
129431 TATCTTTC
1 TATCTTTC
129439 TATATATTTT
Statistics
Matches: 66, Mismatches: 28, Indels: 16
0.60 0.25 0.15
Matches are distributed among these distances:
45 10 0.15
46 15 0.23
47 8 0.12
48 21 0.32
49 12 0.18
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.45
Consensus pattern (48 bp):
TATCTTTCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACC
Found at i:129456 original size:94 final size:95
Alignment explanation
Indices: 129295--129483 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 95
129285 CGAATATCTT
*
129295 TCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACCTATCTTTTTATATATTTTTCCAA
1 TCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACCTATCTTTCTATATATTTTTCCAA
129360 TTATTCTTTATTTT-CCTATGTATGTTAAA
66 TTATTCTTTATTTTCCCTATGTATGTTAAA
129389 TCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACCTATCTTTCTATATATTTTTCCAA
1 TCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACCTATCTTTCTATATATTTTTCCAA
129454 TTATTCTTTATTTTCCCTATGTATGTTAAA
66 TTATTCTTTATTTTCCCTATGTATGTTAAA
129484 GGAGAAAGTA
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 78 0.84
95 15 0.16
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (95 bp):
TCATACTATGATCAAAATTAATCTTAGTATGCCTAACATACCTATCTTTCTATATATTTTTCCAA
TTATTCTTTATTTTCCCTATGTATGTTAAA
Found at i:129621 original size:46 final size:46
Alignment explanation
Indices: 129553--129778 Score: 274
Period size: 46 Copynumber: 4.9 Consensus size: 46
129543 ATACCATGAG
* ** * * * * *
129553 TGGCA-CCTTTTATGCCTTTAATACACCGTTATGTATTTTTATTTG
1 TGGCATCCTTTCATGCCGATAATGCACCATTATGCATTTTCATTTA
* * *
129598 TGGCATCATTTCATGCCGATAATACACCATTATACATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCATTATGCATTTTCATTTA
*
129644 TGGCATCCTTTCATGCCGATAATGCACCTTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCATTATGCATTTTCATTTA
* * * *
129690 TGACATCCTTTCGTGCCAACAATGCACCATTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCATTATGCATTTTCATTTA
* * *
129736 TGGAATCCTTTCATGCCGATAATGTACCGTTATGCATTTTCAT
1 TGGCATCCTTTCATGCCGATAATGCACCATTATGCATTTTCAT
129779 GCCGATAATG
Statistics
Matches: 155, Mismatches: 25, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
45 5 0.03
46 150 0.97
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (46 bp):
TGGCATCCTTTCATGCCGATAATGCACCATTATGCATTTTCATTTA
Found at i:129777 original size:29 final size:29
Alignment explanation
Indices: 129744--129807 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
129734 TATGGAATCC
* *
129744 TTTCATGCCGATAATGTACCGTTATGCAT
1 TTTCATGCCGATAATGCACCGATATGCAT
*
129773 TTTCATGCCGATAATGCACCGATATGGAT
1 TTTCATGCCGATAATGCACCGATATGCAT
129802 TTTCAT
1 TTTCAT
129808 TTATTCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (29 bp):
TTTCATGCCGATAATGCACCGATATGCAT
Found at i:131696 original size:3 final size:3
Alignment explanation
Indices: 131688--131766 Score: 86
Period size: 3 Copynumber: 26.0 Consensus size: 3
131678 TATTTTTAAA
* * * * *
131688 ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATC ATT ATT ATT ATA AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
131736 ATT ATT ATT ATT ATT AAAT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
131767 TACAAGCCCA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
3 59 0.97
4 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:131705 original size:24 final size:24
Alignment explanation
Indices: 131677--131751 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
131667 TTTTTTCATT
131677 TTATT-TT-TAAA-ATTATTATTA
1 TTATTATTATAAATATTATTATTA
*
131698 TTATTATTATAAATATTATTATCA
1 TTATTATTATAAATATTATTATTA
131722 TTATTATTATAAATATTATTATTA
1 TTATTATTATAAATATTATTATTA
131746 TTATTA
1 TTATTA
131752 AATGTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
21 5 0.10
22 2 0.04
23 4 0.08
24 38 0.78
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTATTATAAATATTATTATTA
Found at i:132732 original size:21 final size:21
Alignment explanation
Indices: 132708--132747 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
132698 ATTTTAGTCA
132708 TTTACATAAAATAATAGATAT
1 TTTACATAAAATAATAGATAT
**
132729 TTTAGGTAAAATAATAGAT
1 TTTACATAAAATAATAGAT
132748 TTAGTCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTACATAAAATAATAGATAT
Found at i:133087 original size:21 final size:22
Alignment explanation
Indices: 133041--133085 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
133031 GCATTGTTTA
133041 TTTATAT-TTTAATTTTATATG
1 TTTATATATTTAATTTTATATG
133062 TTTATATATTTAATTATTAT-TG
1 TTTATATATTTAATT-TTATATG
133084 TT
1 TT
133086 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATATATTTAATTTTATATG
Found at i:133181 original size:15 final size:15
Alignment explanation
Indices: 133163--133192 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
133153 AAATCCTATT
133163 TATAAATTAATTTTA
1 TATAAATTAATTTTA
*
133178 TATAAATTACTTTTA
1 TATAAATTAATTTTA
133193 AGAAAAATAA
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:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAAATTAATTTTA
Found at i:136780 original size:910 final size:909
Alignment explanation
Indices: 134392--137134 Score: 4866
Period size: 910 Copynumber: 3.0 Consensus size: 909
134382 GTGACCTTTC
*
134392 ATGAAAGTTGATGTCCATTG-AGTACCATGCCACCTTGGTATACGGTGGTGAGGTTTTTGCAGCT
1 ATGAAAGTTGATGTCCATTGAAGTACCATG-CACCTTGGTATACGTTGGTGAGGTTTTTGCAGCT
134456 AAAAGGAGCTTAAAACTCGAAGAGACATGAGGCATCATAGAAGACTATTCAACCACACCATGGGA
65 AAAAGGAGCTTAAAACTCGAAGAGACATGAGGCATCATAGAAGACTATTCAACCACACCATGGGA
134521 ACACGCCTAGCACACGCCCAATCCTTGGAGCCAAGATGAAGCATCAAATGATTATTCGACCTTCA
130 ACACGCCTAGCACACGCCCAATCCTTGGAGCCAAGATGAAGCATCAAATGATTATTCGACCTTCA
134586 TTCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGTCGAACCAACATGAAGGCCAAAGAACT
195 TTCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGTCGAACCAACATGAAGGCCAAAGAACT
* *
134651 TGATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATG-ACCCTTGCTGAAAAGGCATGTA
260 TGATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATGTA-CCTTGCTAAAAAGACATGTA
* * *
134715 ATCATTCAGCCAGCCCTATCAAATCCTATAAATAGAGAGAG-TTAGTTCATTTGTAAACACACAT
324 ATCTTTCGGCCAGCCCTATCAAATCCTATAAATAGAGAG-GCTTAGTTCATTTATAAACACACAT
* * * * * *
134779 ATGAATATATAAAATTGTTTTGTGAGAATTCTCTATTCAAATTCTTTTAAGAACTATATCGATTA
388 TTAAATATATAAACTTATTTTGTGATAATTCTCTACTCAAATTCTTTTAAGAACTATATCGATTA
* * * * *
134844 AACAAGTATAATTCTTTATACATGTGGTGTCACTTCTTTCACTTTAATACTTATGATTCCTAGTT
453 AGCAAGTATAATTCTTTATACATGTGGCGTCACTTCTTTCACTTTGATACTTATAATTCCGAGTT
*
134909 TCATAACTAGTGGGTTTGAGTCCTAAACACCACCACTTATTCAAGTTTGCAAAGATTGGGGCTAT
518 TCATAACTAGTGGGTTTGAGTCCTAAACACCACCACGTATTCAAGTTTGCAAAGATTGGGGCTAT
134974 ACTCTTTATAGTATAGTTTATTCTTTAACTTGACTAAGATACTATCTCTTTCATTTCCATCACCA
583 ACTCTTTATAGTATAGTTTATTCTTTAACTTGACTAAGATACTATCTCTTTCATTTCCATCACCA
135039 TCCTTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCAACTTCATTGCCG
648 TCCTTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCAACTTCATTGCCG
135104 TGCACACTACTACATCAAGACCGTCTTAAAAAACAACATACTTTAAAGGCCACCATTGCCATATT
713 TGCACACTACTACATCAAGACCGTCTTAAAAAACAACATACTTTAAAGGCCACCATTGCCATATT
135169 TCTTCCAGAACAAATCTATCATTCTTCATCCTTAATTCATTTCATTTTCTATTTACTTCCATCAT
778 TCTTCCAGAACAAATCTATCATTCTTCATCCTTAATTCATTTCATTTTCTATTTACTTCCATCAT
135234 TATCATCATTACTAATCCATTTTATTATCCTTATTGTTTTGCAGCCATACTTATTAAATCTGGCG
843 TATCATCATTACTAATCCATTTTATTATCCTTATTGTTTTGCAGCCATACTTATTAAATCTGGCG
135299 CA
908 CA
*
135301 ATGAAAGTTGATGTCCATTGAAGTACCATGCACCTTGGTATACGTTGGTGAGGTTTTTGCAGTTA
1 ATGAAAGTTGATGTCCATTGAAGTACCATGCACCTTGGTATACGTTGGTGAGGTTTTTGCAGCTA
* * *
135366 AAAGGAGCTTAAAACTCAAAGAGACATGAGGCATCCTAGAAGACTATTCGGA-CACACCATGGGA
66 AAAGGAGCTTAAAACTCGAAGAGACATGAGGCATCATAGAAGACTATTC-AACCACACCATGGGA
* * * * *
135430 ACACGCCTAGCACATGCCCAAGCCTTGGCGCCAAGACGAAGCATCACATGATTATTCGGCCAAAG
130 ACACGCCTAGCACACGCCCAATCCTTGGAGCCAAGATGAAGCATCAAATGATTATT----C----
* *
135495 GGGATGTGCCTTCATTCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGCCTAACCAACATG
187 --GA----CCTTCATTCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGTCGAACCAACATG
*
135560 AAGGCCAAGGAACTTGATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATGTACCTTGCT
246 AAGGCCAAAGAACTTGATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATGTACCTTGCT
135625 AAAAAGACATGTAATCTTTCGGCCAGCCCTATCAAATCCTATAAATAGAGAGGCTTAGTTCATTT
311 AAAAAGACATGTAATCTTTCGGCCAGCCCTATCAAATCCTATAAATAGAGAGGCTTAGTTCATTT
135690 ATAAACACACATTTAAATATATAAACTTATTTTGTGATAATTCTCTACTCAAATTCTTTTAAGAA
376 ATAAACACACATTTAAATATATAAACTTATTTTGTGATAATTCTCTACTCAAATTCTTTTAAGAA
135755 CTATATCGATTAAGCAAGTATAATTCTTTATACATGTGGCGTCACTTCTTTCACTTTGATACTTA
441 CTATATCGATTAAGCAAGTATAATTCTTTATACATGTGGCGTCACTTCTTTCACTTTGATACTTA
135820 TAATTCCGAGTTTCATAACTAGTGGGTTTGAGTCCTAAACACCACCACGTATTCAAGTTTGCAAA
506 TAATTCCGAGTTTCATAACTAGTGGGTTTGAGTCCTAAACACCACCACGTATTCAAGTTTGCAAA
* *
135885 GATTGGGGCTATACTCTTTATAGTATAGTTTCTTCTTTAACTTGACTAAGATACTATCCCTTTCA
571 GATTGGGGCTATACTCTTTATAGTATAGTTTATTCTTTAACTTGACTAAGATACTATCTCTTTCA
135950 TTTCCATCACCATCCTTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCA
636 TTTCCATCACCATCCTTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCA
136015 ACTTCATTGCCCGTGCACACTACTACATCAAGACCGTCTTAAAAAACAACATACTTTAAAGGCCA
701 ACTTCATTG-CCGTGCACACTACTACATCAAGACCGTCTTAAAAAACAACATACTTTAAAGGCCA
136080 CCATTGCCATATTTCTTCCAGAACAAATCTATCATTCTTCATCCTTAATTCATTTCATTTTCTAT
765 CCATTGCCATATTTCTTCCAGAACAAATCTATCATTCTTCATCCTTAATTCATTTCATTTTCTAT
136145 TTACTTCCATCATTATCATCATTACTAATCCATTTTATTATCCTTATTGTTTTGCAGCCATACTT
830 TTACTTCCATCATTATCATCATTACTAATCCATTTTATTATCCTTATTGTTTTGCAGCCATACTT
136210 ATTAAATCTGGCGCA
895 ATTAAATCTGGCGCA
136225 ATGAAAGTTGATGTCCATTGAAGTACCATGCACCTTGGTATACGTTGGTGAGGTTTTTGCAGCTA
1 ATGAAAGTTGATGTCCATTGAAGTACCATGCACCTTGGTATACGTTGGTGAGGTTTTTGCAGCTA
136290 AAAGGAGCTTAAAACTCGAAGAGACATGAGGCATCATAGAAGACTATTCAACCACACCATGGGAA
66 AAAGGAGCTTAAAACTCGAAGAGACATGAGGCATCATAGAAGACTATTCAACCACACCATGGGAA
136355 CACGCCTAGCACACGCCCAATCCTTGGAGCCAAGATGAAGCATCAAATGATTATTCGACCTTCAT
131 CACGCCTAGCACACGCCCAATCCTTGGAGCCAAGATGAAGCATCAAATGATTATTCGACCTTCAT
136420 TCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGTCGAACCAACATGAAGGCCAAAGAACTT
196 TCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGTCGAACCAACATGAAGGCCAAAGAACTT
136485 GATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATGTACCTTGCTAAAAAGACATGTAAT
261 GATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATGTACCTTGCTAAAAAGACATGTAAT
136550 CTTTCGGCCAGCCCTATCAAATCCTATAAATAGAGAGGCTTAGTTCATTTATAAACACACATTTA
326 CTTTCGGCCAGCCCTATCAAATCCTATAAATAGAGAGGCTTAGTTCATTTATAAACACACATTTA
136615 AATATATAAACTTATTTTGTGATAATTCTCTACTCAAATTCTTTTAAGAACTATATCGATTAAGC
391 AATATATAAACTTATTTTGTGATAATTCTCTACTCAAATTCTTTTAAGAACTATATCGATTAAGC
136680 AAGTATAATTCTTTATACATGTGGCGTCACTTCTTTCACTTTGATACTTATAATTCCGAGTTTCA
456 AAGTATAATTCTTTATACATGTGGCGTCACTTCTTTCACTTTGATACTTATAATTCCGAGTTTCA
136745 TAACTAGTGGGTTTGAGTCCTAAACACCACCACGTATTCAAGTTTGCAAAGATTGGGGCTATACT
521 TAACTAGTGGGTTTGAGTCCTAAACACCACCACGTATTCAAGTTTGCAAAGATTGGGGCTATACT
136810 CTTTATAGTATAGTTTATTCTTTAACTTGACTAAGATACTATCTCTTTCATTTCCATCACCATCC
586 CTTTATAGTATAGTTTATTCTTTAACTTGACTAAGATACTATCTCTTTCATTTCCATCACCATCC
136875 TTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCAACTTCATTGCCGTGC
651 TTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCAACTTCATTGCCGTGC
* * * * * * **
136940 ACTCTACTACACCAAGGCCATCTTCAAAAACAACATACTTTAAAGGCCAGCATTTTCATATTTCT
716 ACACTACTACATCAAGACCGTCTTAAAAAACAACATACTTTAAAGGCCACCATTGCCATATTTCT
* * * * *
137005 TCCGGAACAATTCTATCATTCCTCATCCTTAATTCATTTCATTTTTTATTTATTTCCATCATTAT
781 TCCAGAACAAATCTATCATTCTTCATCCTTAATTCATTTCATTTTCTATTTACTTCCATCATTAT
*
137070 CATCATTACTAATCCATTTTCTTAT-CTTATTGTTTTGCAGCCATACTTATTAAATCTGGCGCA
846 CATCATTACTAATCCATTTTATTATCCTTATTGTTTTGCAGCCATACTTATTAAATCTGGCGCA
137133 AT
1 AT
137135 ACTTGCTATC
Statistics
Matches: 1754, Mismatches: 60, Indels: 41
0.95 0.03 0.02
Matches are distributed among these distances:
908 40 0.02
909 310 0.18
910 526 0.30
913 1 0.00
914 2 0.00
919 2 0.00
920 1 0.00
922 1 0.00
923 496 0.28
924 375 0.21
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (909 bp):
ATGAAAGTTGATGTCCATTGAAGTACCATGCACCTTGGTATACGTTGGTGAGGTTTTTGCAGCTA
AAAGGAGCTTAAAACTCGAAGAGACATGAGGCATCATAGAAGACTATTCAACCACACCATGGGAA
CACGCCTAGCACACGCCCAATCCTTGGAGCCAAGATGAAGCATCAAATGATTATTCGACCTTCAT
TCCAGCCAAGTCATTAAGACCCTTTGTGAAGAGATAGTCGAACCAACATGAAGGCCAAAGAACTT
GATCATTCATCCTAATAGTCATGCATCTTCATTAAGACATGTACCTTGCTAAAAAGACATGTAAT
CTTTCGGCCAGCCCTATCAAATCCTATAAATAGAGAGGCTTAGTTCATTTATAAACACACATTTA
AATATATAAACTTATTTTGTGATAATTCTCTACTCAAATTCTTTTAAGAACTATATCGATTAAGC
AAGTATAATTCTTTATACATGTGGCGTCACTTCTTTCACTTTGATACTTATAATTCCGAGTTTCA
TAACTAGTGGGTTTGAGTCCTAAACACCACCACGTATTCAAGTTTGCAAAGATTGGGGCTATACT
CTTTATAGTATAGTTTATTCTTTAACTTGACTAAGATACTATCTCTTTCATTTCCATCACCATCC
TTTTCATTCATTTCCATTACCATTCTATCATTCAACAACCATCTTCATCAACTTCATTGCCGTGC
ACACTACTACATCAAGACCGTCTTAAAAAACAACATACTTTAAAGGCCACCATTGCCATATTTCT
TCCAGAACAAATCTATCATTCTTCATCCTTAATTCATTTCATTTTCTATTTACTTCCATCATTAT
CATCATTACTAATCCATTTTATTATCCTTATTGTTTTGCAGCCATACTTATTAAATCTGGCGCA
Found at i:145331 original size:156 final size:158
Alignment explanation
Indices: 145047--145360 Score: 596
Period size: 156 Copynumber: 2.0 Consensus size: 158
145037 TGAATAATCA
*
145047 ACTTTGAAATAATGCAAATCTTTTCAAAATTTGCAATGGAATCTTCCACATCATCAGGTGGAATA
1 ACTTTGAAATAATGCAAATCTTTTCAAAATTTGCAATGGAATCATCCACATCATCAGGTGGAATA
145112 TTCCACCTAGCAGAGCTATAAGACCTAATAAAACTTCCTTATTTGTTGAAAGGAAGGGAATGT-A
66 TTCCACCTAGCAGAGCTATAAGACCTAATAAAACTTCCTTATTTGTTGAAAGGAAGGGAATGTAA
145176 GTGGATCTGATG-CTACCATTACCTATC
131 GTGGATCTGATGCCTACCATTACCTATC
*
145203 ACTTTGAAATAATGCAAATCTTTTCAAAATTTGCAATGGAATCATCCACATCGTCAGGTGGAATA
1 ACTTTGAAATAATGCAAATCTTTTCAAAATTTGCAATGGAATCATCCACATCATCAGGTGGAATA
145268 TTCCACCTAGCAGAGCTATAAGACCTAATAAAACTTCCTTATTTGTTGAAAGGAAGGGAATGTAA
66 TTCCACCTAGCAGAGCTATAAGACCTAATAAAACTTCCTTATTTGTTGAAAGGAAGGGAATGTAA
145333 GTGGATCTGATGCCTACCATTACCTATC
131 GTGGATCTGATGCCTACCATTACCTATC
145361 TGGAACTGAC
Statistics
Matches: 154, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
156 126 0.82
157 13 0.08
158 15 0.10
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (158 bp):
ACTTTGAAATAATGCAAATCTTTTCAAAATTTGCAATGGAATCATCCACATCATCAGGTGGAATA
TTCCACCTAGCAGAGCTATAAGACCTAATAAAACTTCCTTATTTGTTGAAAGGAAGGGAATGTAA
GTGGATCTGATGCCTACCATTACCTATC
Found at i:151380 original size:22 final size:22
Alignment explanation
Indices: 151350--151423 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
151340 TCGGTACCCC
* *
151350 AACTACTATAGTAAGCTACAAT
1 AACTGCTATAGTAAGCTACAGT
151372 AACTGCTATAGTAAGCTACAGT
1 AACTGCTATAGTAAGCTACAGT
151394 AACTGCTATAGTAAGCTACAGT
1 AACTGCTATAGTAAGCTACAGT
*
151416 AATTGCTA
1 AACTGCTA
151424 CAATACTTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (22 bp):
AACTGCTATAGTAAGCTACAGT
Found at i:151394 original size:10 final size:10
Alignment explanation
Indices: 151359--151417 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
151349 CAACTACTAT
151359 AGTAAGCTAC
1 AGTAAGCTAC
* *
151369 AATAACTGCTAT
1 AGTAA--GCTAC
151381 AGTAAGCTAC
1 AGTAAGCTAC
*
151391 AGTAACTGCTAT
1 AGTAA--GCTAC
151403 AGTAAGCTAC
1 AGTAAGCTAC
151413 AGTAA
1 AGTAA
151418 TTGCTACAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 22 0.56
12 17 0.44
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (10 bp):
AGTAAGCTAC
Found at i:151406 original size:12 final size:12
Alignment explanation
Indices: 151350--151407 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
151340 TCGGTACCCC
*
151350 AACTACTATAGT
1 AACTGCTATAGT
* *
151362 AA--GCTACAAT
1 AACTGCTATAGT
151372 AACTGCTATAGT
1 AACTGCTATAGT
*
151384 AA--GCTACAGT
1 AACTGCTATAGT
151394 AACTGCTATAGT
1 AACTGCTATAGT
151406 AA
1 AA
151408 GCTACAGTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
10 16 0.46
12 19 0.54
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (12 bp):
AACTGCTATAGT
Found at i:151423 original size:12 final size:11
Alignment explanation
Indices: 151359--151425 Score: 59
Period size: 12 Copynumber: 6.1 Consensus size: 11
151349 CAACTACTAT
151359 AGTAA-GCTAC
1 AGTAATGCTAC
* *
151369 AATAACTGCTAT
1 AGTAA-TGCTAC
151381 AGTAA-GCTAC
1 AGTAATGCTAC
*
151391 AGTAACTGCTAT
1 AGTAA-TGCTAC
151403 AGTAA-GCTAC
1 AGTAATGCTAC
151413 AGTAATTGCTAC
1 AGTAA-TGCTAC
151425 A
1 A
151426 ATACTTCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
10 22 0.49
12 23 0.51
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (11 bp):
AGTAATGCTAC
Found at i:151824 original size:45 final size:45
Alignment explanation
Indices: 151767--151904 Score: 143
Period size: 45 Copynumber: 3.1 Consensus size: 45
151757 TTTATTAACA
* **
151767 ATAAGCTAGTAAGCTTATTTTATTAAAATACTTACCATTTATCCC
1 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATCCC
* * ** * * *
151812 TTAAGCTCGTAAGCTTATCTTACCATTATATTTACCATTTGTTCC
1 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATCCC
* * * *
151857 ATAAGCTCGTAAGCTTACTTTACCAATACACTTACCA-TTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATCCC
151901 ATAA
1 ATAA
151905 CCATATACCA
Statistics
Matches: 76, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 10 0.13
45 66 0.87
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (45 bp):
ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATCCC
Found at i:154351 original size:18 final size:18
Alignment explanation
Indices: 154324--154358 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
154314 ACTGAAAATT
*
154324 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
154342 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
154359 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:157572 original size:10 final size:10
Alignment explanation
Indices: 157551--157580 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
157541 TGTCAAATGC
157551 TTCTTCTTTTT
1 TTCTT-TTTTT
157562 TTCTTTTTTT
1 TTCTTTTTTT
157572 TTCTTTTTT
1 TTCTTTTTT
157581 CAATACTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:159130 original size:21 final size:21
Alignment explanation
Indices: 159104--159218 Score: 117
Period size: 21 Copynumber: 5.6 Consensus size: 21
159094 GCGTTGTATT
*
159104 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
159125 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
159146 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* ** **
159166 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
159186 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
159207 TCGCGTTGCGAT
1 TCGCGTTGCGAT
159219 TTTCCAGTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 35 0.43
21 47 0.57
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:159171 original size:20 final size:20
Alignment explanation
Indices: 159146--159360 Score: 220
Period size: 20 Copynumber: 10.6 Consensus size: 20
159136 TAGTTGAAAA
*
159146 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
*
159166 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
* ** **
159186 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAGT
159207 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
159227 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
159247 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
159269 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
159290 T--CGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* ** **
159308 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAGT
159329 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
159349 TCGCGTTGCGAT
1 TCGCGTTGCGAT
159361 AGTCTACAGT
Statistics
Matches: 161, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
18 3 0.02
19 14 0.09
20 94 0.58
21 34 0.21
22 16 0.10
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:159177 original size:41 final size:40
Alignment explanation
Indices: 159125--159360 Score: 181
Period size: 41 Copynumber: 5.8 Consensus size: 40
159115 TAATTGAAAA
** * *
159125 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGAT-GTTCCAATTCGCGTTGCGATTTTCCAAT
* * * ** *
159166 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATGTTCCAATTCGCGTTGCGAT-TTTCCAAT
* * *
159207 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATGTTCCAATTCGCGTTGCGATTTTCCAAT
* *
159247 TCGCGTTGCGATAGTCTACAGTT-GTCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGAT-GT-TCCAATTCG-CGTTGCGATTTTCC-AAT
* * * ** *
159290 T--CGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATGTTCCAATTCGCGTTGCGAT-TTTCCAAT
* *
159329 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT
1 TCGCGTTGCGATGTTCCAATTCGCGTTGCGAT
159361 AGTCTACAGT
Statistics
Matches: 161, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
39 18 0.11
40 34 0.21
41 86 0.53
42 20 0.12
43 3 0.02
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATGTTCCAATTCGCGTTGCGATTTTCCAAT
Found at i:159205 original size:61 final size:61
Alignment explanation
Indices: 159125--159360 Score: 370
Period size: 61 Copynumber: 3.9 Consensus size: 61
159115 TAATTGAAAA
* *
159125 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGT
159186 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGT
* * * *
159247 TCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT--CGTTGCGATTTTCCAGT
1 TCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-AGTTCGCGTTGCGATTTTCCAGT
159308 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT
159361 AGTCTACAGT
Statistics
Matches: 159, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
59 3 0.02
60 15 0.09
61 123 0.77
62 15 0.09
63 3 0.02
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (61 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGT
Found at i:159295 original size:81 final size:81
Alignment explanation
Indices: 159103--159363 Score: 258
Period size: 81 Copynumber: 3.2 Consensus size: 81
159093 CGCGTTGTAT
* * * ** ** *
159103 TTCGCGTTGCGATAATTGAAAATCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGAT-TTTCCAGTTCGCGTTGCGATTTTCCAGTTC
* * *
159168 GCGTTGCGATTTTCCAT
65 GCGTTGCGATTCTACAG
*
159185 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGTTCG
1 TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGTTCG
159250 CGTTGCGATAGTCTACAG
66 CGTTGCGAT--TCTACAG
* * * * ** **
159268 TT-GTCGTTGCGAT-TTTCCAAAT-TCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAAT
1 TTCG-CGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT-TTTCCAGTT
* *
159330 CGCGTTGCGATTTTCCAG
64 CGCGTTGCGATTCTACAG
159348 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
159364 CTACAGTTGT
Statistics
Matches: 151, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
80 16 0.11
81 65 0.43
82 55 0.36
83 15 0.10
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (81 bp):
TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGTTCG
CGTTGCGATTCTACAG
Found at i:160031 original size:5 final size:5
Alignment explanation
Indices: 160023--160074 Score: 68
Period size: 5 Copynumber: 9.6 Consensus size: 5
160013 CCGTCTTGTC
160023 TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG-GG
160072 TCG
1 TCG
160075 TGGTAATACG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 23 0.50
6 23 0.50
ACGTcount: A:0.00, C:0.19, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:160057 original size:6 final size:6
Alignment explanation
Indices: 160026--160078 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
160016 TCTTGTCTCG
160026 GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
160070 GGTCGT GGT
1 GGTCGT GGT
160079 AATACGTGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 20 0.43
6 27 0.57
ACGTcount: A:0.00, C:0.17, G:0.55, T:0.28
Consensus pattern (6 bp):
GGTCGT
Found at i:160207 original size:22 final size:22
Alignment explanation
Indices: 160178--160270 Score: 95
Period size: 22 Copynumber: 4.4 Consensus size: 22
160168 AATTTGGAAA
160178 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
160200 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
160222 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
160241 ATCGCAACGAC-ATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
160262 ATCGCAACG
1 ATCGCAACG
160271 CGAAATGGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 13 0.23
20 3 0.05
21 13 0.23
22 27 0.48
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:160229 original size:19 final size:20
Alignment explanation
Indices: 160156--160270 Score: 72
Period size: 22 Copynumber: 5.6 Consensus size: 20
160146 TTTTTTTTTA
* *
160156 ACTATCGCAACGAA-TTTGG
1 ACTATCGCAACGAACTGTAG
**
160175 AAAATCGCAACGACAACTGTAG
1 ACTATCGCAACG--AACTGTAG
* *
160197 ACTTTCGCAACAACAACTGTAG
1 ACTATCGCAAC--GAACTGTAG
* *
160219 ACTATCGCAACGAA-TTTGG
1 ACTATCGCAACGAACTGTAG
** *
160238 AAAATCGCAACGACATTGTAG
1 ACTATCGCAACGA-ACTGTAG
160259 ACTATCGCAACG
1 ACTATCGCAACG
160271 CGAAATGGAA
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 24 0.34
20 3 0.04
21 15 0.21
22 29 0.41
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
ACTATCGCAACGAACTGTAG
Found at i:160287 original size:20 final size:20
Alignment explanation
Indices: 160262--160334 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
160252 ATTGTAGACT
160262 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
160282 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
160303 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
160323 ATCGCAACGCGA
1 ATCGCAACGCGA
160335 TTTTCAACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:160308 original size:21 final size:21
Alignment explanation
Indices: 160282--160355 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
160272 GAAATGGAAA
160282 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
160303 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
160323 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
160344 ATAGCAACGCGA
1 ATCGCAACGCGA
160356 AATGTATCGC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:160331 original size:41 final size:41
Alignment explanation
Indices: 160219--160359 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
160209 ACAACTGTAG
* *
160219 ACTATCGCAA--CGAATTTGGAAAATCGCAACGAC-ATTGT-A
1 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGATTTTCA
160258 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
160300 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
160341 ACTATAGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
160360 TATCGCAACG
Statistics
Matches: 94, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
40 11 0.12
41 78 0.83
42 5 0.05
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:167168 original size:17 final size:16
Alignment explanation
Indices: 167148--167222 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 16
167138 TAGTGTAGTA
167148 AATGAACTAGTTTGATG
1 AATGAACTAGTTT-ATG
*
167165 AATGAACTAGTTTAATT
1 AATGAACTAGTTT-ATG
* * *
167182 AATTAACTAACTTTATTA
1 AATGAACT-AGTTTA-TG
*
167200 AATGAACTAGGTTCATG
1 AATGAACTA-GTTTATG
167217 AATGAA
1 AATGAA
167223 GTAGCTTACT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 31 0.67
18 15 0.33
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (16 bp):
AATGAACTAGTTTATG
Found at i:168464 original size:17 final size:17
Alignment explanation
Indices: 168435--168475 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
168425 TATTTCCCCA
168435 TTTTT-TCACAAAATTC
1 TTTTTCTCACAAAATTC
*
168451 TTTTTCTCATAAAATTC
1 TTTTTCTCACAAAATTC
168468 TTTTTCTC
1 TTTTTCTC
168476 TGCTCTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTCTCACAAAATTC
Found at i:170829 original size:17 final size:17
Alignment explanation
Indices: 170809--170851 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
170799 TAGTGTGGTA
*
170809 AATGAACTAGTTTGATG
1 AATGAACTAGTTTAATG
*
170826 AATGAACTAGTTTAATT
1 AATGAACTAGTTTAATG
170843 AATGAACTA
1 AATGAACTA
170852 ACTTTAGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (17 bp):
AATGAACTAGTTTAATG
Found at i:172100 original size:17 final size:17
Alignment explanation
Indices: 172075--172115 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
172065 TATTTCCCCA
172075 TTTTT-TCACAAAATTC
1 TTTTTCTCACAAAATTC
172091 TTTTTCTCACAAAATTC
1 TTTTTCTCACAAAATTC
172108 TTTTTCTC
1 TTTTTCTC
172116 TGCTCTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTTCTCACAAAATTC
Found at i:172176 original size:18 final size:17
Alignment explanation
Indices: 172149--172195 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
172139 CTTATTTCTC
172149 TTTCTTTTTTTCAAATA
1 TTTCTTTTTTTCAAATA
*
172166 TTTCATTTTTTCAAATA
1 TTTCTTTTTTTCAAATA
*
172183 TTTCCTTTTTTCA
1 TTTCTTTTTTTCA
172196 GTTGTTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCTTTTTTTCAAATA
Found at i:174499 original size:17 final size:17
Alignment explanation
Indices: 174477--174531 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
174467 AATTAAGAGT
* *
174477 TAGTTTAGTGAATGAAC
1 TAGTTTAATAAATGAAC
*
174494 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* *
174511 TAACTTTATTAAATGAAC
1 T-AGTTTAATAAATGAAC
174529 TAG
1 TAG
174532 ATGCATGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:174525 original size:18 final size:18
Alignment explanation
Indices: 174487--174530 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
174477 TAGTTTAGTG
*
174487 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
174504 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
174521 AAATGAACTA
1 -AATGAACTA
174531 GATGCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:177725 original size:13 final size:13
Alignment explanation
Indices: 177707--177731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177697 ATTGGTCCCT
177707 TAATTAAATAAAA
1 TAATTAAATAAAA
177720 TAATTAAATAAA
1 TAATTAAATAAA
177732 CTTTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATTAAATAAAA
Found at i:181280 original size:18 final size:17
Alignment explanation
Indices: 181227--181277 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
181217 TTGTTCAAAG
* *
181227 ATAACTTAAATAAATTA
1 ATAATTTAAACAAATTA
* *
181244 ATAATTTGAACTTAATTA
1 ATAATTTAAAC-AAATTA
181262 ATAATTTAAACAAATT
1 ATAATTTAAACAAATT
181278 TAAAAAAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATTTAAACAAATTA
Found at i:188338 original size:17 final size:15
Alignment explanation
Indices: 188319--188356 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
188309 AATAATGAAA
*
188319 TATATTTAA-TATA-
1 TATATATAATTATAT
188332 TATATATAATTATAT
1 TATATATAATTATAT
188347 TATATATAAT
1 TATATATAAT
188357 CCGGGTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 4 0.18
15 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATAATTATAT
Found at i:188453 original size:20 final size:22
Alignment explanation
Indices: 188413--188454 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
188403 AATTATATTA
*
188413 TTTTTAAAAATATATAGAATTT
1 TTTTTAAAAATATATAAAATTT
188435 TTTTTAAAAAT-T-TAAAATTT
1 TTTTTAAAAATATATAAAATTT
188455 AAAAGTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTTAAAAATATATAAAATTT
Found at i:188637 original size:39 final size:38
Alignment explanation
Indices: 188594--188695 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 38
188584 TTAAACAAAT
*
188594 AATTTAGAATGTTAATGTGAAATATTTTAAGAAATTTAG
1 AATTTAGAATGTTAATGTGAAATA-TTTAAGAAATTGAG
* * * *
188633 AATTTAGAATATTATGATGTCAAA-ATTTAATAAATTGGG
1 AATTTAGAATGTTA--ATGTGAAATATTTAAGAAATTGAG
* * *
188672 ATTTTAGAATGCTAGTGTGAAATA
1 AATTTAGAATGTTAATGTGAAATA
188696 ATTTGACAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
37 6 0.12
38 1 0.02
39 35 0.70
40 1 0.02
41 7 0.14
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.39
Consensus pattern (38 bp):
AATTTAGAATGTTAATGTGAAATATTTAAGAAATTGAG
Found at i:190060 original size:33 final size:35
Alignment explanation
Indices: 190016--190089 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 35
190006 TAAATAATAA
* * *
190016 AAATAATTTATTCGAAATAAAT-TATTA-CAAAAT
1 AAATAAATTATTCAAAATAAATATATAATCAAAAT
*
190049 AAATAAATTATTCAAAATAAATATATAATTAAAAT
1 AAATAAATTATTCAAAATAAATATATAATCAAAAT
190084 AAATAA
1 AAATAA
190090 TTAAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 20 0.57
34 4 0.11
35 11 0.31
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (35 bp):
AAATAAATTATTCAAAATAAATATATAATCAAAAT
Found at i:190066 original size:18 final size:18
Alignment explanation
Indices: 190030--190089 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
190020 AATTTATTCG
190030 AAATAAATTATTACAAAAT
1 AAATAAATTATT-CAAAAT
190049 AAATAAATTATTCAAAAT
1 AAATAAATTATTCAAAAT
* *
190067 AAATATATAATT-AAAAT
1 AAATAAATTATTCAAAAT
190084 AAATAA
1 AAATAA
190090 TTAAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 10 0.26
18 16 0.42
19 12 0.32
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATTATTCAAAAT
Found at i:190070 original size:14 final size:15
Alignment explanation
Indices: 190015--190052 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
190005 ATAAATAATA
*
190015 AAAATAATTTATT-C
1 AAAATAAATTATTAC
*
190029 GAAATAAATTATTAC
1 AAAATAAATTATTAC
190044 AAAATAAAT
1 AAAATAAAT
190053 AAATTATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATAAATTATTAC
Found at i:190784 original size:21 final size:21
Alignment explanation
Indices: 190738--190784 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
190728 AAAAATATAC
*
190738 AATATATATATAGTTTTTGAA
1 AATATATATATAGTTTTTCAA
*
190759 GATATATAGTATAG-TTTTCAA
1 AATATATA-TATAGTTTTTCAA
190780 AATAT
1 AATAT
190785 TTTTTTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (21 bp):
AATATATATATAGTTTTTCAA
Found at i:190811 original size:38 final size:38
Alignment explanation
Indices: 190760--190991 Score: 204
Period size: 38 Copynumber: 6.3 Consensus size: 38
190750 GTTTTTGAAG
* * *
190760 ATAT-ATAGTATAGTTTTCAAAATATTTTTTTTGAAAAC
1 ATATAATA-TATAGTTTTTAAAATACTGTTTTTGAAAAC
*
190798 ATATAATATATAGTTTTTAAAA-A-TGGTTTTGAAAAC
1 ATATAATATATAGTTTTTAAAATACTGTTTTTGAAAAC
* **
190834 ATATAATATATAGTTTTTAAAAGACAATTTTTGAAAAC
1 ATATAATATATAGTTTTTAAAATACTGTTTTTGAAAAC
* * *
190872 GTATAATATATAGTTTTTAAAAAACGGTTTTTGAAAAC
1 ATATAATATATAGTTTTTAAAATACTGTTTTTGAAAAC
* *
190910 GTAT-ATAATATAGTTTTGAAACATA----TTTTGAAAAC
1 ATATAAT-ATATAGTTTTTAAA-ATACTGTTTTTGAAAAC
190945 --AT-ATATATAGTTTTT-AAA-AC-GATTTTTGAAAAC
1 ATATAATATATAGTTTTTAAAATACTG-TTTTTGAAAAC
190978 ATATACAATATATA
1 ATAT--AATATATA
190992 TAATTTTTGA
Statistics
Matches: 167, Mismatches: 13, Indels: 28
0.80 0.06 0.13
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 2 0.01
32 10 0.06
33 14 0.08
35 12 0.07
36 33 0.20
37 4 0.02
38 85 0.51
39 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (38 bp):
ATATAATATATAGTTTTTAAAATACTGTTTTTGAAAAC
Found at i:191013 original size:22 final size:22
Alignment explanation
Indices: 190987--191036 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
190977 CATATACAAT
190987 ATATATAATTTTTGAAAACATA
1 ATATATAATTTTTGAAAACATA
* * *
191009 TTATATAGTTTTTGAAAATATA
1 ATATATAATTTTTGAAAACATA
191031 ATATAT
1 ATATAT
191037 GTTATATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (22 bp):
ATATATAATTTTTGAAAACATA
Found at i:191046 original size:29 final size:26
Alignment explanation
Indices: 191009--191062 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 26
190999 TGAAAACATA
191009 TTATATAGTTTTTGAAAATATAATATATG
1 TTATATAGTTTTT--AAATA-AATATATG
191038 TTATATAGTTTTTAAATAAATATAT
1 TTATATAGTTTTTAAATAAATATAT
191063 AGTACATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.28
27 5 0.20
29 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (26 bp):
TTATATAGTTTTTAAATAAATATATG
Found at i:191071 original size:28 final size:28
Alignment explanation
Indices: 191011--191071 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
191001 AAAACATATT
*
191011 ATATAGTTTTTGAAAATATAATATATGTT
1 ATATAGTTTTT-AAAATATAATATATGTC
191040 ATATAGTTTTT-AAATA-AATATATAGTAC
1 ATATAGTTTTTAAAATATAATATAT-GT-C
191068 ATAT
1 ATAT
191072 TATATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.24
27 7 0.24
28 4 0.14
29 11 0.38
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (28 bp):
ATATAGTTTTTAAAATATAATATATGTC
Found at i:193279 original size:18 final size:18
Alignment explanation
Indices: 193265--193319 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
193255 TAATATTATT
193265 AAAT-TATTAAATATTTA
1 AAATATATTAAATATTTA
193282 AAATATATT-AATAATTTTCA
1 AAATATATTAAAT-A-TTT-A
*
193302 AAATATAATATAATATTT
1 AAATATATTA-AATATTT
193320 TTATTTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
17 7 0.23
18 5 0.16
19 3 0.10
20 12 0.39
21 1 0.03
22 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATATATTAAATATTTA
Found at i:193284 original size:31 final size:28
Alignment explanation
Indices: 193205--193344 Score: 96
Period size: 27 Copynumber: 5.0 Consensus size: 28
193195 AATGGCATTA
193205 TATTATATATTTAATA-T-TAAAATAATAT
1 TATTA-ATA-TTAATATTATAAAATAATAT
*
193233 T-TTAATATTAATTTTATAAAAATAATAT
1 TATTAATATTAATATTAT-AAAATAATAT
193261 TATTAAATTATTAAATATT-TAAAAT-ATAT
1 TATT-AA-TATT-AATATTATAAAATAATAT
* * * *
193290 TAATAATTTTCAA-AATATAATATAATAT
1 TATTAATATT-AATATTATAAAATAATAT
* *
193318 T-TTTATTTTAATATTATAATAATAATA
1 TATTAATATTAATATTATAA-AATAATA
193345 ATTTTTACAA
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
25 5 0.06
26 8 0.09
27 26 0.29
28 25 0.28
29 9 0.10
30 7 0.08
31 5 0.06
32 5 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
TATTAATATTAATATTATAAAATAATAT
Found at i:194810 original size:37 final size:37
Alignment explanation
Indices: 194748--194914 Score: 155
Period size: 37 Copynumber: 4.5 Consensus size: 37
194738 AATACTTAAG
* * *
194748 ATTTAATCTCACTTGAGAGTATTTTT-TTAAAAAACA
1 ATTTCATCTCACTTGAGATTGTTTTTCTTAAAAAACA
* * *
194784 AGTTTCATCTCTCTTGAGAATGTTTTTCTTAAAATA-A
1 A-TTTCATCTCACTTGAGATTGTTTTTCTTAAAAAACA
* *
194821 ATTGT-GTATCACTTGAGATTGTTTTTTCTTAAAAAACAA
1 ATT-TCATCTCACTTGAGATTG-TTTTTCTTAAAAAAC-A
* *
194860 ATTTCATCTCACTTGAGATTG-TTTTCTCGAAACAA-A
1 ATTTCATCTCACTTGAGATTGTTTTTCT-TAAAAAACA
*
194896 ATTTCATCTCAATTGAGAT
1 ATTTCATCTCACTTGAGAT
194915 AACTTCTCTT
Statistics
Matches: 108, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
36 34 0.31
37 43 0.40
38 13 0.12
39 18 0.17
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (37 bp):
ATTTCATCTCACTTGAGATTGTTTTTCTTAAAAAACA
Found at i:194905 original size:36 final size:38
Alignment explanation
Indices: 194748--194914 Score: 139
Period size: 36 Copynumber: 4.5 Consensus size: 38
194738 AATACTTAAG
* * * *
194748 ATTTAATCTCACTTGAGAGTATTTTT-TTAAAAAACAA
1 ATTTCATCTCACTTGAGATTGTTTTTCTCAAAAAACAA
* * * * *
194785 GTTTCATCTCTCTTGAGAATGTTTTTCT--TAAAATAA
1 ATTTCATCTCACTTGAGATTGTTTTTCTCAAAAAACAA
* * *
194821 ATTGT-GTATCACTTGAGATTGTTTTTTCTTAAAAAACAA
1 ATT-TCATCTCACTTGAGATTG-TTTTTCTCAAAAAACAA
* *
194860 ATTTCATCTCACTTGAGATTG-TTTTCTCGAAACA-AA
1 ATTTCATCTCACTTGAGATTGTTTTTCTCAAAAAACAA
*
194896 ATTTCATCTCAATTGAGAT
1 ATTTCATCTCACTTGAGAT
194915 AACTTCTCTT
Statistics
Matches: 104, Mismatches: 20, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
36 40 0.38
37 39 0.38
38 2 0.02
39 23 0.22
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (38 bp):
ATTTCATCTCACTTGAGATTGTTTTTCTCAAAAAACAA
Found at i:194912 original size:75 final size:73
Alignment explanation
Indices: 194748--194914 Score: 180
Period size: 75 Copynumber: 2.2 Consensus size: 73
194738 AATACTTAAG
* *
194748 ATTTAATCTCACTTGAGA-GTATTTTTTTAAAAAACAAGTTTCATCTCTCTTGAGAATGTTTTTC
1 ATTT-ATCTCACTTGAGATGTATTTTTTTAAAAAACAAATTTCATCTCACTTGAGAATGTTTTTC
*
194812 TTAAAATAA
65 TGAAAATAA
* * *
194821 ATTGTGTATCACTTGAGATTGT-TTTTTCTTAAAAAACAAATTTCATCTCACTTGAGATTG-TTT
1 ATT-TATCTCACTTGAGA-TGTATTTTT-TTAAAAAACAAATTTCATCTCACTTGAGAATGTTTT
194884 TCTCGAAACA-AA
63 TCT-GAAA-ATAA
*
194896 ATTTCATCTCAATTGAGAT
1 ATTT-ATCTCACTTGAGAT
194915 AACTTCTCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
73 14 0.18
74 14 0.18
75 49 0.63
76 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (73 bp):
ATTTATCTCACTTGAGATGTATTTTTTTAAAAAACAAATTTCATCTCACTTGAGAATGTTTTTCT
GAAAATAA
Found at i:194922 original size:35 final size:37
Alignment explanation
Indices: 194854--194931 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 37
194844 TTTTCTTAAA
* ***
194854 AAAC-AAATTTCATCTCACTTGAGATTGTTTTCTC-G
1 AAACAAAATTTCATCTCAATTGAGATTAACTTCTCTG
194889 AAACAAAATTTCATCTCAATTGAGA-TAACTTCTCTTG
1 AAACAAAATTTCATCTCAATTGAGATTAACTTCTC-TG
194926 AAACAA
1 AAACAA
194932 GTTTATGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.28
36 19 0.53
37 7 0.19
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (37 bp):
AAACAAAATTTCATCTCAATTGAGATTAACTTCTCTG
Found at i:195379 original size:44 final size:43
Alignment explanation
Indices: 195265--195371 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 43
195255 GCTTGTTCAA
* *
195265 CATTTGTTGGATTCCATCAGATAAGGAGTTAGATCAACATCAC
1 CATTTGTTAGATTCCATCACATAAGGAGTTAGATCAACATCAC
* * * * *
195308 CATTTCGCTCGATTCCATCACATAAGGAGTTGGTTCAGCATCACC
1 CATTT-GTTAGATTCCATCACATAAGGAGTTAGATCAACATCA-C
195353 CATTTGTTAGATTCCATCA
1 CATTTGTTAGATTCCATCA
195372 TAGAAGGAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 5 0.09
44 43 0.80
45 6 0.11
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
CATTTGTTAGATTCCATCACATAAGGAGTTAGATCAACATCAC
Found at i:197379 original size:34 final size:35
Alignment explanation
Indices: 197336--197401 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
197326 ACTTATTTTG
*
197336 TTATGTTATTTAATTCTAATTTTG-ATATTGCATT
1 TTATGTTATTTAATTCTAATCTTGAATATTGCATT
* * *
197370 TTATTTTATTTTATTTTAATCTTGAATATTGC
1 TTATGTTATTTAATTCTAATCTTGAATATTGC
197402 TTATGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 20 0.74
35 7 0.26
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.61
Consensus pattern (35 bp):
TTATGTTATTTAATTCTAATCTTGAATATTGCATT
Found at i:197681 original size:2 final size:2
Alignment explanation
Indices: 197674--197699 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
197664 TTACGTATTA
197674 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
197700 GTTTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:232966 original size:13 final size:13
Alignment explanation
Indices: 232948--232974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
232938 ATATATAATA
232948 TAGAAAAGAATTT
1 TAGAAAAGAATTT
232961 TAGAAAAGAATTT
1 TAGAAAAGAATTT
232974 T
1 T
232975 CTTATTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (13 bp):
TAGAAAAGAATTT
Found at i:233251 original size:20 final size:20
Alignment explanation
Indices: 233226--233263 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
233216 AAATATAGAA
*
233226 AATTTAGATAAATTAAAAAT
1 AATTTAAATAAATTAAAAAT
*
233246 AATTTAAATAATTTAAAA
1 AATTTAAATAAATTAAAA
233264 TAGTAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AATTTAAATAAATTAAAAAT
Found at i:235590 original size:13 final size:13
Alignment explanation
Indices: 235533--235597 Score: 80
Period size: 13 Copynumber: 5.0 Consensus size: 13
235523 ATCATAAATA
*
235533 TATGACGCGAATT
1 TATGACGCGCATT
235546 TATGA-GACGCATT
1 TATGACG-CGCATT
235559 TATGA-GACGCATT
1 TATGACG-CGCATT
235572 TATGACGCGCATT
1 TATGACGCGCATT
*
235585 TATGACGTGCATT
1 TATGACGCGCATT
235598 GCGCGTCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
12 1 0.02
13 46 0.96
14 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:237982 original size:13 final size:13
Alignment explanation
Indices: 237964--237990 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
237954 TGTCATCAAC
237964 TGCAAGATCAAAA
1 TGCAAGATCAAAA
237977 TGCAAGATCAAAA
1 TGCAAGATCAAAA
237990 T
1 T
237991 AATATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (13 bp):
TGCAAGATCAAAA
Found at i:249469 original size:13 final size:13
Alignment explanation
Indices: 249439--249463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
249429 TTTGGTACAT
249439 AAAATCAAAATAA
1 AAAATCAAAATAA
249452 AAAATCAAAATA
1 AAAATCAAAATA
249464 TGAAATGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATCAAAATAA
Found at i:249579 original size:31 final size:31
Alignment explanation
Indices: 249541--249600 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
249531 CATATGTATG
*
249541 ACATCACAGACC-AGGTACCAAACCTACTCTA
1 ACATCACAGACCGAGATACCAAACC-ACTCTA
249572 ACATCACAGACCGAGATACCAAACCACTC
1 ACATCACAGACCGAGATACCAAACCACTC
249601 GTATGGTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.40, C:0.37, G:0.10, T:0.13
Consensus pattern (31 bp):
ACATCACAGACCGAGATACCAAACCACTCTA
Found at i:251432 original size:19 final size:19
Alignment explanation
Indices: 251368--251432 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
251358 ATCTCATGTT
* * *
251368 AGGGGTGAATTTAAACTTA
1 AGGGGTGAACTAAAATTTA
*
251387 AGGGAGATGACCTAAAATTTA
1 AGGG-G-TGAACTAAAATTTA
* *
251408 AAGGGTGAACTAAAATTTT
1 AGGGGTGAACTAAAATTTA
251427 AGGGGT
1 AGGGGT
251433 TAAACAGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 21 0.58
20 2 0.06
21 13 0.36
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (19 bp):
AGGGGTGAACTAAAATTTA
Found at i:254669 original size:24 final size:24
Alignment explanation
Indices: 254615--254669 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
254605 TAGGAAATGG
*
254615 GTGAAGAAGAAGGAGGAAGTGAGCA
1 GTGAA-AAGAAGGAGGAAGCGAGCA
254640 -TAGAAAAGAAGGAGGAAGACGAG-A
1 GT-GAAAAGAAGGAGGAAG-CGAGCA
254664 GTGAAA
1 GTGAAA
254670 GTCCGATGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.49, C:0.04, G:0.40, T:0.07
Consensus pattern (24 bp):
GTGAAAAGAAGGAGGAAGCGAGCA
Found at i:264201 original size:29 final size:29
Alignment explanation
Indices: 264189--264319 Score: 217
Period size: 29 Copynumber: 4.5 Consensus size: 29
264179 ACAAAATTAA
264189 TTACGAAACTAACACCCTTTTAAAAATAT
1 TTACGAAACTAACACCCTTTTAAAAATAT
* * *
264218 TTACAAAACTAACATCATTTTAAAAATAT
1 TTACGAAACTAACACCCTTTTAAAAATAT
264247 TTACGAAACTAACACCCTTTTAAAAATAT
1 TTACGAAACTAACACCCTTTTAAAAATAT
* *
264276 TTATGAAACTAACACCTTTTTAAAAATAT
1 TTACGAAACTAACACCCTTTTAAAAATAT
264305 TTACGAAACTAACAC
1 TTACGAAACTAACAC
264320 TCGGGTCGGG
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (29 bp):
TTACGAAACTAACACCCTTTTAAAAATAT
Found at i:266978 original size:12 final size:12
Alignment explanation
Indices: 266961--266985 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
266951 ACAACACTTA
266961 TCCATACAACGC
1 TCCATACAACGC
266973 TCCATACAACGC
1 TCCATACAACGC
266985 T
1 T
266986 TGCACTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.40, G:0.08, T:0.20
Consensus pattern (12 bp):
TCCATACAACGC
Found at i:269328 original size:22 final size:22
Alignment explanation
Indices: 269303--269353 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
269293 CTACAGCGAC
269303 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
269325 ATCCGTTCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
269347 ATCCGTC
1 ATCCGTC
269354 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:269716 original size:20 final size:20
Alignment explanation
Indices: 269689--269781 Score: 117
Period size: 20 Copynumber: 5.0 Consensus size: 20
269679 GTTTTTGTCA
269689 TTGCGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
*
269709 TTGTGATTTT-A---T--CG
1 TTGCGATTTTCATTTTCGCG
* *
269723 TTGCGATTTTCATGTTCGTG
1 TTGCGATTTTCATTTTCGCG
269743 TTGCGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
269763 TTGCGATTTTCATTTTCGC
1 TTGCGATTTTCATTTTCGC
269782 ATTGTGAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
14 11 0.18
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 47 0.76
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.52
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGCG
Found at i:269732 original size:34 final size:36
Alignment explanation
Indices: 269689--269793 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 36
269679 GTTTTTGTCA
269689 TTGCGATTTTCATTTTCGCGTTGTGATTTTA-T-CG
1 TTGCGATTTTCATTTTCGCGTTGTGATTTTATTCCG
* * *
269723 TTGCGATTTTCATGTTCGTGTTGCGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCGTTGTGATTTT-A--TTC-CG
* *
269763 TTGCGATTTTCATTTTCGCATTGTGAATTTA
1 TTGCGATTTTCATTTTCGCGTTGTGATTTTA
269794 AGTTTAAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
34 27 0.47
35 1 0.02
38 1 0.02
39 1 0.02
40 27 0.47
ACGTcount: A:0.13, C:0.15, G:0.20, T:0.51
Consensus pattern (36 bp):
TTGCGATTTTCATTTTCGCGTTGTGATTTTATTCCG
Found at i:271772 original size:12 final size:12
Alignment explanation
Indices: 271755--271796 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
271745 TTTTTCAGAA
*
271755 TTATTTATTTAT
1 TTATTTATTAAT
*
271767 TTATTTACTAAT
1 TTATTTATTAAT
*
271779 TTATGTATTAAT
1 TTATTTATTAAT
271791 TTATTT
1 TTATTT
271797 TCAGCGACCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTTATTAAT
Found at i:271975 original size:21 final size:21
Alignment explanation
Indices: 271943--272061 Score: 118
Period size: 21 Copynumber: 5.7 Consensus size: 21
271933 GATGCACCTG
* *
271943 TCATCATTCAAGAGGTGCCTC
1 TCATCGTTCAAGAGGTCCCTC
271964 -CTATCGTTCAAGAGG-CCCATC
1 TC-ATCGTTCAAGAGGTCCC-TC
* *
271985 TCATTGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGTCCCTC
* *
272006 TCACCGTTCAAGAGG-CTCCTG
1 TCATCGTTCAAGAGGTC-CCTC
272027 TCATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGTCCCTC
* *
272048 CCACCGTTCAAGAG
1 TCATCGTTCAAGAG
272062 CCCGATTCAC
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
20 4 0.05
21 73 0.89
22 5 0.06
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGTCCCTC
Done.